U.S. patent application number 13/872006 was filed with the patent office on 2014-05-29 for fuel compositions comprising isoprene derivatives.
This patent application is currently assigned to DANISCO US INC.. The applicant listed for this patent is Danisco US Inc.. Invention is credited to Joseph C. MCAULIFFE, Sergey E. PARAMONOV, Karl J. SANFORD.
Application Number | 20140148623 13/872006 |
Document ID | / |
Family ID | 43356762 |
Filed Date | 2014-05-29 |
United States Patent
Application |
20140148623 |
Kind Code |
A1 |
MCAULIFFE; Joseph C. ; et
al. |
May 29, 2014 |
FUEL COMPOSITIONS COMPRISING ISOPRENE DERIVATIVES
Abstract
The invention provides for methods, compositions and systems
using bioisoprene derived from renewable carbon for production of a
variety of hydrocarbon fuels and fuel additives.
Inventors: |
MCAULIFFE; Joseph C.;
(Sunnyvale, CA) ; PARAMONOV; Sergey E.; (San
Francisco, CA) ; SANFORD; Karl J.; (Cupertino,
CA) |
|
Applicant: |
Name |
City |
State |
Country |
Type |
Danisco US Inc.; |
|
|
US |
|
|
Assignee: |
DANISCO US INC.
Palo Alto
CA
|
Family ID: |
43356762 |
Appl. No.: |
13/872006 |
Filed: |
April 26, 2013 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
|
|
12818090 |
Jun 17, 2010 |
8450549 |
|
|
13872006 |
|
|
|
|
61187959 |
Jun 17, 2009 |
|
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Current U.S.
Class: |
585/18 ; 422/644;
585/251; 585/255 |
Current CPC
Class: |
C07C 9/14 20130101; C10L
1/04 20130101 |
Class at
Publication: |
585/18 ; 585/255;
585/251; 422/644 |
International
Class: |
C10L 1/04 20060101
C10L001/04 |
Claims
1. A method for producing a fuel constituent from a bioisoprene
composition comprising chemically transforming a substantial
portion of the isoprene in the bioisoprene composition to
non-isoprene compounds by: (a) subjecting the bioisoprene
composition to heat or catalytic conditions suitable for isoprene
dimerization to produce an isoprene dimer and then catalytically
hydrogenating the isoprene dimer to form a saturated C10 fuel
constituent; or (b) (i) partially hydrogenating the bioisoprene
composition to produce an isoamylene, (ii) dimerizing the
isoamylene with a mono-olefin selected from the group consisting of
isoamylene, propylene and isobutene to form a dimate and (iii)
completely hydrogenating the dimate to produce a fuel
constituent.
2. The method of claim 1, wherein at least about 95% of isoprene in
the bioisoprene composition is converted to non-isoprene
compounds.
3. The method of claim 1, wherein the bioisoprene composition is
heated to about 150.degree. C. to about 250.degree. C. to produce
an unsaturated cyclic isoprene dimer and the unsaturated cyclic
isoprene dimer is hydrogenated catalytically to produce a saturated
cyclic isoprene dimer fuel constituent.
4. The method of claim 1, wherein the method comprises: (i)
contacting the bioisoprene composition with a catalyst for
catalyzing cyclo-dimerization of isoprene to produce an unsaturated
cyclic isoprene dimer and the unsaturated cyclic isoprene dimer is
hydrogenated catalytically to produce a saturated cyclic isoprene
dimer fuel constituent.
5. The method of claim 4, wherein the catalyst for catalyzing
cyclo-dimerization of isoprene comprising a catalyst selected from
the group consisting of a nickel catalyst, iron catalysts and
chromium catalysts.
6. The method of claim 1, wherein the step of partially
hydrogenating the bioisoprene composition comprises contacting the
bioisoprene composition with hydrogen gas and a catalyst for
catalyzing partial hydrogenation of isoprene.
7. The method of claim 6, wherein the catalyst for catalyzing
partial hydrogenation of isoprene comprises a palladium
catalyst.
8. The method of claim 1, wherein the step of dimerizing the
isoamylene with a mono-olefin comprises contacting the isoamylene
with the mono-olefin in the presence of a catalyst for catalyzing
dimerization of mono-olefin.
9. The method of claim 8, wherein the catalyst for catalyzing
dimerization of mono-olefin comprises an acid catalyst.
10. The method of claim 1, further comprising purifying the
isoprene from the bioisoprene composition prior to chemically
transforming the bioisoprene composition to a fuel constituent.
11. A system for producing a fuel constituent from a bioisoprene
composition, wherein a substantial portion of the isoprene in the
bioisoprene composition is chemically converted to non-isoprene
compounds, the system comprising a bioisoprene composition and: (a)
(i) one or more chemicals capable of dimerizing isoprene in the
bioisoprene composition or a source of heat capable of dimerizing
isoprene in the bioisoprene composition; and (ii) a catalyst
capable of hydrogenating the isoprene dimer to form a saturated C10
fuel constituent; or (b) (i) a chemical capable of partially
hydrogenating isoprene in the bioisoprene composition to produce an
isoamylene, (ii) a chemical capable of dimerizing the isoamylene
with mono-olefins selected from the group consisting of isoamylene,
propylene and isobutene to form a dimate and (iii) a chemical
capable of completely hydrogenating the dimate to produce a fuel
constituent.
12. The system of claim 11, wherein the bioisoprene composition
comprising greater than about 2 mg of isoprene and comprising
greater than or about 99.94% isoprene by weight compared to the
total weight of all C5 hydrocarbons in the composition.
13. The system of claim 11, wherein the one or more chemicals
capable of dimerizing isoprene comprises catalyst for catalyzing
cyclo-dimerization of isoprene comprising a catalyst selected from
the group consisting of ruthenium catalysts, nickel catalysts, iron
catalysts and chromium catalysts.
14. The system of claim 11, wherein the catalyst for hydrogenating
the unsaturated isoprene dimers comprises a catalyst selected from
the group consisting of palladium catalysts, nickel catalysts,
ruthenium catalysts and rhodium catalysts.
15. The system of claim 11, wherein the chemical capable of
partially hydrogenating isoprene comprises a palladium
catalyst.
16. The system of claim 11, wherein the chemical capable of
dimerizing the isoamylene with mono-olefins comprises an acid
catalyst.
17. A fuel composition comprising a fuel constituent produced by
the method of claim 1.
18. The fuel composition of claim 17, wherein the fuel composition
is substantially free of isoprene.
19. The fuel composition of claim 17, wherein the fuel composition
has .delta..sup.13C value which is greater than -22.Salinity. or
within the range of -32.Salinity. to -24.Salinity..
Description
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] This application is a continuation patent application of
U.S. patent application Ser. No. 12/818,090, filed Jun. 17, 2010,
which claims priority to U.S. Provisional Application No.
61/187,959, filed Jun. 17, 2009, the disclosures of which are
herein incorporated by reference in their entirety.
BACKGROUND OF THE INVENTION
[0002] The development of renewable transportation fuels is one of
the key challenges of the twenty-first century. The current market
is dominated by ethanol derived from yeast fermentation of sucrose
and starch, and to a lesser extent by biodiesel (fatty acid esters)
derived from triglycerides. Ethanol has limitations as a liquid
fuel with a lower energy density relative to hydrocarbons. In
addition, ethanol cannot be transported in conventional
infrastructure due to its affinity for water and corrosive nature.
Processes for the conversion of renewable carbon sources (biomass,
sugars, oils) to hydrocarbon fuels offer an attractive alternative
to bioethanol.
[0003] Isoprene (2-methyl-1,3-butadiene) is a key industrial
chemical used primarily for the production of synthetic rubber.
Currently isoprene is derived from petrochemical sources either
directly by cracking of naphtha and other light petroleum
fractions, or indirectly through chemical synthesis (See, for
examples, H. Pommer and A. Nurrenbach, Industrial Synthesis of
Terpene Compounds, Pure Appl. Chem., 1975, 43, 527-551; H. M. Weitz
and E. Loser, Isoprene, in Ullmann's Encyclopedia of Industrial
Chemistry, Seventh Edition, Electronic Release, Wiley-VCH Verlag
GMBH, Weinheim, 2005; and H. M. Lybarger, Isoprene in Kirk-Othmer
Encyclopedia of Chemical Technology, 4th ed., Wiley, New York
(1995), 14, 934-952.) The resulting crude isoprene streams are
typically subjected to extensive purification processes in order to
remove numerous chemically similar impurities, many of which can
interfere with subsequent transformation of isoprene to polymers
and other chemicals.
[0004] In contrast, isoprene derived from biological sources
contains very few hydrocarbon impurities and instead contains a
number of oxygenated compounds such as ethanol, acetaldehyde and
acetone. Many of these compounds can be easily removed by contact
with water or passage through alumina or other adsorbents.
[0005] Industry relies on petrochemical feedstocks for isoprene
production and extensive purification trains are needed before
isoprene can be converted to polymers and other chemicals. Cost
effective methods are desirable for converting biologically
produced isoprene to valuable chemical products taking advantage of
the high purity and/or the unique impurity profiles of
bioisoprene.
[0006] All patents, patent applications, documents, and articles
cited herein are herein incorporated by reference in their
entirety.
BRIEF SUMMARY OF THE INVENTION
[0007] Disclosed are methods and systems for producing fuel
constituents from highly pure isoprene and fuel compositions
produced from highly pure isoprene.
[0008] In one aspect, the invention provides a method for producing
a fuel constituent from a bioisoprene composition comprising
chemically transforming a substantial portion of the isoprene in
the bioisoprene composition to non-isoprene compounds. In one
embodiment, the bioisoprene composition is chemically transformed
by subjecting the bioisoprene composition to heat or catalytic
conditions suitable for isoprene dimerization to produce an
isoprene dimer and then catalytically hydrogenating the isoprene
dimer to form a saturated C10 fuel constituent. In another
embodiment, the bioisoprene composition is chemically transformed
by (i) partially hydrogenating the bioisoprene composition to
produce an isoamylene, (ii) dimerizing the isoamylene with a
mono-olefin selected from the group consisting of isoamylene,
propylene and isobutene to form a dimate and (iii) completely
hydrogenating the dimate to produce a fuel constituent. In some
embodiments, at least about 95% of isoprene in the bioisoprene
composition is converted to non-isoprene compounds during the
chemical transformation. In some embodiments, the bioisoprene
composition is heated to about 150.degree. C. to about 250.degree.
C. to produce an unsaturated cyclic isoprene dimer and the
unsaturated cyclic isoprene dimer is hydrogenated catalytically to
produce a saturated cyclic isoprene dimer fuel constituent. In some
embodiments, the method comprises: (i) contacting the bioisoprene
composition with a catalyst for catalyzing cyclo-dimerization of
isoprene to produce an unsaturated cyclic isoprene dimer and the
unsaturated cyclic isoprene dimer is hydrogenated catalytically to
produce a saturated cyclic isoprene dimer fuel constituent. In some
embodiments, the catalyst for catalyzing cyclo-dimerization of
isoprene comprising a catalyst selected from the group consisting
of a nickel catalyst, iron catalysts and chromium catalysts. In
some embodiments, the step of partially hydrogenating the
bioisoprene composition comprises contacting the bioisoprene
composition with hydrogen gas and a catalyst for catalyzing partial
hydrogenation of isoprene. In some embodiments, the catalyst for
catalyzing partial hydrogenation of isoprene comprises a palladium
catalyst. In some embodiments, the step of dimerizing the
isoamylene with a mono-olefin comprises contacting the isoamylene
with the mono-olefin in the presence of a catalyst for catalyzing
dimerization of mono-olefin. In some embodiments, the catalyst for
catalyzing dimerization of mono-olefin comprises an acid catalyst.
In some embodiments, the method further comprises purifying the
isoprene from the bioisoprene composition prior to chemically
transforming the bioisoprene composition to a fuel constituent.
[0009] In one aspect, the invention provides a system for producing
a fuel constituent from a bioisoprene composition, wherein a
substantial portion of the isoprene in the bioisoprene composition
is chemically converted to non-isoprene compounds, the system
comprising a bioisoprene composition and (a) (i) one or more
chemicals capable of dimerizing isoprene in the bioisoprene
composition or a source of heat capable of dimerizing isoprene in
the bioisoprene composition; and (ii) a catalyst capable of
hydrogenating the isoprene dimer to form a saturated C10 fuel
constituent; or (b) (i) a chemical capable of partially
hydrogenating isoprene in the bioisoprene composition to produce an
isoamylene, (ii) a chemical capable of dimerizing the isoamylene
with mono-olefins selected from the group consisting of isoamylene,
propylene and isobutene to form a dimate and (iii) a chemical
capable of completely hydrogenating the dimate to produce a fuel
constituent.
[0010] In some embodiments of the system, the bioisoprene
composition comprising greater than about 2 mg of isoprene and
comprising greater than or about 99.94% isoprene by weight compared
to the total weight of all C5 hydrocarbons in the composition. In
some embodiments of the system, the one or more chemicals capable
of dimerizing isoprene comprises catalyst for catalyzing
cyclo-dimerization of isoprene comprising a catalyst selected from
the group consisting of ruthenium catalysts, nickel catalysts, iron
catalysts and chromium catalysts. In some embodiments of the
system, the catalyst for hydrogenating the unsaturated isoprene
dimers comprises a catalyst selected from the group consisting of
palladium catalysts, nickel catalysts, ruthenium catalysts and
rhodium catalysts. In some embodiments of the system, the chemical
capable of partially hydrogenating isoprene comprises a palladium
catalyst. In some embodiments of the system, the chemical capable
of dimerizing the isoamylene with mono-olefins comprises an acid
catalyst.
[0011] In one aspect, the invention provides a fuel composition
comprising a fuel constituent produced by the methods described
herein. In some embodiments, the fuel composition is substantially
free of isoprene. In some embodiments, the fuel composition has
.delta..sup.13C value which is greater than -22.Salinity. or within
the range of -32.Salinity. to -24.Salinity..
[0012] In some aspects, the invention provides a system for
producing a fuel constituent from isoprene comprising: (a) a
commercially beneficial amount of highly pure isoprene; and (b) a
fuel constituent produced from at least a portion of the highly
pure isoprene; wherein at least a portion of the commercially
beneficial amount of highly pure isoprene undergoes a chemical
transformation.
[0013] In some embodiments of the system, the commercially
beneficial amount of highly pure isoprene comprises greater than
about 2 mg of isoprene and comprising greater than or about 99.94%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the composition. In some embodiments, the
commercially beneficial amount of highly pure isoprene comprises
greater than about 2 mg of isoprene and comprising one or more
compounds selected from the group consisting of ethanol, acetone,
C5 prenyl alcohols, and isoprenoid compounds with 10 or more carbon
atoms. In some embodiments, the commercially beneficial amount of
highly pure isoprene comprises greater than about 2 mg of isoprene
and comprising one or more second compounds selected from the group
consisting of ethanol, acetone, methanol, acetaldehyde,
methacrolein, methyl vinyl ketone, 2-methyl-2-vinyloxirane, cis-
and trans-3-methyl-1,3-pentadiene, a C5 prenyl alcohol,
2-heptanone, 6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, methanethiol, methyl acetate,
1-propanol, diacetyl, 2-butanone, 2-methyl-3-buten-2-ol, ethyl
acetate, 2-methyl-1-propanol, 3-methyl-1-butanal,
3-methyl-2-butanone, 1-butanol, 2-pentanone, 3-methyl-1-butanol,
ethyl isobutyrate, 3-methyl-2-butenal, butyl acetate, 3-methylbutyl
acetate, 3-methyl-3-buten-1-yl acetate, 3-methyl-2-buten-1-yl
acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate, limonene, geraniol
(trans-3,7-dimethyl-2,6-octadien-1-ol), citronellol
(3,7-dimethyl-6-octen-1-ol), (E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine;
wherein the amount of the second compound relative to the amount of
the isoprene is greater than or about 0.01% (w/w). In some
embodiments, the commercially beneficial amount of highly pure
isoprene comprises greater than about 2 mg of isoprene and
comprising less than or about 0.5 .mu.g/L per compound for any
compound in the composition that inhibits the polymerization of
isoprene. In some preferred embodiments, the commercially
beneficial amount of highly pure isoprene is produced by a
biological process.
[0014] In some embodiments of the system, the fuel constituent
comprises one or more compounds selected from the group consisting
of cyclic isoprene dimers and trimers, linear isoprene oligomers,
aromatic and alicyclic isoprene derivatives, and oxygenated
isoprene derivatives. In some embodiments, the oxygenated isoprene
derivatives are compounds selected from the group consisting of
alcohols, ketones, esters and ethers derived from isoprene.
[0015] In some embodiments, the fuel constituent comprises cyclic
isoprene dimers and the chemical transformation comprises a
dimerization reaction of isoprene. In some embodiments, the
dimerization reaction is carried out by heating the commercially
beneficial amount of highly pure isoprene. In some embodiments, the
dimerization reaction of isoprene produces a product comprising
unsaturated isoprene dimers and the chemical transformation further
comprises a hydrogenation reaction of the unsaturated isoprene
dimers. In some embodiments, the system further comprises a
catalyst for catalyzing the hydrogenation reaction of the
unsaturated isoprene dimers. In some embodiments, the catalyst for
catalyzing the hydrogenation reaction of the unsaturated isoprene
dimers comprising a catalyst selected from the group consisting of
palladium catalysts, nickel catalysts, ruthenium catalysts and
rhodium catalysts.
[0016] In some embodiments, the dimerization reaction is carried
out by contacting the commercially beneficial amount of highly pure
isoprene with a catalyst for catalyzing cyclo-dimerization of
isoprene. In some embodiments, the catalyst for catalyzing
cyclo-dimerization of isoprene comprising a catalyst selected from
the group consisting of ruthenium catalysts, nickel catalysts, iron
catalysts and chromium catalysts. In some embodiments, the catalyst
for catalyzing cyclo-dimerization of isoprene is a nickel catalyst
and the fuel constituent comprising one or more eight-membered ring
dimers of isoprene.
[0017] In some embodiments, the fuel constituent comprises linear
and/or cyclic trimers of isoprene and the chemical transformation
comprises catalytic trimerization of isoprene.
[0018] In one aspect, the invention provides a method for producing
a fuel constituent from isoprene comprising: (a) obtaining a
commercially beneficial amount of highly pure isoprene; and (b)
chemically transforming at least a portion of the commercially
beneficial amount of highly pure isoprene to a fuel constituent. In
some embodiments, the commercially beneficial amount of highly pure
isoprene comprises bioisoprene.
[0019] In some embodiments, the commercially beneficial amount of
highly pure isoprene is obtained by the steps comprising: (i)
culturing cells comprising a heterologous nucleic acid encoding an
isoprene synthase polypeptide under suitable culture conditions for
the production of isoprene, wherein the cells (1) produce greater
than about 400 nmole/g.sub.wcm/hr of isoprene, (2) convert more
than about 0.002 molar percent of the carbon that the cells consume
from a cell culture medium into isoprene, or (3) have an average
volumetric productivity of isoprene greater than about 0.1
mg/L.sub.broth/hr of isoprene, and (ii) producing isoprene. In some
embodiments, the cells further comprise a heterologous nucleic acid
encoding an isoprene synthase polypeptide or an MVA pathway
polypeptide.
[0020] In some embodiments of the methods described herein,
chemically transforming at least a portion of the commercially
beneficial amount of highly pure isoprene to a fuel constituent
comprises: (i) heating the commercially beneficial amount of highly
pure isoprene to about 150.degree. C. to about 250.degree. C.; (ii)
converting at least a portion of the commercially beneficial amount
of highly pure isoprene to unsaturated cyclic isoprene dimers;
(iii) hydrogenating the unsaturated cyclic isoprene dimers to
produce saturated cyclic isoprene dimers; and (iv) producing the
fuel constituent. In some embodiments, at least about 20% to about
100% of isoprene in the commercially beneficial amount of highly
pure isoprene is converted to unsaturated cyclic isoprene
dimers.
[0021] In some embodiments of the method, chemically transforming
at least a portion of the commercially beneficial amount of highly
pure isoprene to a fuel constituent comprises: (i) contacting the
commercially beneficial amount of highly pure isoprene with a
catalyst for catalyzing cyclo-dimerization of isoprene, (ii)
converting at least a portion of the commercially beneficial amount
of highly pure isoprene to cyclic isoprene dimers; and (iii)
producing the fuel constituent.
[0022] In some embodiments of the method, chemically transforming
at least a portion of the commercially beneficial amount of highly
pure isoprene to a fuel constituent comprises: (i) contacting the
commercially beneficial amount of highly pure isoprene with a
catalyst for catalyzing cyclo-dimerization of isoprene, (ii)
converting at least a portion of the commercially beneficial amount
of highly pure isoprene to unsaturated cyclic isoprene dimers;
(iii) hydrogenating the unsaturated cyclic isoprene dimers to
produce saturated cyclic isoprene dimers; and (iv) producing the
fuel constituent. In some embodiments of the method, the catalyst
for catalyzing cyclo-dimerization of isoprene comprising a catalyst
selected from the group consisting of a nickel catalyst, iron
catalysts and chromium catalysts.
[0023] In some embodiments of the method, chemically transforming
at least a portion of the commercially beneficial amount of highly
pure isoprene to a fuel constituent comprises: (i) contacting the
highly pure isoprene composition with a catalyst system; (ii)
converting at least a portion of the starting isoprene composition
to unsaturated isoprene dimers and/or trimers; and (iii)
hydrogenating the unsaturated dimers and/or trimers to produce
saturated C10 and/or C15 hydrocarbons.
[0024] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) converting at least a portion of
the starting isoprene composition to oxygenated isoprene
derivatives; and optionally (c) hydrogenating any unsaturated
oxygenated isoprene derivatives to produce saturated oxygenates. In
some embodiments, the oxygenated isoprene derivatives are compounds
selected from the group consisting of alcohols, ketones, esters and
ethers derived from isoprene.
[0025] In some embodiments, any of the methods described herein
further comprises purifying the commercially beneficial amount of
highly pure isoprene prior to chemically transforming at least a
portion of the commercially beneficial amount of highly pure
isoprene to a fuel constituent.
[0026] In one aspect, provided is a continuous process for
producing a fuel constituent from isoprene comprising: (a)
continuously producing a commercially beneficial amount of highly
pure isoprene; and (b) continuously transforming chemically at
least a portion of the commercially beneficial amount of highly
pure isoprene to a fuel constituent. In some embodiments, the
commercially beneficial amount of highly pure isoprene comprising a
gas phase comprising isoprene. In some embodiments, the method
further comprises passing the gas phase comprising isoprene to a
reactor for chemically transforming at least a portion of the
commercially beneficial amount of highly pure isoprene to a fuel
constituent. In a preferred embodiment, the commercially beneficial
amount of highly pure isoprene comprises bioisoprene.
[0027] Also provided is a fuel composition comprising a fuel
constituent produced by any of the methods described herein. In
some embodiments, the fuel constituent comprises less than or about
0.5 .mu.g/L a product from a C5 hydrocarbon other than isoprene
after undergoing the steps according to the methods described
herein. In some embodiments, the fuel constituent comprises one or
more product from one or more compound selected from the group
consisting of ethanol, acetone, methanol, acetaldehyde,
methacrolein, methyl vinyl ketone, 2-methyl-2-vinyloxirane, cis-
and trans-3-methyl-1,3-pentadiene, a C5 prenyl alcohol,
2-heptanone, 6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, methanethiol, methyl acetate,
1-propanol, diacetyl, 2-butanone, 2-methyl-3-buten-2-ol, ethyl
acetate, 2-methyl-1-propanol, 3-methyl-1-butanal,
3-methyl-2-butanone, 1-butanol, 2-pentanone, 3-methyl-1-butanol,
ethyl isobutyrate, 3-methyl-2-butenal, butyl acetate, 3-methylbutyl
acetate, 3-methyl-3-buten-1-yl acetate, 3-methyl-2-buten-1-yl
acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate, limonene, geraniol
(trans-3,7-dimethyl-2,6-octadien-1-ol), citronellol
(3,7-dimethyl-6-octen-1-ol), (E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene and 2,3-cycloheptenolpyridine
after undergoing the steps according to the methods described
herein.
[0028] In some embodiments, the fuel composition comprises a fuel
composition having .delta..sup.13C value which is greater than
-22.Salinity.. In some embodiments, the fuel composition has
.delta..sup.13C value which is within the range of -22.Salinity. to
-10.Salinity. or -34.Salinity. to -24.Salinity.. In some
embodiments, the fuel composition has f.sub.M value which is
greater than 0.9. Also provided is a blend of any of the fuel
compositions described herein with a petroleum based fuel in the
amount of from about 1% to about 95% by weight or volume, based on
the total weight or volume of the total fuel composition.
BRIEF DESCRIPTION OF THE DRAWINGS
[0029] FIG. 1 is the nucleotide sequence of a kudzu isoprene
synthase gene codon-optimized for expression in E. coli (SEQ ID
NO:1). The atg start codon is in italics, the stop codon is in bold
and the added PstI site is underlined.
[0030] FIG. 2 is a map of pTrcKudzu.
[0031] FIGS. 3A-C are the nucleotide sequence of pTrcKudzu (SEQ ID
NO:2). The RBS is underlined, the kudzu isoprene synthase start
codon is in bold capitol letters and the stop codon is in bold,
capital letters. The vector backbone is pTrcHis2B.
[0032] FIG. 4 is a map of pETNHisKudzu.
[0033] FIGS. 5A-C are the nucleotide sequence of pETNHisKudzu (SEQ
ID NO:3).
[0034] FIG. 6 is a map of pCL-lac-Kudzu.
[0035] FIGS. 7A-C are the nucleotide sequence of pCL-lac-Kudzu (SEQ
ID NO:4).
[0036] FIG. 8A is a graph showing the production of isoprene in E.
coli BL21 cells with no vector.
[0037] FIG. 8B is a graph showing the production of isoprene in E.
coli BL21 cells with pCL-lac-Kudzu
[0038] FIG. 8C is a graph showing the production of isoprene in E.
coli BL21 cells with pTrcKudzu.
[0039] FIG. 8D is a graph showing the production of isoprene in E.
coli BL21 cells with pETN-HisKudzu.
[0040] FIG. 9A is a graph showing OD over time of fermentation of
E. coli BL21/pTrcKudzu in a 14 liter fed batch fermentation.
[0041] FIG. 9B is a graph showing isoprene production over time of
fermentation of E. coli BL21/pTrcKudzu in a 14 liter fed batch
fermentation.
[0042] FIG. 10A is a graph showing the production of isoprene in
Panteoa citrea. Control cells without recombinant kudzu isoprene
synthase. Grey diamonds represent isoprene synthesis, black squares
represent OD.sub.600.
[0043] FIG. 10B is a graph showing the production of isoprene in
Panteoa citrea expressing pCL-lac Kudzu. Grey diamonds represent
isoprene synthesis, black squares represent OD.sub.600.
[0044] FIG. 10C is a graph showing the production of isoprene in
Panteoa citrea expressing pTrcKudzu. Grey diamonds represent
isoprene synthesis, black squares represent OD.sub.600.
[0045] FIG. 11 is a graph showing the production of isoprene in
Bacillus subtilis expressing recombinant isoprene synthase.
BG3594comK is a B. subtilis strain without plasmid (native isoprene
production). CF443 is B. subtilis strain BG3594comK with pBSKudzu
(recombinant isoprene production). IS on the y-axis indicates
isoprene.
[0046] FIGS. 12A-C are the nucleotide sequence of pBS Kudzu #2 (SEQ
ID NO:5).
[0047] FIG. 13 is the nucleotide sequence of kudzu isoprene
synthase codon-optimized for expression in Yarrowia (SEQ ID
NO:6).
[0048] FIG. 14 is a map of pTrex3g comprising a kudzu isoprene
synthase gene codon-optimized for expression in Yarrowia.
[0049] FIGS. 15A-C are the nucleotide sequence of vector
pSPZ1(MAP29Spb) (SEQ ID NO:7).
[0050] FIG. 16 is the nucleotide sequence of the synthetic kudzu
(Pueraria montana) isoprene gene codon-optimized for expression in
Yarrowia (SEQ ID NO:8).
[0051] FIG. 17 is the nucleotide sequence of the synthetic hybrid
poplar (Populus alba.times.Populus tremula) isoprene synthase gene
(SEQ ID NO:9). The ATG start codon is in bold and the stop codon is
underlined.
[0052] FIG. 18A (FIGS. 18A1 and 18A2) shows a schematic outlining
construction of vectors pYLA 1, pYL1 and pYL2 (SEQ ID NO:75, 73,
72, 71, 70, 69).
[0053] FIG. 18B shows a schematic outlining construction of the
vector pYLA(POP1) (SEQ ID NO:67, 68).
[0054] FIG. 18C shows a schematic outlining construction of the
vector pYLA(KZ1)
[0055] FIG. 18D shows a schematic outlining construction of the
vector pYLI(KZ1) (SEQ ID NO:65, 66)
[0056] FIG. 18E shows a schematic outlining construction of the
vector pYLI(MAP29)
[0057] FIG. 18F shows a schematic outlining construction of the
vector pYLA(MAP29)
[0058] FIG. 19A shows the MVA and DXP metabolic pathways for
isoprene (based on F. Bouvier et al., Progress in Lipid Res. 44:
357-429, 2005). The following description includes alternative
names for each polypeptide in the pathways and a reference that
discloses an assay for measuring the activity of the indicated
polypeptide (each of these references are each hereby incorporated
by reference in their entireties, particularly with respect to
assays for polypeptide activity for polypeptides in the MVA and DXP
pathways). Mevalonate Pathway: AACT; Acetyl-CoA acetyltransferase,
MvaE, EC 2.3.1.9. Assay: J. Bacteriol., 184: 2116-2122, 2002; HMGS;
Hydroxymethylglutaryl-CoA synthase, MvaS, EC 2.3.3.10. Assay: J.
Bacteriol., 184: 4065-4070, 2002; HMGR;
3-Hydroxy-3-methylglutaryl-CoA reductase, MvaE, EC 1.1.1.34. Assay:
J. Bacteriol., 184: 2116-2122, 2002; MVK; Mevalonate kinase, ERG12,
EC 2.7.1.36. Assay: Curr Genet. 19:9-14, 1991. PMK;
Phosphomevalonate kinase, ERGS, EC 2.7.4.2, Assay: Mol Cell Biol.,
11:620-631, 1991; DPMDC; Diphosphomevalonate decarboxylase, MVD1,
EC 4.1.1.33. Assay: Biochemistry, 33:13355-13362, 1994; IDI;
Isopentenyl-diphosphate delta-isomerase, IDI1, EC 5.3.3.2. Assay:
J. Biol. Chem. 264:19169-19175, 1989. DXP Pathway: DXS;
1-Deoxyxylulose-5-phosphate synthase, dxs, EC 2.2.1.7. Assay: PNAS,
94:12857-62, 1997; DXR; 1-Deoxy-D-xylulose 5-phosphate
reductoisomerase, dxr, EC 2.2.1.7. Assay: Eur. J. Biochem.
269:4446-4457, 2002; MCT; 4-Diphosphocytidyl-2C-methyl-D-erythritol
synthase, IspD, EC 2.7.7.60. Assay: PNAS, 97: 6451-6456, 2000; CMK;
4-Diphosphocytidyl-2-C-methyl-D-erythritol kinase, IspE, EC
2.7.1.148. Assay: PNAS, 97:1062-1067, 2000; MCS;
2C-Methyl-D-erythritol 2,4-cyclodiphosphate synthase, IspF, EC
4.6.1.12. Assay: PNAS, 96:11758-11763, 1999; HDS;
1-Hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase, ispG, EC
1.17.4.3. Assay: J. Org. Chem., 70:9168-9174, 2005; HDR;
1-Hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase, IspH, EC
1.17.1.2. Assay: JACS, 126:12847-12855, 2004.
[0059] FIG. 19B illustrates the classical and modified MVA
pathways. 1, acetyl-CoA acetyltransferase (AACT); 2, HMG-CoA
synthase (HMGS); 3, HMG-CoA reductase (HMGR); 4, mevalonate kinase
(MVK); 5, phosphomevalonate kinase (PMK); 6, diphosphomevalonate
decarboxylase (MVD or DPMDC); 7, isopentenyl diphosphate isomerase
(IDI); 8, phosphomevalonate decarboxylase (PMDC); 9, isopentenyl
phosphate kinase (IPK). The classical MVA pathway proceeds from
reaction 1 through reaction 7 via reactions 5 and 6, while a
modified MVA pathway goes through reactions 8 and 9. P and PP in
the structural formula are phosphate and pyrophosphate,
respectively. This figure was taken from Koga and Morii,
Microbiology and Mol. Biology Reviews, 71:97-120, 2007, which is
incorporated by reference in its entirety, particular with respect
to nucleic acids and polypeptides of the modified MVA pathway. The
modified MVA pathway is present, for example, in some archaeal
organisms, such as Methanosarcina mazei.
[0060] FIG. 20 (FIGS. 20A and 20B) shows graphs representing
results of the GC-MS analysis of isoprene production by recombinant
Y. lipolytica strains without (left) or with (right) a kudzu
isoprene synthase gene. The arrows indicate the elution time of the
authentic isoprene standard.
[0061] FIG. 21 is a map of pTrcKudzu yIDI DXS Kan.
[0062] FIGS. 22A-D are the nucleotide sequence of pTrcKudzu yIDI
DXS Kan (SEQ ID NO:10).
[0063] FIG. 23A is a graph showing production of isoprene from
glucose in BL21/pTrcKudzukan. Time 0 is the time of induction with
IPTG (400 .mu.mol). The x-axis is time after induction; the y-axis
is OD.sub.600 and the y2-axis is total productivity of isoprene
(.mu.g/L headspace or specific productivity (.mu.g/L headspace/OD).
Diamonds represent OD.sub.600, circles represent total isoprene
productivity (.mu.g/L) and squares represent specific productivity
of isoprene (.mu.g/L/OD).
[0064] FIG. 23B is a graph showing production of isoprene from
glucose in BL21/pTrcKudzu yIDI kan. Time 0 is the time of induction
with IPTG (400 .mu.mol). The x-axis is time after induction; the
y-axis is OD.sub.600 and the y2-axis is total productivity of
isoprene (.mu.g/L headspace or specific productivity (.mu.g/L
headspace/OD). Diamonds represent OD.sub.600, circles represent
total isoprene productivity (.mu.g/L) and squares represent
specific productivity of isoprene (.mu.g/L/OD).
[0065] FIG. 23C is a graph showing production of isoprene from
glucose in BL21/pTrcKudzu DXS kan. Time 0 is the time of induction
with IPTG (400 .mu.mol). The x-axis is time after induction; the
y-axis is OD.sub.600 and the y2-axis is total productivity of
isoprene (.mu.g/L headspace or specific productivity (.mu.g/L
headspace/OD). Diamonds represent OD.sub.600, circles represent
total isoprene productivity (.mu.g/L) and squares represent
specific productivity of isoprene (.mu.g/L/OD).
[0066] FIG. 23D is a graph showing production of isoprene from
glucose in BL21/pTrcKudzu yIDI DXS kan. Time 0 is the time of
induction with IPTG (400 .mu.mol). The x-axis is time after
induction; the y-axis is OD.sub.600 and the y2-axis is total
productivity of isoprene (.mu.g/L headspace or specific
productivity (.mu.g/L headspace/OD). Diamonds represent OD.sub.600,
circles represent total isoprene productivity (.mu.g/L) and squares
represent specific productivity of isoprene (.mu.g/L/OD).
[0067] FIG. 23E is a graph showing production of isoprene from
glucose in BL21/pCL PtrcKudzu. Time 0 is the time of induction with
IPTG (400 .mu.mol). The x-axis is time after induction; the y-axis
is OD.sub.600 and the y2-axis is total productivity of isoprene
(.mu.g/L headspace or specific productivity (.mu.g/L headspace/OD).
Diamonds represent OD.sub.600, circles represent total isoprene
productivity (.mu.g/L) and squares represent specific productivity
of isoprene (.mu.g/L/OD).
[0068] FIG. 23F is a graph showing production of isoprene from
glucose in BL21/pCL PtrcKudzu yIDI. Time 0 is the time of induction
with IPTG (400 .mu.mol). The x-axis is time after induction; the
y-axis is OD.sub.600 and the y2-axis is total productivity of
isoprene (.mu.g/L headspace or specific productivity (.mu.g/L
headspace/OD). Diamonds represent OD.sub.600, circles represent
total isoprene productivity (.mu.g/L) and squares represent
specific productivity of isoprene (.mu.g/L/OD).
[0069] FIG. 23G is a graph showing production of isoprene from
glucose in BL21/pCL PtrcKudzu DXS. Time 0 is the time of induction
with IPTG (400 .mu.mol). The x-axis is time after induction; the
y-axis is OD.sub.600 and the y2-axis is total productivity of
isoprene (.mu.g/L headspace or specific productivity (.mu.g/L
headspace/OD). Diamonds represent OD.sub.600, circles represent
total isoprene productivity (.mu.g/L) and squares represent
specific productivity of isoprene (.mu.g/L/OD).
[0070] FIG. 23H is a graph showing production of isoprene from
glucose in BL21/pTrcKudzuIDIDXSkan. The arrow indicates the time of
induction with IPTG (400 .mu.mol). The x-axis is time after
induction; the y-axis is OD.sub.600 and the y2-axis is total
productivity of isoprene (.mu.g/L headspace or specific
productivity (.mu.g/L headspace/OD). Black diamonds represent
OD.sub.600, black triangles represent isoprene productivity
(.mu.g/L) and white squares represent specific productivity of
isoprene (.mu.g/L/OD).
[0071] FIG. 24 is a map of pTrcKKDyIkIS kan.
[0072] FIGS. 25A-D are a nucleotide sequence of pTrcKKDyIkIS kan
(SEQ ID NO:11).
[0073] FIG. 26 is a map of pCL PtrcUpperPathway.
[0074] FIGS. 27A-27D is a nucleotide sequence of pCL
PtrcUpperPathway (SEQ ID NO:12).
[0075] FIG. 28 shows a map of the cassette containing the lower MVA
pathway and yeast idi for integration into the B. subtilis
chromosome at the nprE locus. nprE upstream/downstream indicates 1
kb each of sequence from the nprE locus for integration. aprE
promoter (alkaline serine protease promoter) indicates the promoter
(-35, -10, +1 transcription start site, RBS) of the aprE gene. MVK1
indicates the yeast mevalonate kinase gene. RBS-PMK indicates the
yeast phosphomevalonate kinase gene with a Bacillus RBS upstream of
the start site. RBS-MPD indicates the yeast diphosphomevalonate
decarboxylase gene with a Bacillus RBS upstream of the start site.
RBS-IDI indicates the yeast idi gene with a Bacillus RBS upstream
of the start site. Terminator indicates the terminator alkaline
serine protease transcription terminator from B. amyliquefaciens.
SpecR indicates the spectinomycin resistance marker. "nprE upstream
repeat for amp." indicates a direct repeat of the upstream region
used for amplification.
[0076] FIGS. 29A-D are a nucleotide sequence of cassette containing
the lower MVA pathway and yeast idi for integration into the B.
subtilis chromosome at the nprE locus (SEQ ID NO:13).
[0077] FIG. 30 is a map of p9796-poplar.
[0078] FIGS. 31A-B are a nucleotide sequence of p9796-poplar (SEQ
ID NO:14).
[0079] FIG. 32 is a map of pTrcPoplar.
[0080] FIGS. 33A-C are a nucleotide sequence of pTrcPoplar (SEQ ID
NO:15).
[0081] FIG. 34 is a map of pTrcKudzu yIDI Kan.
[0082] FIGS. 35A-C are a nucleotide sequence of pTrcKudzu yIDI Kan
(SEQ ID NO:16).
[0083] FIG. 36 is a map of pTrcKudzuDXS Kan.
[0084] FIGS. 37A-C are a nucleotide sequence of pTrcKudzuDXS Kan
(SEQ ID NO:17).
[0085] FIG. 38 is a map of pCL PtrcKudzu.
[0086] FIGS. 39A-C are a nucleotide sequence of pCL PtrcKudzu (SEQ
ID NO:18).
[0087] FIG. 40 is a map of pCL PtrcKudzu A3.
[0088] FIGS. 41A-C are a nucleotide sequence of pCL PtrcKudzu A3
(SEQ ID NO:19).
[0089] FIG. 42 is a map of pCL PtrcKudzu yIDI.
[0090] FIGS. 43A-C are a nucleotide sequence of pCL PtrcKudzu yIDI
(SEQ ID NO:20).
[0091] FIG. 44 is a map of pCL PtrcKudzu DXS.
[0092] FIGS. 45A-D are a nucleotide sequence of pCL PtrcKudzu DXS
(SEQ ID NO:21).
[0093] FIGS. 46A-E show graphs representing isoprene production
from biomass feedstocks. Panel A shows isoprene production from
corn stover, Panel B shows isoprene production from bagasse, Panel
C shows isoprene production from softwood pulp, Panel D shows
isoprene production from glucose, and Panel E shows isoprene
production from cells with no additional feedstock. Grey squares
represent OD.sub.600 measurements of the cultures at the indicated
times post-inoculation and black triangles represent isoprene
production at the indicated times post-inoculation.
[0094] FIG. 47A shows a graph representing isoprene production by
BL21 (.lamda.DE3) pTrcKudzu yIDI DXS (kan) in a culture with no
glucose added. Squares represent OD.sub.600, and triangles
represent isoprene produced (.mu.g/ml).
[0095] FIG. 47B shows a graph representing isoprene production from
1% glucose feedstock invert sugar by BL21 (.lamda.DE3) pTrcKudzu
yIDI DXS (kan). Squares represent OD.sub.600, and triangles
represent isoprene produced (.mu.g/ml).
[0096] FIG. 47C shows a graph representing isoprene production from
1% invert sugar feedstock by BL21 (.lamda.DE3) pTrcKudzu yIDI DXS
(kan). Squares represent OD.sub.600, and triangles represent
isoprene produced (.mu.g/ml).
[0097] FIG. 47D shows a graph representing isoprene production from
1% AFEX corn stover feedstock by BL21 (.lamda.DE3) pTrcKudzu yIDI
DXS (kan). Squares represent OD.sub.600, and triangles represent
isoprene produced (.mu.g/ml).
[0098] FIGS. 48A-C show graphs demonstrating the effect of yeast
extract of isoprene production. Panel A shows the time course of
optical density within fermentors fed with varying amounts of yeast
extract. Panel B shows the time course of isoprene titer within
fermentors fed with varying amounts of yeast extract. The titer is
defined as the amount of isoprene produced per liter of
fermentation broth. Panel C shows the effect of yeast extract on
isoprene production in E. coli grown in fed-batch culture.
[0099] FIGS. 49A-C show graphs demonstrating isoprene production
from a 500 L bioreactor with E. coli cells containing the
pTrcKudzu+yIDI+DXS plasmid. Panel A shows the time course of
optical density within the 500-L bioreactor fed with glucose and
yeast extract. Panel B shows the time course of isoprene titer
within the 500-L bioreactor fed with glucose and yeast extract. The
titer is defined as the amount of isoprene produced per liter of
fermentation broth. Panel C shows the time course of total isoprene
produced from the 500-L bioreactor fed with glucose and yeast
extract.
[0100] FIG. 50 is a map of pJMupperpathway2.
[0101] FIGS. 51A-C are the nucleotide sequence of pJMupperpathway2
(SEQ ID NO:22).
[0102] FIG. 52 is a map of pBS Kudzu #2.
[0103] FIG. 53A is a graph showing growth during fermentation time
of Bacillus expressing recombinant kudzu isoprene synthase in 14
liter fed batch fermentation. Black diamonds represent a control
strain (BG3594comK) without recombinant isoprene synthase (native
isoprene production) and grey triangles represent CF443, Bacillus
strain BG3594comK with pBSKudzu (recombinant isoprene
production).
[0104] FIG. 53B is a graph showing isoprene production during
fermentation time of Bacillus expressing recombinant kudzu isoprene
synthase in 14 liter fed batch fermentation. Black diamonds
represent a control strain (BG3594comK) without recombinant
isoprene synthase (native isoprene production) and grey triangles
represent CF443, Bacillus strain BG3594comK with pBSKudzu
(recombinant isoprene production).
[0105] FIG. 54 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0106] FIG. 55 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0107] FIG. 56 is a time course of total isoprene produced from the
15-L bioreactor fed with glucose.
[0108] FIG. 57 is a time course of optical density within the 15-L
bioreactor fed with glycerol.
[0109] FIG. 58 is a time course of isoprene titer within the 15-L
bioreactor fed with glycerol. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0110] FIG. 59 is a time course of total isoprene produced from the
15-L bioreactor fed with glycerol.
[0111] FIGS. 60A-60C are the time courses of optical density,
mevalonic acid titer, and specific productivity within the 150-L
bioreactor fed with glucose.
[0112] FIGS. 61A-61C are the time courses of optical density,
mevalonic acid titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0113] FIGS. 62A-62C are the time courses of optical density,
mevalonic acid titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0114] FIG. 63A-63C are the time courses of optical density,
isoprene titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0115] FIGS. 64A-64C are the time courses of optical density,
isoprene titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0116] FIGS. 65A-65C are the time courses of optical density,
isoprene titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0117] FIGS. 66A-66C are the time courses of optical density,
isoprene titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0118] FIG. 67A-67C are the time courses of optical density,
isoprene titer, and specific productivity within the 15-L
bioreactor fed with glucose.
[0119] FIG. 68 is a graph of the calculated adiabatic flame
temperatures for Series A as a function of fuel concentration for
various oxygen levels. The figure legend lists the curves in the
order in which they appear in the graph. For example, the first
entry in the figure legend (isoprene in air at 40.degree. C.)
corresponds to the highest curve in the graph.
[0120] FIG. 69 is a graph of the calculated adiabatic flame
temperatures for Series B as a function of fuel concentration for
various oxygen levels with 4% water. The figure legend lists the
curves in the order in which they appear in the graph.
[0121] FIG. 70 is a graph of the calculated adiabatic flame
temperatures for Series C as a function of fuel concentration for
various oxygen levels with 5% CO.sub.2. The figure legend lists the
curves in the order in which they appear in the graph.
[0122] FIG. 71 is a graph of the calculated adiabatic flame
temperatures for Series D as a function of fuel concentration for
various oxygen levels with 10% CO.sub.2. The figure legend lists
the curves in the order in which they appear in the graph.
[0123] FIG. 72 is a graph of the calculated adiabatic flame
temperatures for Series E as a function of fuel concentration for
various oxygen levels with 15% CO.sub.2. The figure legend lists
the curves in the order in which they appear in the graph.
[0124] FIG. 73 is a graph of the calculated adiabatic flame
temperatures for Series F as a function of fuel concentration for
various oxygen levels with 20% CO.sub.2. The figure legend lists
the curves in the order in which they appear in the graph.
[0125] FIG. 74 is a graph of the calculated adiabatic flame
temperatures for Series G as a function of fuel concentration for
various oxygen levels with 30% CO.sub.2. The figure legend lists
the curves in the order in which they appear in the graph.
[0126] FIG. 75A is a table of the conversion of the CAFT Model
results from weight percent to volume percent for series A.
[0127] FIG. 75B is a graph of the flammability results from the
CAFT model for Series A in FIG. 68 plotted as volume percent.
[0128] FIG. 76A is a table of the conversion of the CAFT Model
results from weight percent to volume percent for series B.
[0129] FIG. 76B is a graph of the flammability results from the
CAFT model for Series B in FIG. 69 plotted as volume percent.
[0130] FIG. 77 is a figure depicting the flammability test
vessel.
[0131] FIG. 78A is a graph of the flammability Curve for Test
Series 1: 0% Steam, 0 psig, and 40.degree. C.
[0132] FIG. 78B is a table summarizing the explosion and
non-explosion data points for Test Series 1.
[0133] FIG. 78C is a graph of the flammability curve for Test
Series 1 compared with the CAFT Model.
[0134] FIG. 79A is a graph of the flammability curve for Test
Series 2: 4% Steam, 0 psig, and 40.degree. C.
[0135] FIG. 79B is a table summarizing the explosion and
non-explosion data points for Test Series 2.
[0136] FIG. 79C is a graph of the flammability curve for Test
Series 2 compared with the CAFT Model.
[0137] FIGS. 80A-B are a table of the detailed experimental
conditions and results for Test Series 1.
[0138] FIG. 81 is a table of the detailed experimental conditions
and results for Test Series 2.
[0139] FIG. 82 is a graph of the calculated adiabatic flame
temperature plotted as a function of fuel concentration for various
nitrogen/oxygen ratios at 3 atmospheres of pressure.
[0140] FIG. 83 is a graph of the calculated adiabatic flame
temperature plotted as a function of fuel concentration for various
nitrogen/oxygen ratios at 1 atmosphere of pressure.
[0141] FIG. 84 is a graph of the flammability envelope constructed
using data from FIG. 82 and following the methodology described in
Example 13. The experimental data points (circles) are from tests
described herein that were conducted at 1 atmosphere initial system
pressure.
[0142] FIG. 85 is a graph of the flammability envelope constructed
using data from FIG. 83 and following the methodology described in
Example 13. The experimental data points (circles) are from tests
described herein that were conducted at 1 atmosphere initial system
pressure.
[0143] FIG. 86A is a GC/MS chromatogram of fermentation
off-gas.
[0144] FIG. 86B is an expansion of FIG. 86A to show minor volatiles
present in fermentation off-gas.
[0145] FIG. 87A is a GC/MS chromatogram of trace volatiles present
in off-gas following cryo-trapping at -78.degree. C.
[0146] FIG. 87B is a GC/MS chromatogram of trace volatiles present
in off-gas following cryo-trapping at -196.degree. C.
[0147] FIG. 87C is an expansion of FIG. 87B.
[0148] FIG. 87D is an expansion of FIG. 87C.
[0149] FIGS. 88A-B are GC/MS chromatogram comparing C5 hydrocarbons
from petroleum-derived isoprene (FIG. 88A) and biologically
produced isoprene (FIG. 88B). The standard contains three C5
hydrocarbon impurities eluting around the main isoprene peak (FIG.
88A). In contrast, biologically produced isoprene contains amounts
of ethanol and acetone (run time of 3.41 minutes) (FIG. 88A).
[0150] FIG. 89 is a graph of the analysis of fermentation off-gas
of an E. coli BL21 (DE3) pTrcIS strain expressing a Kudzu isoprene
synthase and fed glucose with 3 g/L yeast extract.
[0151] FIG. 90 shows the structures of several impurities that are
structurally similar to isoprene and may also act as polymerization
catalyst poisons.
[0152] FIG. 91 is a map of pTrcHis2AUpperPathway (also called
pTrcUpperMVA).
[0153] FIGS. 92A-92C are the nucleotide sequence of
pTrcHis2AUpperPathway (also called pTrcUpperMVA) (SEQ ID
NO:23).
[0154] FIG. 93 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0155] FIG. 94 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0156] FIG. 95 is a time course of total isoprene produced from the
15-L bioreactor fed with glucose.
[0157] FIG. 96 is a time course of optical density within the 15-L
bioreactor fed with invert sugar.
[0158] FIG. 97 is a time course of isoprene titer within the 15-L
bioreactor fed with invert sugar. The titer is defined as the
amount of isoprene produced per liter of fermentation broth.
[0159] FIG. 98 is a time course of total isoprene produced from the
15-L bioreactor fed with invert sugar.
[0160] FIG. 99 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0161] FIG. 100 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0162] FIG. 101 is a time course of isoprene specific activity from
the 15-L bioreactor fed with glucose.
[0163] FIG. 102 is a map of pCLPtrcUpperPathwayHGS2.
[0164] FIGS. 103A-103C are the nucleotide sequence of
pCLPtrcUpperPathwayHGS2 (SEQ ID NO:24).
[0165] FIG. 104 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0166] FIG. 105 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0167] FIG. 106 is a time course of total isoprene produced from
the 15-L bioreactor fed with glucose.
[0168] FIG. 107 is a map of plasmid MCM330 (FRT-cm-FRT-gi1.2-KKDy
at attTn7).
[0169] FIGS. 108A-108C are the nucleotide sequence of plasmid
MCM330 (SEQ ID NO:25).
[0170] FIG. 109 is a map of pET24D-Kudzu.
[0171] FIGS. 110A-B are the nucleotide sequence of pET24D-Kudzu
(SEQ ID NO:26).
[0172] FIG. 111A is a time course of optical density within the
15-L bioreactor fed with glucose.
[0173] FIG. 111B is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0174] FIG. 111C is a time course of specific productivity of
isoprene in the 15-L bioreactor fed with glucose.
[0175] FIG. 112A is a map of the M. mazei archaeal Lower Pathway
operon.
[0176] FIGS. 112B-C are the nucleotide sequence of the M. mazei
archaeal lower Pathway operon (SEQ ID NO:27).
[0177] FIG. 113A is a map of MCM382-pTrcKudzuMVK(mazei).
[0178] FIGS. 113B-C are the nucleotide sequence of
MCM382-pTrcKudzuMVK(mazei) (SEQ ID NO:28).
[0179] FIG. 114A is a map of MCM376-MVK from M. mazei archaeal
Lower in pET200D.
[0180] FIGS. 114B-C are the nucleotide sequence of MCM376-MVK from
M. mazei archaeal Lower in pET200D (SEQ ID NO:29).
[0181] FIGS. 115A-115D demonstrate that over-expression of MVK and
isoprene synthase results in increased isoprene production.
Accumulated isoprene and CO.sub.2 from MCM401 and MCM343 during
growth on glucose in 100 mL bioreactors with 100 and 200 .mu.M IPTG
induction of isoprene production was measured over a 22 hour time
course. FIG. 115A is a graph of the accumulated isoprene (%) from
MCM343. FIG. 115B is a graph of the accumulated isoprene (%) from
MCM401. FIG. 115C is a graph of the accumulated CO.sub.2 (%) from
MCM343. FIG. 115D is a graph of the accumulated CO.sub.2 (%) from
MCM401.
[0182] FIG. 116 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0183] FIG. 117 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0184] FIG. 118 is a time course of total isoprene produced from
the 15-L bioreactor fed with glucose.
[0185] FIG. 119 is a graph of the total carbon dioxide evolution
rate (TCER), or metabolic activity profile, within the 15-L
bioreactor fed with glucose.
[0186] FIG. 120 is a graph of the cell viability during isoprene
production within the 15-L bioreactor fed with glucose. TVC/OD is
the total viable counts (colony forming units) in 1 mL of broth per
optical density unit (OD.sub.550).
[0187] FIG. 121 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0188] FIG. 122 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0189] FIG. 123 is a time course of total isoprene produced from
the 15-L bioreactor fed with glucose.
[0190] FIG. 124 is a time course of volumetric productivity within
the 15-L bioreactor fed with glucose. The volumetric productivity
is defined as the amount of isoprene produced per liter of broth
per hour.
[0191] FIG. 125 is a time course of instantaneous yield within the
15-L bioreactor fed with glucose. The instantaneous yield is
defined as the amount of isoprene (gram) produced per amount of
glucose (gram) fed to the bioreactor (w/w) during the time interval
between the data points.
[0192] FIG. 126 is a graph of the total carbon dioxide evolution
rate (TCER), or metabolic activity profile, within the 15-L
bioreactor fed with glucose.
[0193] FIG. 127 is cell viability during isoprene production within
the 15-L bioreactor fed with glucose. TVC/OD is the total viable
counts (colony forming units) in 1 mL of broth per optical density
unit (OD.sub.550).
[0194] FIG. 128 is a time course of optical density within the 15-L
bioreactor fed with glucose.
[0195] FIG. 129 is a time course of isoprene titer within the 15-L
bioreactor fed with glucose. The titer is defined as the amount of
isoprene produced per liter of fermentation broth.
[0196] FIG. 130 is a time course of total isoprene produced from
the 15-L bioreactor fed with glucose.
[0197] FIG. 131 is a graph of total carbon dioxide evolution rate
(TCER), or metabolic activity profile, within the 15-L bioreactor
fed with glucose.
[0198] FIG. 132 is a graph showing that a transient decrease in the
airflow to the bioreactor caused a spike in the concentration of
isoprene in the off-gas that did not cause a dramatic decrease in
metabolic activity (TCER). TCER, or metabolic activity, is the
total carbon dioxide evolution rate.
[0199] FIG. 133 is a graph of the cell viability during isoprene
production within the 15-L bioreactor fed with glucose. TVC/OD is
the total viable counts (colony forming units) in 1 mL of broth per
optical density unit (OD.sub.550).
[0200] FIG. 134 is a time course of optical density within the 15-L
bioreactor fed with glucose. Dotted vertical lines denote the time
interval when isoprene was introduced into the bioreactor at a rate
of 1 g/L/hr.
[0201] FIG. 135 is total carbon dioxide evolution rate (TCER), or
metabolic activity profile, within the 15-L bioreactor fed with
glucose. Dotted vertical lines denote the time interval when
isoprene was introduced into the bioreactor at a rate of 1
g/L/hr.
[0202] FIG. 136 is cell viability during isoprene production within
the 15-L bioreactor fed with glucose. TVC/OD is the total viable
counts (colony forming units) in 1 mL of broth per optical density
unit (OD.sub.550). Dotted vertical lines denote the time interval
when isoprene was introduced into the bioreactor at a rate of 1
g/L/hr.
[0203] FIGS. 137A-B are the sequence of Populus alba pET24a:
isoprene synthase gene highlighted in bold letters (SEQ ID
NO:30).
[0204] FIGS. 137C-D are the sequence of Populus nigra pET24a:
isoprene synthase gene highlighted in bold letters (SEQ ID
NO:31).
[0205] FIGS. 137E-F are the sequence of Populus tremuloides pET24a
(SEQ ID NO:32).
[0206] FIG. 137G is the amino acid sequence of Populus tremuloides
isoprene synthase gene (SEQ ID NO:33).
[0207] FIGS. 137H-I are the sequence of Populus trichocarpa pET24a:
isoprene synthase gene highlighted in bold letters (SEQ ID
NO:34).
[0208] FIGS. 137J-K are the sequence of Populus
tremula.times.Populus alba pET24a: isoprene synthase gene
highlighted in bold letters (SEQ ID NO:35).
[0209] FIG. 137L is a map of MCM93 which contains the kudzu IspS
coding sequence in a pCR2.1 backbone.
[0210] FIGS. 137M-N are the sequence of MCM93 (SEQ ID NO:36).
[0211] FIG. 137O is a map of pET24D-Kudzu.
[0212] FIGS. 137P-Q are the sequence of pET24D-Kudzu (SEQ ID
NO:37).
[0213] FIG. 138 is isoprene synthase expression data for various
poplar species as measured in the whole cell head space assay.
Y-axis is .mu.g/L/OD of isoprene produced by 0.2 mL of a culture
induced with IPTG.
[0214] FIG. 139 is relative activity of Poplar isoprene synthase
enzymes as measured by DMAPP assay. Poplar enzymes have
significantly higher activity than the isoprene synthase from
Kudzu. Poplar [alba.times.tremula] only had traces (<1%) of
activity and is not shown in the plot.
[0215] FIG. 140 is a map of pDONR221:19430-hybrid_HGS.
[0216] FIG. 141 is the nucleotide sequence of
pDONR221:19430-hybrid_HGS, the sequence of Kudzu isoprene synthase
codon-optimized for yeast (SEQ ID NO:38).
[0217] FIG. 142A is a map of pDW14.
[0218] FIGS. 142B-C are the complete nucleotide sequence of pDW14
(SEQ ID NO:39).
[0219] FIG. 143 shows induced INVSc-1 strains harboring pDW14 or
pYES-DEST52. FIG. 143A. A 4-12% bis tris gel (Novex, Invitrogen) of
lysates generated from INVSc-1 strains induced with galactose and
stained with SimplyBlue SafeStain (Invitrogen). FIG. 143B. Western
blot analysis of the same strains using the WesternBreeze kit
(Invitrogen). Lanes are as follows: 1, INVSc-1+pYES-DEST52; 2,
INVSc-1+pDW14 (isolate 1); 3, INVSc-1+pDW14 (isolate 2). MW (in
kDa) is indicated (using the SeeBlue Plus2 molecular weight
standard).
[0220] FIG. 144 (FIGS. 144A and 144B) shows induced INVSc-1 strains
harboring pDW14 or pYES-DEST52. FIG. 144A. OD.sub.600 of
galactose-induced strains prior to lysis. The y-axis is OD.sub.600.
FIG. 144B. DMAPP assay of isoprene synthase headspace in control
and isoprene synthase-harboring strains. Specific activity was
calculated as .mu.g HG/L/OD. Samples are as follows: Control,
INVSc-1+pYES-DEST52; HGS-1, INVSc-1+pDW14 (isolate 1); HGS-2,
INVSc-1+pDW14 (isolate 2).
[0221] FIG. 145A is a map of codon optimized isoprene synthase
fluo-opt2v2.
[0222] FIG. 145B is the nucleotide sequence of codon optimized
isoprene synthase fluo-opt2v2 (SEQ ID NO:40).
[0223] FIG. 146A is a map of pBBR1MCS5.
[0224] FIGS. 146B-C are the nucleotide sequence of pBBR1MCS5 (SEQ
ID NO:41).
[0225] FIG. 147A is a map of pBBRSHGSOpt2.sub.--2.
[0226] FIGS. 147B-C are the nucleotide sequence of
pBBRSHGSOpt2.sub.--2 (SEQ ID NO:42).
[0227] FIG. 148 is a graph of CER versus fermentation time for
strain MCM401, uninduced, induced with IPTG (4.times.50 .mu.mol) or
IPTG (2.times.100 .mu.mol).
[0228] FIG. 149 shows concentration of glucose in sugar cane
solutions, pH adjusted or not, as a function of the number of
autoclaving cycles (one cycle=30 min).
[0229] FIG. 150 shows growth curves (OD.sub.600 as a function of
time) of Pseudomonas putida F1 and Pseudomonas fluorescens
ATCC13525 on glucose, sugar cane, and inverted sugar cane.
[0230] FIG. 151 shows growth curves (OD.sub.600 as a function of
time) of E. coli BL21(DE3), MG1655, ATCC11303 and B REL 606 on
glucose, sugar cane, and inverted sugar cane.
[0231] FIG. 152 is a map of plasmid pET24 P. alba HGS.
[0232] FIG. 153A-B are the nucleotide sequence of plasmid pET24 P.
alba HGS (SEQ ID NO:43).
[0233] FIG. 154 is a schematic diagram showing restriction sites
used for endonuclease digestion to construct plasmid EWL230 and
compatible cohesive ends between BspHI and NcoI sites.
[0234] FIG. 155 is a map of plasmid EWL230.
[0235] FIGS. 156A-B are the nucleotide sequence of plasmid EWL230
(SEQ ID NO:44).
[0236] FIG. 157 is a schematic diagram showing restriction sites
used for endonuclease digestion to construct plasmid EWL244 and
compatible cohesive ends between NsiI and PstI sites.
[0237] FIG. 158 is a map of plasmid EWL244.
[0238] FIGS. 159A-B are the nucleotide sequence of plasmid EWL244
(SEQ ID NO:45).
[0239] FIG. 160A is a map of the M. mazei archaeal Lower Pathway
operon.
[0240] FIGS. 160B-C are the nucleotide sequence of the M. mazei
archaeal Lower Pathway operon (SEQ ID NO:46).
[0241] FIG. 161A is a map of MCM376-MVK from M. mazei archaeal
Lower in pET200D.
[0242] FIGS. 161B-C are the nucleotide sequence of MCM376-MVK from
M. mazei archaeal Lower in pET200D (SEQ ID NO:47).
[0243] FIG. 162 is a map of plasmid pBBRCMPGI1.5-pgl.
[0244] FIGS. 163A-B are the nucleotide sequence of plasmid
pBBRCMPGI1.5-pgl (SEQ ID NO:48).
[0245] FIGS. 164A-F are graphs of isoprene production by E. coli
strain expressing M. mazei mevalonate kinase, P. alba isoprene
synthase, and pgl (RHM111608-2), and grown in fed-batch culture at
the 15-L scale. FIG. 164A shows the time course of optical density
within the 15-L bioreactor fed with glucose. FIG. 164B shows the
time course of isoprene titer within the 15-L bioreactor fed with
glucose. The titer is defined as the amount of isoprene produced
per liter of fermentation broth. Method for calculating isoprene:
cumulative isoprene produced in 59 hrs, g/Fermentor volume at 59
hrs, L[=]g/L broth. FIG. 164C also shows the time course of
isoprene titer within the 15-L bioreactor fed with glucose. Method
for calculating isoprene: .intg.(Instantaneous isoprene production
rate, g/L/hr)dt from t=0 to 59 hours[=]g/L broth. FIG. 164D shows
the time course of total isoprene produced from the 15-L bioreactor
fed with glucose. FIG. 164E shows volumetric productivity within
the 15-L bioreactor fed with glucose. FIG. 164F shows carbon
dioxide evolution rate (CER), or metabolic activity profile, within
the 15-L bioreactor fed with glucose.
[0246] FIGS. 165A-B are graphs showing analysis of off-gas from
fermentation in 15 L bioreactors. Sample A is strain RM111608-2
sampled at 64.8 hours. Sample B is strain EWL256 was E. coli BL21
(DE3), pCL upper, cmR-gi1.2-yKKDyI, pTrcAlba-mMVK sampled at 34.5
hours. Hydrogen is detected above the baseline
(0.95.times.10.sup.-8 torr) for both samples.
[0247] FIG. 166A shows an exemplary Bioisoprene.TM. recovery
unit.
[0248] FIG. 166B shows an exemplary Bioisoprene.TM.
desorption/condensation setup.
[0249] FIG. 167 shows a GC/FID chromatogram of a Bioisoprene.TM.
product. The material was determined to be 99.7% pure.
[0250] FIG. 168A-C show the GC/FID chromatograms of a
Bioisoprene.TM. sample before (A) and after treatment with alumina
(B) or silica (C). The isoprene peak is not shown in these
chromatograms.
[0251] FIG. 169 shows a diagram of a process and associated
apparatus for purifying isoprene from a fermentation off-gas.
[0252] FIG. 170 shows GC/FID chromatogram of partially hydrogenated
BioIsoprene.TM. monomer. Compound 1 (RT=12.30
min)=3-methyl-1-butene, compound 2 (RT=12.70 min)=2-methylbutane,
compound 3 (RT=13.23 min)=2-methyl-1-butene, compound 4 (RT=13.53
min)=isoprene, compound 5 (RT=14.01 min)=2-methyl-2-butene).
[0253] FIG. 171 shows the GC/MS Total Ion Chromatogram for products
derived from the Amberlyst-15 acid resin-catalyzed dimerization of
2-methyl-2-butene.
[0254] FIG. 172 shows the GC/MS Total Ion Chramatogram for products
derived from Amberlyst 15 acid resin-catalyzed oligomerization of
BioIsoprene.TM. monomer.
[0255] FIG. 173 shows a process flow diagram for the conversion of
a C5 stream into a C10/C15 product stream using a dimerization
reactor. The C5 stream comprises BioIsoprene.TM. monomer and/or C5
derivatives of BioIsoprene.TM. monomer.
DETAILED DESCRIPTION OF THE INVENTION
[0256] The invention provides, inter alia, compositions and methods
for producing a fuel constituent from isoprene. Provided herein are
fuel constituents or additives, for example, cyclic isoprene dimers
and trimers, linear isoprene oligomers, aromatic and alicyclic
isoprene derivatives, and oxygenated isoprene derivatives. The fuel
constituent can be produced by chemical transformations of a
starting material comprising a commercially beneficial amount of
highly pure isoprene. In one aspect, the commercially beneficial
amount of highly pure isoprene comprises bioisoprene. In another
aspect, a commercially beneficial amount of highly pure isoprene
can be bioisoprene. In another aspect, a commercially beneficial
amount of highly pure isoprene can be highly pure isoprene
compositions produced by culturing cells expressing a heterologous
isoprene synthase enzyme. In other aspects, highly pure isoprene
undergoes oligomerization to form unsaturated isoprene oligomers
such as cyclic dimers or trimers and linear oligomers. The
unsaturated oligomers may be hydrogenated to produce saturated
hydrocarbon fuel constituent. In some embodiment, reaction of
highly pure isoprene with alcohols in the presence of an acid
catalyst produces fuel oxygenates. In another aspect, the highly
pure isoprene is partially hydrogenated to produce isoamylenes. In
some embodiments, an isoamylene product derived from the highly
pure isoprene undergoes dimerization to form isodecenes. In some
embodiments, isoamylene products derived from the highly pure
isoprene react with alcohols in the presence of an acid catalyst to
produce fuel oxygenates.
[0257] Bioisoprene derived from renewable carbon can be converted
to a variety of hydrocarbon fuels by chemical catalysis. Provided
herein are methods for recovering isoprene from fermentation and
subsequent conversion to hydrocarbon fuels by chemical catalysis to
compounds of higher molecular weight. These methods include, but
are not limited to, recovering and purifying isoprene from
fermentation off-gas and subsequent gas or liquid phase catalysis
to provide compounds with fuel value. Both continuous and batch
mode processes are contemplated within the scope of the
invention.
[0258] As further detailed herein, a bioisoprene composition is
distinguished from a petro-isoprene composition in that a
bioisoprene composition is substantially free of any contaminating
unsaturated C5 hydrocarbons that are usually present in
petro-isoprene compositions, such as, but not limited to,
1,3-cyclopentadiene, trans-1,3-pentadiene, cis-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 3-methyl-1-butyne,
pent-4-ene-1-yne, trans-pent-3-ene-1-yne, and cis-pent-3-ene-1-yne.
If any contaminating unsaturated C5 hydrocarbons are present in the
bioisoprene starting material described herein, they are present in
lower levels than that in petro-isoprene compositions. Accordingly,
any fuel products derived from bioisoprene compositions described
herein is essentially free of, or contains at lower levels than
that in fuel products derived from petro-isoprene, any
contaminating unsaturated C5 hydrocarbons or products derived from
such contaminating unsaturated C5 hydrocarbons. In addition, the
sulfur levels in a bioisoprene composition are lower than the
sulfur levels in petro-isoprene compositions. Fuels products
derived from bioisoprene compositions contain lower levels of
sulfur than that in fuel products derived from petro-isoprene.
[0259] Bioisoprene is distinguished from petro-isoprene in that
bioisoprene is produced with other bio-byproducts (compounds
derived from the biological sources and/or associated the
biological processes that are obtained together with bioisoprene)
that are not present or present in much lower levels in
petro-isoprene compositions, such as alcohols, aldehydes, ketone
and the like. The bio-byproducts may include, but are not limited
to, ethanol, acetone, methanol, acetaldehyde, methacrolein, methyl
vinyl ketone, 2-methyl-2-vinyloxirane, cis- and
trans-3-methyl-1,3-pentadiene, a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), 2-heptanone,
6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, methanethiol, methyl acetate,
1-propanol, diacetyl, 2-butanone, 2-methyl-3-buten-2-ol, ethyl
acetate, 2-methyl-1-propanol, 3-methyl-1-butanal,
3-methyl-2-butanone, 1-butanol, 2-pentanone, 3-methyl-1-butanol,
ethyl isobutyrate, 3-methyl-2-butenal, butyl acetate, 3-methylbutyl
acetate, 3-methyl-3-buten-1-yl acetate, 3-methyl-2-buten-1-yl
acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate, limonene, geraniol
(trans-3,7-dimethyl-2,6-octadien-1-ol), citronellol
(3,7-dimethyl-6-octen-1-ol), (E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, 2,3-cycloheptenolpyridine, or a
linear isoprene polymer (such as a linear isoprene dimer or a
linear isoprene trimer derived from the polymerization of multiple
isoprene units). Fuel products derived from bioisoprene contain one
or more of the bio-byproducts or compounds derived from any of the
bio-byproducts. In addition, fuel products derived from bioisoprene
may contain compounds formed from these bio-byproducts during
subsequent chemical conversion. Examples of such compounds include
those derived from Diels-Alder cycloaddition of dienophiles to
isoprene or fuel derivatives thereof, the oxidation of isoprene or
fuel derivatives.
[0260] Further, bioisoprene is distinguished from petro-isoprene by
carbon finger-printing. In one aspect, bioisoprene has a higher
radioactive carbon-14 (.sup.14C) content or higher
.sup.14C/.sup.12C ratio than petro-isoprene. Bioisoprene is
produced from renewable carbon sources, thus the .sup.14C content
or the .sup.14C/.sup.12C ratio in bioisoprene is the same as that
in the present atmosphere. Petro-isoprene, on the other hand, is
derived from fossil fuels deposited thousands to millions of years
ago, thus the .sup.14C content or the .sup.14C/.sup.12C ratio is
diminished due to radioactive decay. As discussed in greater detail
herein, the fuel products derived from bioisoprene has higher
.sup.14C content or .sup.14C/.sup.12C ratio than fuel products
derived from petro-isoprene. In one embodiment, a fuel product
derived from bioisoprene described herein has a .sup.14C content or
.sup.14C/.sup.12C ratio similar to that in the atmosphere. In
another aspect, bioisoprene can be analytically distinguished from
petro-isoprene by the stable carbon isotope ration
(.sup.13C/.sup.12C), which can be reported as "delta values"
represented by the symbol .delta..sup.13C. For examples, for
isoprene derived from extractive distillation of C.sub.5 streams
from petroleum refineries, .delta..sup.13C is about -22.Salinity.
to about -24.Salinity.. This range is typical for light,
unsaturated hydrocarbons derived from petroleum, and products
derived from petroleum-based isoprene typically contain isoprenic
units with the same .delta..sup.13C. Bioisoprene produced by
fermentation of corn-derived glucose (.delta..sup.13C
-10.73.Salinity.) with minimal amounts of other carbon-containing
nutrients (e.g., yeast extract) produces isoprene which can be
polymerized into polyisoprene with .delta..sup.13C -14.66.Salinity.
to -14.85.Salinity.. Products produced from such bioisoprene are
expected to have .delta..sup.13C values that are less negative than
those derived from petroleum-based isoprene.
[0261] Compounds made by these methods include cyclic isoprene
dimers and trimers, linear oligomers, aromatic and alicyclic
derivatives. Diisoamylenes are made by methods comprising partial
hydrogenation of bioisoprene compositions. These chemical
derivatives of isoprene are useful as liquid transportation fuels
(IsoFuels.TM.) and as fuel additives.
[0262] Also provided herein are methods for the production of
oxygenated derivatives of isoprene including alcohols, ketones,
esters and ethers. Methods for the synthesis of oxygenated
derivatives of isoprene can also be performed in liquid or gas
phase, using homogeneous and heterogeneous catalysts. Compounds of
this chemical class are also useful as liquid transportation fuels,
and can be used in fuel blends as fuel oxygenates for emissions
reduction and as fuel modifiers, for example as cetane boosters for
diesel.
[0263] While isoprene can be obtained by fractionating petroleum,
the purification of this material is expensive and time-consuming.
Petroleum cracking of the C5 stream of hydrocarbons produces only
about 15% isoprene. Isoprene is also naturally produced by a
variety of microbial, plant, and animal species. In particular, two
pathways have been identified for the biosynthesis of isoprene: the
mevalonate (MVA) pathway and the non-mevalonate (DXP) pathway.
Genetically engineered cell cultures in bioreactors have produced
isoprene more efficiently, in larger quantities, in higher purities
and/or with unique impurity profiles, e.g. as described in U.S.
provisional patent application Nos. 61/013,386 and 61/013,574,
filed on Dec. 13, 2007, WO 2009/076676, U.S. provisional patent
application Nos. 61/134,094, 61/134,947, 61/134,011 and 61/134,103,
filed on Jul. 2, 2008, WO 2010/003007, U.S. provisional patent
application No. 61/097,163, filed on Sep. 15, 2008, WO 2010/031079,
U.S. provisional patent application No. 61/097,186, filed on Sep.
15, 2008, WO 2010/031062, U.S. provisional patent application No.
61/097,189, filed on Sep. 15, 2008, WO 2010/031077, U.S.
provisional patent application No. 61/097,200, filed on Sep. 15,
2008, WO 2010/031068, U.S. provisional patent application No.
61/097,204, filed on Sep. 15, 2008, WO 2010/031076, U.S.
provisional patent application No. 61/141,652, filed on Dec. 30,
2008, PCT/US09/069,862, U.S. patent application Ser. No.
12/335,071, filed Dec. 15, 2008 (US 2009/0203102 A1) and U.S.
patent application Ser. No. 12/429,143, filed Apr. 23, 2009 (US
2010/0003716 A1), which are incorporated by reference in their
entireties.
DEFINITIONS
[0264] Unless defined otherwise herein, all technical and
scientific terms used herein have the same meaning as commonly
understood by one of ordinary skill in the art to which this
invention pertains. Although any methods and materials similar or
equivalent to those described herein find use in the practice of
the present invention, the preferred methods and materials are
described herein. Accordingly, the terms defined immediately below
are more fully described by reference to the Specification as a
whole. All documents cited are, in relevant part, incorporated
herein by reference. However, the citation of any document is not
to be construed as an admission that it is prior art with respect
to the present invention.
[0265] As used herein, the singular terms "a," "an," and "the"
include the plural reference unless the context clearly indicates
otherwise.
[0266] It is intended that every maximum numerical limitation given
throughout this specification includes every lower numerical
limitation, as if such lower numerical limitations were expressly
written herein. Every minimum numerical limitation given throughout
this specification will include every higher numerical limitation,
as if such higher numerical limitations were expressly written
herein. Every numerical range given throughout this specification
will include every narrower numerical range that falls within such
broader numerical range, as if such narrower numerical ranges were
all expressly written herein.
[0267] The term "isoprene" refers to 2-methyl-1,3-butadiene
(CAS#78-79-5), which is the direct and final volatile C5
hydrocarbon product from the elimination of pyrophosphate from
3,3-dimethylallyl pyrophosphate (DMAPP), and does not involve the
linking or polymerization of [an] IPP molecule(s) to [a] DMAPP
molecule(s). The term "isoprene" is not generally intended to be
limited to its method of production unless indicated otherwise
herein.
[0268] As used herein, "biologically produced isoprene" or
"bioisoprene" is isoprene produced by any biological means, such as
produced by genetically engineered cell cultures, natural
microbials, plants or animals.
[0269] A "bioisoprene composition" refers to a composition that can
be produced by any biological means, such as systems (e.g., cells)
that are engineered to produce isoprene. It contains isoprene and
other compounds that are co-produced (including impurities) and/or
isolated together with isoprene. A bioisoprene composition usually
contains fewer hydrocarbon impurities than isoprene produced from
petrochemical sources and often requires minimal treatment in order
to be of polymerization grade. As detailed herein, bioisoprene
composition also has a different impurity profile from a
petrochemically produced isoprene composition.
[0270] As used herein, "at least a portion of the isoprene starting
composition" can refer to at least about 1%, 5%, 10%, 15%, 20%,
25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%,
90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, 99.5%, 99.6%,
99.7%, 99.8%, 99.9%, or 100% of the isoprene starting composition
undergoing chemical transformation.
[0271] As used herein, IsoFuels.TM. refers to fuels including
liquid transportation fuels that are derived from isoprene.
BioIsoFuels.TM. refers to fuels including liquid transportation
fuels that are derived from bioisoprene.
[0272] The term "oligomerization" as used herein refers to a
chemical process for combining two or more monomer units.
"Oligomerization" of isoprene produces a derivative of isoprene
derived from two or more molecules of isoprene, such as linear
dimers of isoprene, cyclic dimers of isoprene, linear trimers of
isoprene, cyclic trimers of isoprene and the like.
[0273] "Complete hydrogenation", "Completely hydrogenate" or "Fully
hydrogenate" is defined as the addition of hydrogen (H.sub.2),
typically in the presence of a hydrogenation catalyst, to all
unsaturated functional groups, such as carbon-carbon double bonds,
within a precursor compound to give fully saturated product
compounds. For example, complete hydrogenation of isoprene forms
isopentane whereby 2 moles of H.sub.2 is consumed per mole of
isoprene.
[0274] "Partial hydrogenation" or "Partially hydrogenate" is
defined as the addition of hydrogen (H.sub.2), typically in the
presence of a hydrogenation catalyst, to at least one, but not all
unsaturated functional groups, such as carbon-carbon double bonds,
within a precursor compound. The product(s) of partial
hydrogenation can be further completely hydrogenated to give fully
saturated product compounds. Partial hydrogenation of a diene forms
one or more mono-olefins. For example, partial hydrogenation of
isoprene can give 3 isomeric isopentenes (2-methylbut-1-ene,
2-methylbut-2-ene and 3-methylbut-1-ene) whereby 1 mole of H.sub.2
is consumed per mole of isoprene.
[0275] "Selective hydrogenation" or "Selectively hydrogenate" is
defined as the addition of hydrogen (H.sub.2), typically in the
presence of a hydrogenation catalyst, to at least one, but not all
unsaturated functional groups, such as carbon-carbon double bonds,
within a precursor compound whereby certain unsaturated functional
groups are preferentially hydrogenated over other unsaturated
groups under the chosen conditions. For example, selective
hydrogenation of isoprene may form preferentially
2-methyl-2-butene, 2-methyl-1-butene, 3-methyl-1-butene or a
mixture thereof.
[0276] As used herein, the term "polypeptides" includes
polypeptides, proteins, peptides, fragments of polypeptides, and
fusion polypeptides.
[0277] As used herein, an "isolated polypeptide" is not part of a
library of polypeptides, such as a library of 2, 5, 10, 20, 50 or
more different polypeptides and is separated from at least one
component with which it occurs in nature. An isolated polypeptide
can be obtained, for example, by expression of a recombinant
nucleic acid encoding the polypeptide.
[0278] By "heterologous polypeptide" is meant a polypeptide whose
amino acid sequence is not identical to that of another polypeptide
naturally expressed in the same host cell. In particular, a
heterologous polypeptide is not identical to a wild-type
polypeptide that is found in the same host cell in nature.
[0279] "Codon degeneracy" refers to divergence in the genetic code
permitting variation of the nucleotide sequence without affecting
the amino acid sequence of an encoded polypeptide. The skilled
artisan is well aware of the "codon-bias" exhibited by a specific
host cell in usage of nucleotide codons to specify a given amino
acid. Therefore, when synthesizing a nucleic acid for improved
expression in a host cell, it is desirable in some embodiments to
design the nucleic acid such that its frequency of codon usage
approaches the frequency of preferred codon usage of the host
cell.
[0280] As used herein, a "nucleic acid" refers to two or more
deoxyribonucleotides and/or ribonucleotides covalently joined
together in either single or double-stranded form.
[0281] By "recombinant nucleic acid" is meant a nucleic acid of
interest that is free of one or more nucleic acids (e.g., genes)
which, in the genome occurring in nature of the organism from which
the nucleic acid of interest is derived, flank the nucleic acid of
interest. The term therefore includes, for example, a recombinant
DNA which is incorporated into a vector, into an autonomously
replicating plasmid or virus, or into the genomic DNA of a
prokaryote or eukaryote, or which exists as a separate molecule
(e.g., a cDNA, a genomic DNA fragment, or a cDNA fragment produced
by PCR or restriction endonuclease digestion) independent of other
sequences.
[0282] By "heterologous nucleic acid" is meant a nucleic acid whose
nucleic acid sequence is not identical to that of another nucleic
acid naturally found in the same host cell. In particular, a
heterologous nucleic acid is not identical to a wild-type nucleic
acid that is found in the same host cell in nature.
[0283] As used herein, a "vector" means a construct that is capable
of delivering, and desirably expressing one or more nucleic acids
of interest in a host cell. Examples of vectors include, but are
not limited to, plasmids, viral vectors, DNA or RNA expression
vectors, cosmids, and phage vectors.
[0284] As used herein, an "expression control sequence" means a
nucleic acid sequence that directs transcription of a nucleic acid
of interest. An expression control sequence can be a promoter, such
as a constitutive or an inducible promoter, or an enhancer. An
"inducible promoter" is a promoter that is active under
environmental or developmental regulation. The expression control
sequence is operably linked to the nucleic acid segment to be
transcribed.
[0285] The term "selective marker" or "selectable marker" refers to
a nucleic acid capable of expression in a host cell that allows for
ease of selection of those host cells containing an introduced
nucleic acid or vector. Examples of selectable markers include, but
are not limited to, antibiotic resistance nucleic acids (e.g.,
kanamycin, ampicillin, carbenicillin, gentamicin, hygromycin,
phleomycin, bleomycin, neomycin, or chloramphenicol) and/or nucleic
acids that confer a metabolic advantage, such as a nutritional
advantage on the host cell. Exemplary nutritional selective markers
include those markers known in the art as amdS, argB, and pyr4.
Compositions and Systems
[0286] Isoprene derived from petrochemical sources usually is an
impure C5 hydrocarbon fraction which requires extensive
purification before the material is suitable for polymerization or
other chemical transformations. Several impurities are particularly
problematic given their structural similarity to isoprene and the
fact that they can act as polymerization catalyst poisons. Such
compounds include, but are not limited to, 1,3-cyclopentadiene,
cis- and trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne,
2-pentyne, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, and cis-pent-3-ene-1-yne. As detailed
below, biologically produced isoprene can be substantially free of
any contaminating unsaturated C5 hydrocarbons without undergoing
extensive purification. Some biologically produced isoprene
compositions contain ethanol, acetone, and C5 prenyl alcohols.
These components are more readily removed from the isoprene stream
than the isomeric C5 hydrocarbon fractions that are present in
isoprene compositions derived from petrochemical sources. Further,
these impurities can be managed in the bioprocess, for example by
genetic modification of the producing strain, carbon feedstock,
alternative fermentation conditions, recovery process modifications
and additional or alternative purification methods.
[0287] In one aspect, the invention features compositions and
systems for producing a fuel constituent from isoprene comprising:
(a) a commercially beneficial amount of highly pure isoprene
starting composition; and (b) a fuel constituent produced from at
least a portion of the highly pure isoprene starting material;
where at least a portion of the commercially beneficial amount of
highly pure isoprene starting composition undergoes a chemical
transformation. A highly pure isoprene starting material is
subjected to chemical reactions to produce a commercially
beneficial amount of product that is useful for making fuels. In
one aspect, a commercially beneficial amount of highly pure
isoprene comprises bioisoprene. In one aspect, a commercially
beneficial amount of highly pure isoprene can be bioisoprene.
Exemplary Starting Isoprene Compositions
[0288] In some embodiments, the commercially beneficial amount of
highly pure isoprene starting composition comprises greater than or
about 2, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400,
500, 600, 700, 800, 900, or 1000 mg of isoprene. In some
embodiments, the starting isoprene composition comprises greater
than or about 2, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100 g of
isoprene. In some embodiments, the starting isoprene composition
comprises greater than or about 0.2, 0.5, 1, 2, 5, 10, 20, 50, 100,
200, 500, 1000 kg of isoprene. In some embodiments, the amount of
isoprene in the starting composition is between about 2 to about
5,000 mg, such as between about 2 to about 100 mg, about 100 to
about 500 mg, about 500 to about 1,000 mg, about 1,000 to about
2,000 mg, or about 2,000 to about 5,000 mg. In some embodiments,
the amount of isoprene in the starting composition is between about
20 to about 5,000 mg, about 100 to about 5,000 mg, about 200 to
about 2,000 mg, about 200 to about 1,000 mg, about 300 to about
1,000 mg, or about 400 to about 1,000 mg. In some embodiments, the
amount of isoprene in the starting composition is between about 2
to about 5,000 g, such as between about 2 to about 100 g, about 100
to about 500 g, about 500 to about 1,000 g, about 1,000 to about
2,000 g, or about 2,000 to about 5,000 g. In some embodiments, the
amount of isoprene in the starting composition is between about 2
to about 5,000 kg, about 10 to about 2,000 kg, about 20 to about
1,000 kg, about 20 to about 500 kg, about 30 to about 200 kg, or
about 40 to about 100 kg. In some embodiments, greater than or
about 20, 25, 30, 40, 50, 60, 70, 80, 90, or 95% (w/w) of the
volatile organic fraction of the starting composition is
isoprene.
[0289] In some embodiments, the highly pure isoprene starting
composition comprises greater than or about 98.0, 98.5, 99.0, 99.5,
or 100% isoprene by weight compared to the total weight of all C5
hydrocarbons in the starting composition. In some embodiments, the
highly pure isoprene starting composition comprises greater than or
about 99.90, 99.92, 99.94, 99.96, 99.98, or 100% isoprene by weight
compared to the total weight of all C5 hydrocarbons in the starting
composition. In some embodiments, the starting composition has a
relative detector response of greater than or about 98.0, 98.5,
99.0, 99.5, or 100% for isoprene compared to the detector response
for all C5 hydrocarbons in the starting composition. In some
embodiments, the starting composition has a relative detector
response of greater than or about 99.90, 99.91, 99.92, 99.93,
99.94, 99.95, 99.96, 99.97, 99.98, 99.99, or 100% for isoprene
compared to the detector response for all C5 hydrocarbons in the
starting composition. In some embodiments, the starting isoprene
composition comprises between about 98.0 to about 98.5, about 98.5
to about 99.0, about 99.0 to about 99.5, about 99.5 to about 99.8,
about 99.8 to 100% isoprene by weight compared to the total weight
of all C5 hydrocarbons in the starting composition. In some
embodiments, the starting isoprene composition comprises between
about 99.90 to about 99.92, about 99.92 to about 99.94, about 99.94
to about 99.96, about 99.96 to about 99.98, about 99.98 to 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the starting composition.
[0290] In some embodiments, the highly pure isoprene starting
composition comprises less than or about 2.0, 1.5, 1.0, 0.5, 0.2,
0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001, 0.0005,
0.0001, 0.00005, or 0.00001% C5 hydrocarbons other than isoprene
(such 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the starting
composition. In some embodiments, the starting composition has a
relative detector response of less than or about 2.0, 1.5, 1.0,
0.5, 0.2, 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001,
0.0005, 0.0001, 0.00005, or 0.00001% for C5 hydrocarbons other than
isoprene compared to the detector response for all C5 hydrocarbons
in the starting composition. In some embodiments, the starting
composition has a relative detector response of less than or about
2.0, 1.5, 1.0, 0.5, 0.2, 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01,
0.005, 0.001, 0.0005, 0.0001, 0.00005, or 0.00001% for
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne compared to the detector response for all C5
hydrocarbons in the starting composition. In some embodiments, the
highly pure isoprene starting composition comprises between about
0.02 to about 0.04%, about 0.04 to about 0.06%, about 0.06 to
0.08%, about 0.08 to 0.10%, or about 0.10 to about 0.12% C5
hydrocarbons other than isoprene (such 1,3-cyclopentadiene,
cis-1,3-pentadiene, trans-1,3-pentadiene, 1,4-pentadiene,
1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne) by weight compared to the total weight of all
C5 hydrocarbons in the starting composition.
[0291] In some embodiments, the highly pure isoprene starting
composition comprises less than or about 50, 40, 30, 20, 10, 5, 1,
0.5, 0.1, 0.05, 0.01, or 0.005 .mu.g/L of a compound that inhibits
the polymerization of isoprene for any compound in the starting
composition that inhibits the polymerization of isoprene. In some
embodiments, the starting isoprene composition comprises between
about 0.005 to about 50, such as about 0.01 to about 10, about 0.01
to about 5, about 0.01 to about 1, about 0.01 to about 0.5, or
about 0.01 to about 0.005 .mu.g/L of a compound that inhibits the
polymerization of isoprene for any compound in the starting
composition that inhibits the polymerization of isoprene. In some
embodiments, the starting isoprene composition comprises less than
or about 50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005
.mu.g/L of a hydrocarbon other than isoprene (such
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne). In some embodiments, the starting isoprene
composition comprises between about 0.005 to about 50, such as
about 0.01 to about 10, about 0.01 to about 5, about 0.01 to about
1, about 0.01 to about 0.5, or about 0.01 to about 0.005 .mu.g/L of
a hydrocarbon other than isoprene. In some embodiments, the
starting isoprene composition comprises less than or about 50, 40,
30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005 .mu.g/L of a
protein or fatty acid (such as a protein or fatty acid that is
naturally associated with natural rubber).
[0292] In some embodiments, the highly pure isoprene starting
composition comprises less than or about 10, 5, 1, 0.8, 0.5, 0.1,
0.05, 0.01, or 0.005 ppm of alpha acetylenes, piperylenes,
acetonitrile, or 1,3-cyclopentadiene. In some embodiments, the
starting isoprene composition comprises less than or about 5, 1,
0.5, 0.1, 0.05, 0.01, or 0.005 ppm of sulfur or allenes. In some
embodiments, the starting isoprene composition comprises less than
or about 30, 20, 15, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005 ppm
of all acetylenes (such as 1-pentyne, 2-pentyne, 3-methyl-1-butyne,
pent-4-ene-1-yne, trans-pent-3-ene-1-yne, and
cis-pent-3-ene-1-yne). In some embodiments, the starting isoprene
composition comprises less than or about 2000, 1000, 500, 200, 100,
50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005 ppm of
isoprene dimers, such as cyclic isoprene dimers (e.g., cyclic C10
compounds derived from the dimerization of two isoprene units).
[0293] In some embodiments, the highly pure isoprene starting
composition includes ethanol, acetone, methanol, acetaldehyde,
methacrolein, methyl vinyl ketone, 2-methyl-2-vinyloxirane, cis-
and trans-3-methyl-1,3-pentadiene, a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or more
of the foregoing. In particular embodiments, the starting isoprene
composition comprises greater than or about 0.005, 0.01, 0.05, 0.1,
0.5, 1, 5, 10, 20, 30, 40, 60, 80, 100, or 120 .mu.g/L of ethanol,
acetone, methanol, acetaldehyde, methacrolein, methyl vinyl ketone,
2-methyl-2-vinyloxirane, cis- and trans-3-methyl-1,3-pentadiene, a
C5 prenyl alcohol (such as 3-methyl-3-buten-1-ol or
3-methyl-2-buten-1-ol), or any two or more of the foregoing. In
some embodiments, the isoprene composition comprises between about
0.005 to about 120, such as about 0.01 to about 80, about 0.01 to
about 60, about 0.01 to about 40, about 0.01 to about 30, about
0.01 to about 20, about 0.01 to about 10, about 0.1 to about 80,
about 0.1 to about 60, about 0.1 to about 40, about 5 to about 80,
about 5 to about 60, or about 5 to about 40 .mu.g/L of ethanol,
acetone, methanol, acetaldehyde, methacrolein, methyl vinyl ketone,
2-methyl-2-vinyloxirane, cis- and trans-3-methyl-1,3-pentadiene, a
C5 prenyl alcohol, or any two or more of the foregoing.
[0294] In some embodiments, the highly pure isoprene starting
composition includes one or more of the following components:
2-heptanone, 6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, 2,3-cycloheptenolpyridine, or a
linear isoprene polymer (such as a linear isoprene dimer or a
linear isoprene trimer derived from the polymerization of multiple
isoprene units). In various embodiments, the amount of one of these
components relative to amount of isoprene in units of percentage by
weight (i.e., weight of the component divided by the weight of
isoprene times 100) is greater than or about 0.01, 0.02, 0.05, 0.1,
0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or 110% (w/w).
In some embodiments, the relative detector response for the second
compound compared to the detector response for isoprene is greater
than or about 0.01, 0.02, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 50,
60, 70, 80, 90, 100, or 110%. In various embodiments, the amount of
one of these components relative to amount of isoprene in units of
percentage by weight (i.e., weight of the component divided by the
weight of isoprene times 100) is between about 0.01 to about 105%
(w/w), such as about 0.01 to about 90, about 0.01 to about 80,
about 0.01 to about 50, about 0.01 to about 20, about 0.01 to about
10, about 0.02 to about 50, about 0.05 to about 50, about 0.1 to
about 50, or 0.1 to about 20% (w/w).
[0295] In some embodiments, at least a portion of the highly pure
isoprene starting composition is in a gas phase. In some
embodiments, at least a portion of the highly pure isoprene
starting composition is in a liquid phase (such as a condensate).
In some embodiments, at least a portion of the highly pure isoprene
starting composition is in a solid phase. In some embodiments, at
least a portion of the highly pure isoprene starting composition is
absorbed to a solid support, such as a support that includes silica
and/or activated carbon. In some embodiments, the starting isoprene
composition is mixed with one or more solvents. In some
embodiments, the starting isoprene composition is mixed with one or
more gases.
[0296] In other embodiments, the commercially beneficial amount of
highly pure isoprene starting composition is produced by a
biological process. In some preferred embodiments, the highly pure
isoprene starting composition is a bioisoprene composition produced
by culturing cells that produce greater than about 400 nmole of
isoprene/gram of cells for the wet weight of the cells/hour
(nmole/g.sub.wcm/hr) of isoprene. In one embodiment, the
bioisoprene composition is produced by culturing cells that convert
more than about 0.002% of the carbon in a cell culture medium into
isoprene. In other embodiments, the cells have a heterologous
nucleic acid that (i) encodes an isoprene synthase polypeptide,
e.g. a naturally-occurring polypeptide from a plant such as
Pueraria, and (ii) is operably linked to a promoter, e.g. a T7
promoter. Other isoprene synthase polypeptides, for example, from
poplar and variants of naturally-occurring as well as parent
isoprene synthase, can be used to produce bioisoprene. Examples of
isoprene synthase and its variants that can be used are described
in U.S. application Ser. No. 12/429,143, which is incorporated
herein in its entirety.
[0297] In some embodiments, the cells are cultured in a culture
medium that includes a carbon source, such as, but not limited to,
a carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions. In some embodiment, the cells further
comprise a heterologous nucleic acid encoding an IDI polypeptide.
In some embodiments, the cells further comprise a heterologous
nucleic acid encoding an MDV pathway polypeptide. In some
embodiment, the starting isoprene composition is an isoprene
composition as descried or is produced by culturing any of the
cells described in U.S. provisional patent application Nos.
61/134,094, filed on Jul. 2, 2008, WO 2010/003007, and U.S. patent
application Ser. No. 12/335,071, filed Dec. 15, 2008 (US
2009/0203102 A1), which are incorporated by reference in their
entireties.
[0298] In some embodiments, the highly pure isoprene starting
composition comprises a gas phase (off-gas) produced by cells in
culture that produces isoprene. In some embodiments, the gas phase
has a nonflammable concentration of isoprene. In some embodiments,
the gas phase comprises less than about 9.5% (volume) oxygen. In
some embodiments, the gas phase comprises greater than or about
9.5% (volume) oxygen, and the concentration of isoprene in the gas
phase is less than the lower flammability limit or greater than the
upper flammability limit. In some embodiments, the portion of the
gas phase other than isoprene comprises between about 0% to about
100% (volume) oxygen, such as between about 10% to about 100%
(volume) oxygen. In some embodiments, the portion of the gas phase
other than isoprene comprises between about 0% to about 99%
(volume) nitrogen. In some embodiments, the portion of the gas
phase other than isoprene comprises between about 1% to about 50%
(volume) CO.sub.2.
[0299] In some embodiments, the highly pure isoprene starting
composition includes one or more of the following: an alcohol, an
aldehyde, a ketone, or an ester (such as any of the alcohols,
aldehydes, ketones or esters described herein). In some
embodiments, the isoprene composition includes (i) an alcohol and
an aldehyde, (ii) an alcohol and a ketone, (iii) an aldehyde and a
ketone, or (iv) an alcohol, an aldehyde, and a ketone. In some
embodiments, any of the isoprene compositions further includes an
ester.
[0300] In some embodiments, the highly pure isoprene starting
composition derived from a biological source (such as a cell
culture) contains one or more of the following: methanol,
acetaldehyde, ethanol, methanethiol, 1-butanol,
3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole. In some embodiments, the starting
isoprene composition contains 1 ppm or more of one or more of the
following: methanol, acetaldehyde, ethanol, methanethiol,
1-butanol, 3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole. In some embodiments, the
concentration of more of one or more of the following: methanol,
acetaldehyde, ethanol, methanethiol, 1-butanol,
3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole, is between about 1 to about 10,000
ppm in a starting isoprene composition (such as off-gas before it
is purified). In some embodiments, the starting isoprene
composition (such as off-gas after it has undergone one or more
purification steps) includes one or more of the following:
methanol, acetaldehyde, ethanol, methanethiol, 1-butanol,
3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole, at a concentration between about 1
to about 100 ppm, such as about 1 to about 10 ppm, about 10 to
about 20 ppm, about 20 to about 30 ppm, about 30 to about 40 ppm,
about 40 to about 50 ppm, about 50 to about 60 ppm, about 60 to
about 70 ppm, about 70 to about 80 ppm, about 80 to about 90 ppm,
or about 90 to about 100 ppm. In some embodiments, the starting
isoprene composition contains less than 1 ppm of methanethiol (a
potent catalyst poison and a source of sulfur in the final fuel
product) Volatile organic compounds from cell cultures (such as
volatile organic compounds in the headspace of cell cultures) can
be analyzed using standard methods such as those described herein
or other standard methods such as proton transfer reaction-mass
spectrometry (see, for example, Bunge et al., Applied and
Environmental Microbiology, 74(7):2179-2186, 2008 which is hereby
incorporated by reference in its entirety, particular with respect
to the analysis of volatile organic compounds).
[0301] The invention also contemplates the use of highly pure
isoprene starting composition that is derived from a biological
source (such as a cell culture) the co-produces isoprene and
hydrogen. In some embodiments, the starting bioisoprene
compositions comprise isoprene and hydrogen in ratios ranging from
at least one molar percent of isoprene for every three molar
percent of hydrogen to at least one molar percent of isoprene for
every four molar percent of hydrogen. In some embodiments, the
starting bioisoprene compositions comprise isoprene and hydrogen in
molar ratios of about 1 to 9, 2 to 8, 3 to 7, 4 to 6, 5 to 5, 6 to
4, 7 to 3, 8 to 2, or 9 to 1. In some embodiments, the composition
further comprises from 1 to 11 molar percent isoprene and from 4 to
44 molar percent hydrogen. In some embodiments, the composition
further comprises oxygen, carbon dioxide, or nitrogen. In some
embodiments, the composition further comprises from 0 to 21 molar
percent oxygen, from 18 to 44 molar percent carbon dioxide, and
from 0 to 78 molar percent nitrogen. In some embodiments, the
composition further comprises 1.0.times.10.sup.-4 molar percent or
less of non-methane volatile impurities. In some embodiments, the
non-methane volatile impurities comprise one or more of the
following: 2-heptanone, 6-methyl-5-hepten-2-one,
2,4,5-trimethylpyridine, 2,3,5-trimethylpyrazine, citronellal,
acetaldehyde, methanethiol, methyl acetate, 1-propanol, diacetyl,
2-butanone, 2-methyl-3-buten-2-ol, ethyl acetate,
2-methyl-1-propanol, 3-methyl-1-butanal, 3-methyl-2-butanone,
1-butanol, 2-pentanone, 3-methyl-1-butanol, ethyl isobutyrate,
3-methyl-2-butenal, butyl acetate, 3-methylbutyl acetate,
3-methyl-3-buten-1-yl acetate, 3-methyl-2-buten-1-yl acetate,
3-hexen-1-ol, 3-hexen-1-yl acetate, limonene, geraniol
(trans-3,7-dimethyl-2,6-octadien-1-ol), citronellol
(3,7-dimethyl-6-octen-1-ol), (E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, 2,3-cycloheptenolpyridine, or a
linear isoprene polymer (such as a linear isoprene dimer or a
linear isoprene trimer derived from the polymerization of multiple
isoprene units). In some embodiments, the non-methane volatile
impurities comprise one or more of the following: the isoprene
composition includes one or more of the following: an alcohol, an
aldehyde, or a ketone (such as any of the alcohols, aldehydes, or
ketones described herein). In some embodiments, the isoprene
composition includes (i) an alcohol and an aldehyde, (ii) an
alcohol and a ketone, (iii) an aldehyde and a ketone, or (iv) an
alcohol, an aldehyde, and a ketone. In some embodiments, the
non-methane volatile impurities comprise one or more of the
following: methanol, acetaldehyde, ethanol, methanethiol,
1-butanol, 3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole.
[0302] Techniques for producing isoprene in cultures of cells that
produce isoprene are described in U.S. provisional patent
application Nos. 61/013,386 and 61/013,574, filed on Dec. 13, 2007,
WO 2009/076676, U.S. provisional patent application Nos.
61/134,094, 61/134,947, 61/134,011 and 61/134,103, filed on Jul. 2,
2008, WO 2010/003007, U.S. provisional patent application No.
61/097,163, filed on Sep. 15, 2008, WO 2010/031079, U.S.
provisional patent application No. 61/097,186, filed on Sep. 15,
2008, WO 2010/031062, U.S. provisional patent application No.
61/097,189, filed on Sep. 15, 2008, WO 2010/031077, U.S.
provisional patent application No. 61/097,200, filed on Sep. 15,
2008, WO 2010/031068, U.S. provisional patent application No.
61/097,204, filed on Sep. 15, 2008, WO 2010/031076, U.S.
provisional patent application No. 61/141,652, filed on Dec. 30,
2008, PCT/US09/069,862, U.S. patent application Ser. No.
12/335,071, filed Dec. 15, 2008 (US 2009/0203102 A1) and U.S.
patent application Ser. No. 12/429,143, filed Apr. 23, 2009 (US
2010/0003716 A1), the teachings of which are incorporated herein by
reference for the purpose of teaching techniques for producing and
recovering isoprene by such a process. In any case, U.S.
provisional patent application Nos. 61/013,386 and 61/013,574,
filed on Dec. 13, 2007, WO 2009/076676, U.S. provisional patent
application Nos. 61/134,094, 61/134,947, 61/134,011 and 61/134,103,
filed on Jul. 2, 2008, WO 2010/003007, U.S. provisional patent
application No. 61/097,163, filed on Sep. 15, 2008, WO 2010/031079,
U.S. provisional patent application No. 61/097,186, filed on Sep.
15, 2008, WO 2010/031062, U.S. provisional patent application No.
61/097,189, filed on Sep. 15, 2008, WO 2010/031077, U.S.
provisional patent application No. 61/097,200, filed on Sep. 15,
2008, WO 2010/031068, U.S. provisional patent application No.
61/097,204, filed on Sep. 15, 2008, WO 2010/031076, U.S.
provisional patent application No. 61/141,652, filed on Dec. 30,
2008, PCT/US09/069,862, U.S. patent application Ser. No.
12/335,071, filed Dec. 15, 2008 (US 2009/0203102 A1) and U.S.
patent application Ser. No. 12/429,143, filed Apr. 23, 2009 (US
2010/0003716 A1) teach compositions and methods for the production
of increased amounts of isoprene in cell cultures. U.S. patent
application Ser. No. 12/335,071, filed Dec. 15, 2008 and US
2009/0203102 A1 further teaches compositions and methods for
co-production of isoprene and hydrogen from cultured cells. In
particular, these compositions and methods compositions and methods
increase the rate of isoprene production and increase the total
amount of isoprene that is produced. For example, cell culture
systems that generate 4.8.times.10.sup.4 nmole/g.sub.wcm/hr of
isoprene have been produced (Table 1). The efficiency of these
systems is demonstrated by the conversion of about 2.2% of the
carbon that the cells consume from a cell culture medium into
isoprene. As shown in the Examples and Table 2, approximately 3 g
of isoprene per liter of broth was generated. If desired, even
greater amounts of isoprene can be obtained using other conditions,
such as those described herein. In some embodiments, a renewable
carbon source is used for the production of isoprene. In some
embodiments, the production of isoprene is decoupled from the
growth of the cells. In some embodiments, the concentrations of
isoprene and any oxidants are within the nonflammable ranges to
reduce or eliminate the risk that a fire may occur during
production or recovery of isoprene. The compositions and methods
are desirable because they allow high isoprene yield per cell, high
carbon yield, high isoprene purity, high productivity, low energy
usage, low production cost and investment, and minimal side
reactions. This efficient, large scale, biosynthetic process for
isoprene production provides an isoprene source for synthetic
isoprene-based products such as rubber and provides a desirable,
low-cost alternative to using natural rubber.
[0303] As discussed further below, the amount of isoprene produced
by cells can be greatly increased by introducing a heterologous
nucleic acid encoding an isoprene synthase polypeptide (e.g., a
plant isoprene synthase polypeptide) into the cells. Isoprene
synthase polypeptides convert dimethyl allyl diphosphate (DMAPP)
into isoprene. As shown in the Examples, a heterologous Pueraria
Montana (kudzu) isoprene synthase polypeptide was expressed in a
variety of host cells, such as Escherichia coli, Panteoa citrea,
Bacillus subtilis, Yarrowia lipolytica, and Trichoderma reesei. All
of these cells produced more isoprene than the corresponding cells
without the heterologous isoprene synthase polypeptide. As
illustrated in Tables 1 and 2, large amounts of isoprene are
produced using the methods described herein. For example, B.
subtilis cells with a heterologous isoprene synthase nucleic acid
produced approximately 10-fold more isoprene in a 14 liter
fermentor than the corresponding control B. subtilis cells without
the heterologous nucleic acid (Table 2). The production of 300 mg
of isoprene per liter of broth (mg/L, wherein the volume of broth
includes both the volume of the cell medium and the volume of the
cells) by E. coli and 30 mg/L by B. subtilis in fermentors
indicates that significant amounts of isoprene can be generated
(Table 2). If desired, isoprene can be produced on an even larger
scale or other conditions described herein can be used to further
increase the amount of isoprene. The vectors listed in Tables 1 and
2 and the experimental conditions are described in further detail
below and in the Examples section.
TABLE-US-00001 TABLE 1 Exemplary yields of isoprene from a shake
flask using the cell cultures and methods described herein. The
assay for measuring isoprene production is described in Example I,
part II. For this assay, a sample was removed at one or more time
points from the shake flask and cultured for 30 minutes. The amount
of isoprene produced in this sample was then measured. The
headspace concentration and specific rate of isoprene production
are listed in Table 1 and described further herein. Isoprene
Production in a Headspace vial* Headspace Specific Rate
concentration .mu.g/L.sub.broth/hr/OD Strain .mu.g/L.sub.gas
(nmol/g.sub.wcm/hr) E. coli BL21/pTrcKudzu IS 1.40 53.2 (781.2) E.
coli BL21/pCL DXS yidi Kudzu 7.61 289.1 IS (4.25 .times. 10.sup.3)
E. coli BL21/MCM127 with kudzu 23.0 874.1 IS and entire MVA pathway
(1.28 .times. 10.sup.4) E. coli BL21/pET N-HisKudzu IS 1.49 56.6
(831.1) Pantoea citrea/pTrcKudzu IS 0.66 25.1 (368.6) E. coli w/
Poplar IS -- 5.6 [Miller (2001)] (82.2) Bacillis licheniformis Fall
U.S. Pat. No. -- 4.2 5,849,970 (61.4) Yarrowia lipolytica with
kudzu ~0.05 .mu.g/L ~2 isoprene synthase (~30) Trichoderma reesei
with kudzu ~0.05 .mu.g/L ~2 isoprene synthase (~30) E. coli
BL21/pTrcKKD.sub.yI.sub.kIS with 85.9 3.2 .times. 10.sup.3 kudzu IS
and lower MVA pathway (4.8 .times. 10.sup.4) *Normalized to 1 mL of
1 OD.sub.600, cultured for 1 hour in a sealed headspace vial with a
liquid to headspace volume ratio of 1:19.
TABLE-US-00002 TABLE 2 Exemplary yields of isoprene in a fermentor
using the cell cultures and methods described herein. The assay for
measuring isoprene production is described in Example I, part II.
For this assay, a sample of the off-gas of the fermentor was taken
and analyzed for the amount of isoprene. The peak headspace
concentration (which is the highest headspace concentration during
the fermentation), titer (which is the cumulative, total amount of
isoprene produced per liter of broth), and peak specific rate of
isoprene production (which is the highest specific rate during the
fermentation) are listed in Table 2 and described further herein.
Isoprene Production in Fermentors Peak Headspace Peak Specific Rate
concentration** Titer .mu.g/L.sub.broth/hr/OD Strain
(.mu.g/L.sub.gas) (mg/L.sub.broth) (nmol/g.sub.wcm/hr) E. coli
BL21/pTrcKudzu 52 41.2 37 with Kudzu IS (543.3) E. coli
FM5/pTrcKudzu 3 3.5 21.4 IS (308.1) E. coli BL21/triple strain 285
300 240 (DXS, yidi, IS) (3.52 .times. 10.sup.3) E. coli FM5/triple
strain 50.8 29 180.8 (DXS, yidi, IS) (2.65 .times. 10.sup.3) E.
coli/MCM127 with 3815 3044 992.5 Kudzu IS and entire MVA (1.46
.times. 10.sup.4) pathway E. coli BL21/pCLPtrc 2418 1640 1248 Upper
Pathway gi1.2 (1.83 .times. 10.sup.4) integrated lower pathway
pTrcKudzu E. coli BL21/MCM401 13991 23805 3733 with 4 .times. 50
.mu.M IPTG (5.49 .times. 10.sup.4) E. coli BL21/MCM401 22375 19541
5839.5 with 2 .times. 1000 .mu.M IPTG (8.59 .times. 10.sup.4) E.
coli BL21/pCLPtrc 3500 3300 1088 UpperPathwayHGS2- (1.60 .times.
10.sup.4) pTrcKKDyIkIS Bacillus subtilis wild-type 1.5 2.5 0.8
(11.7) Bacillus pBS Kudzu IS 16.6 ~30 5 (over 100 hrs) (73.4)
Bacillus Marburg 6051 2.04 0.61 24.5 [Wagner and Fall (1999)]
(359.8) Bacillus Marburg 6051 0.7 0.15 6.8 Fall U.S. Pat. No.
5,849,970 (100) E. coli 2.03 .times. 10.sup.4 3.22 .times. 10.sup.4
5.9 .times. 10.sup.3 BL21/pCLPtrcUpperPath (8.66 .times. 10.sup.4)
way and gil.2KKDyI and pTrcAlba-mMVK E. coli 3.22 .times. 10.sup.4
6.05 .times. 10.sup.4 1.28 .times. 10.sup.4 BL21/pCLPtrcUpper (1.88
.times. 10.sup.5) Pathway and gi1.2KKDyI and pTrcAlba-mMVK plus
pBBRCMPGI1.5pgl **Normalized to an off-gas flow rate of 1 vvm (1
volume off-gas per 1 L.sub.broth per minute). Additionally,
isoprene production by cells that contain a heterologous isoprene
synthase nucleic acid can be enhanced by increasing the amount of a
1-deoxy-D-xylulose-5-phosphate synthase (DXS) polypeptide and/or an
isopentenyl diphosphate isomerase (IDI) polypeptide expressed by
the cells. For example, a DXS nucleic acid and/or an IDI nucleic
acid can be introduced into the cells. The DXS nucleic acid may be
a heterologous nucleic acid or a duplicate copy of an endogenous
nucleic acid. Similarly, the IDI nucleic acid may be a heterologous
nucleic acid or a duplicate copy of an endogenous nucleic acid. In
some embodiments, the amount of DXS and/or IDI polypeptide is
increased by replacing the endogenous DXS and/or IDI promoters or
regulatory regions with other promoters and/or regulatory regions
that result in greater transcription of the DXS and/or IDI nucleic
acids. In some embodiments, the cells contain both a heterologous
nucleic acid encoding an isoprene synthase polypeptide (e.g., a
plant isoprene synthase nucleic acid) and a duplicate copy of an
endogenous nucleic acid encoding an isoprene synthase
polypeptide.
[0304] The encoded DXS and IDI polypeptides are part of the DXP
pathway for the biosynthesis of isoprene (FIG. 19A). DXS
polypeptides convert pyruvate and D-glyceraldehyde-3-phosphate into
1-deoxy-D-xylulose-5-phosphate. While not intending to be bound by
any particular theory, it is believed that increasing the amount of
DXS polypeptide increases the flow of carbon through the DXP
pathway, leading to greater isoprene production. IDI polypeptides
catalyze the interconversion of isopentenyl diphosphate (IPP) and
dimethyl allyl diphosphate (DMAPP). While not intending to be bound
by any particular theory, it is believed that increasing the amount
of IDI polypeptide in cells increases the amount (and conversion
rate) of IPP that is converted into DMAPP, which in turn is
converted into isoprene.
[0305] For example, fermentation of E. coli cells with a kudzu
isoprene synthase, S. cerevisia IDI, and E. coli DXS nucleic acids
was used to produce isoprene. The levels of isoprene varied from 50
to 300 .mu.g/L over a time period of 15 hours (Example 7, part
VII).
[0306] In some embodiments, the presence of heterologous or extra
endogenous isoprene synthase, IDI, and DXS nucleic acids causes
cells to grow more reproducibly or remain viable for longer
compared to the corresponding cell with only one or two of these
heterologous or extra endogenous nucleic acids. For example, cells
containing heterologous isoprene synthase, IDI, and DXS nucleic
acids grew better than cells with only heterologous isoprene
synthase and DXS nucleic acids or with only a heterologous isoprene
synthase nucleic acid. Also, heterologous isoprene synthase, IDI,
and DXS nucleic acids were successfully operably linked to a strong
promoter on a high copy plasmid that was maintained by E. coli
cells, suggesting that large amounts of these polypeptides could be
expressed in the cells without causing an excessive amount of
toxicity to the cells. While not intending to be bound to a
particular theory, it is believed that the presence of heterologous
or extra endogenous isoprene synthase and IDI nucleic acids may
reduce the amount of one or more potentially toxic intermediates
that would otherwise accumulate if only a heterologous or extra
endogenous DXS nucleic acid was present in the cells.
[0307] In some embodiments, the production of isoprene by cells
that contain a heterologous isoprene synthase nucleic acid is
augmented by increasing the amount of a MVA polypeptide expressed
by the cells (FIGS. 19A and 19B). Exemplary MVA pathways
polypeptides include any of the following polypeptides: acetyl-CoA
acetyltransferase (AA-CoA thiolase) polypeptides,
3-hydroxy-3-methylglutaryl-CoA synthase (HMG-CoA synthase)
polypeptides, 3-hydroxy-3-methylglutaryl-CoA reductase (HMG-CoA
reductase) polypeptides, mevalonate kinase (MVK) polypeptides,
phosphomevalonate kinase (PMK) polypeptides, diphosphomevalonate
decarboxylase (MVD) polypeptides, phosphomevalonate decarboxylase
(PMDC) polypeptides, isopentenyl phosphate kinase (IPK)
polypeptides, IDI polypeptides, and polypeptides (e.g., fusion
polypeptides) having an activity of two or more MVA pathway
polypeptides. For example, one or more MVA pathway nucleic acids
can be introduced into the cells. In some embodiments, the cells
contain the upper MVA pathway, which includes AA-CoA thiolase,
HMG-CoA synthase, and HMG-CoA reductase nucleic acids. In some
embodiments, the cells contain the lower MVA pathway, which
includes MVK, PMK, MVD, and IDI nucleic acids. In some embodiments,
the cells contain an entire MVA pathway that includes AA-CoA
thiolase, HMG-CoA synthase, HMG-CoA reductase, MVK, PMK, MVD, and
IDI nucleic acids. In some embodiments, the cells contain an entire
MVA pathway that includes AA-CoA thiolase, HMG-CoA synthase,
HMG-CoA reductase, MVK, PMDC, IPK, and IDI nucleic acids. The MVA
pathway nucleic acids may be heterologous nucleic acids or
duplicate copies of endogenous nucleic acids. In some embodiments,
the amount of one or more MVA pathway polypeptides is increased by
replacing the endogenous promoters or regulatory regions for the
MVA pathway nucleic acids with other promoters and/or regulatory
regions that result in greater transcription of the MVA pathway
nucleic acids. In some embodiments, the cells contain both a
heterologous nucleic acid encoding an isoprene synthase polypeptide
(e.g., a plant isoprene synthase nucleic acid) and a duplicate copy
of an endogenous nucleic acid encoding an isoprene synthase
polypeptide.
[0308] For example, E. coli cells containing a nucleic acid
encoding a kudzu isoprene synthase polypeptide and nucleic acids
encoding Saccharomyces cerevisiae MVK, PMK, MVD, and IDI
polypeptides generated isoprene at a rate of 6.67.times.10.sup.-4
mol/L.sub.broth/OD.sub.600/hr (see Example 8). Additionally, a 14
liter fermentation of E. coli cells with nucleic acids encoding
Enterococcus faecalis AA-CoA thiolase, HMG-CoA synthase, and
HMG-CoA reductase polypeptides produced 22 grams of mevalonic acid
(an intermediate of the MVA pathway). A shake flask of these cells
produced 2-4 grams of mevalonic acid per liter. These results
indicate that heterologous MVA pathways nucleic acids are active in
E. coli. E. coli cells that contain nucleic acids for both the
upper MVA pathway and the lower MVA pathway as well as a kudzu
isoprene synthase (strain MCM 127) produced significantly more
isoprene (874 .mu.g/L) compared to E. coli cells with nucleic acids
for only the lower MVA pathway and the kudzu isoprene synthase
(strain MCM 131) (see Table 3 and Example 8, part VIII).
[0309] In some embodiments, at least a portion of the cells
maintain the heterologous isoprene synthase, DXS, IDI, and/or MVA
pathway nucleic acid for at least about 5, 10, 20, 50, 75, 100,
200, 300, or more cell divisions in a continuous culture (such as a
continuous culture without dilution). In some embodiments of any of
the aspects described herein, the nucleic acid comprising the
heterologous or duplicate copy of an endogenous isoprene synthase,
DXS, IDI, and/or MVA pathway nucleic acid also comprises a
selective marker, such as a kanamycin, ampicillin, carbenicillin,
gentamicin, hygromycin, phleomycin, bleomycin, neomycin, or
chloramphenicol antibiotic resistance nucleic acid.
[0310] As indicated in Example 7, part VI, the amount of isoprene
produced can be further increased by adding yeast extract to the
cell culture medium. In this example, the amount of isoprene
produced was linearly proportional to the amount of yeast extract
in the cell medium for the concentrations tested (FIG. 48C).
Additionally, approximately 0.11 grams of isoprene per liter of
broth was produced from a cell medium with yeast extract and
glucose (Example 7, part VIII). Both of these experiments used E.
coli cells with kudzu isoprene synthase, S. cerevisia IDI, and E.
coli DXS nucleic acids to produce isoprene. Increasing the amount
of yeast extract in the presence of glucose resulted in more
isoprene being produced than increasing the amount of glucose in
the presence of yeast extract. Also, increasing the amount of yeast
extract allowed the cells to produce a high level of isoprene for a
longer length of time and improved the health of the cells.
[0311] Isoprene production was also demonstrated using three types
of hydrolyzed biomass (bagasse, corn stover, and soft wood pulp) as
the carbon source (FIGS. 46A-C). E. coli cells with kudzu isoprene
synthase, S. cerevisia IDI, and E. coli DXS nucleic acids produced
as much isoprene from these hydrolyzed biomass carbon sources as
from the equivalent amount of glucose (e.g., 1% glucose, w/v). If
desired, any other biomass carbon source can be used in the
compositions and methods described herein. Biomass carbon sources
are desirable because they are cheaper than many conventional cell
mediums, thereby facilitating the economical production of
isoprene.
[0312] Additionally, invert sugar was shown to function as a carbon
source for the generation of isoprene (FIGS. 47C and 96-98). For
example, 2.4 g/L of isoprene was produced from cells expressing MVA
pathway polypeptides and a Kudzu isoprene synthase (Example 8, part
XV). Glycerol was as also used as a carbon source for the
generation of 2.2 mg/L of isoprene from cells expressing a Kudzu
isoprene synthase (Example 8, part XIV). Expressing a DXS nucleic
acid, an IDI nucleic acid, and/or one or more MVA pathway nucleic
acids (such as nucleic acids encoding the entire MVA pathway) in
addition to an isoprene synthase nucleic acid may increase the
production of isoprene from glycerol.
[0313] In some embodiments, an oil is included in the cell medium.
For example, B. subtilis cells containing a kudzu isoprene synthase
nucleic acid produced isoprene when cultured in a cell medium
containing an oil and a source of glucose (Example 4, part III). As
another example, E. coli fadR atoC mutant cells containing the
upper and lower MVA pathway plus kudzu isoprene synthase produced
isoprene when cultured in a cell medium containing palm oil and a
source of glucose (Example 27, part II). In some embodiments, more
than one oil (such as 2, 3, 4, 5, or more oils) is included in the
cell medium. While not intending to be bound to any particular
theory, it is believed that (i) the oil may increase the amount of
carbon in the cells that is available for conversion to isoprene,
(ii) the oil may increase the amount of acetyl-CoA in the cells,
thereby increasing the carbon flow through the MVA pathway, and/or
(ii) the oil may provide extra nutrients to the cells, which is
desirable since much of the carbon in the cells is converted to
isoprene rather than other products. In some embodiments, cells
that are cultured in a cell medium containing oil naturally use the
MVA pathway to produce isoprene or are genetically modified to
contain nucleic acids for the entire MVA pathway. In some
embodiments, the oil is partially or completely hydrolyzed before
being added to the cell culture medium to facilitate the use of the
oil by the host cells.
[0314] One of the major hurdles to commercial production of small
molecules such as isoprene in cells (e.g., bacteria) is the
decoupling of production of the molecule from growth of the cells.
In some embodiments for the commercially viable production of
isoprene, a significant amount of the carbon from the feedstock is
converted to isoprene, rather than to the growth and maintenance of
the cells ("carbon efficiency"). In various embodiments, the cells
convert greater than or about 0.0015, 0.002, 0.005, 0.01, 0.02,
0.05, 0.1, 0.12, 0.14, 0.16, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8,
0.9, 1.0, 1.2, 1.4, 1.6, 1.8, 2.0, 2.5, 3.0, 3.5, 4.0, 5.0, 6.0,
7.0, or 8.0% of the carbon in the cell culture medium into
isoprene. In particular embodiments, a significant portion of the
carbon from the feedstock that is converted to downstream products
is converted to isoprene. As described further in Example 11, E.
coli cells expressing MVA pathway and kudzu isoprene synthase
nucleic acids exhibited decoupling of the production of isoprene or
the intermediate mevalonic acid from growth, resulting in high
carbon efficiency. In particular, mevalonic acid was formed from
cells expressing the upper MVA pathway from Enterococcus faecalis.
Isoprene was formed from cells expressing the upper MVA pathway
from Enterococcus faecalis, the lower MVA pathway from
Saccharomyces cerevisiae, and the isoprene synthase from Pueraria
montana (Kudzu). This decoupling of isoprene or mevalonic acid
production from growth was demonstrated in four different strains
of E. coli: BL21(LDE3), BL21(LDE3) Tuner, FM5, and MG1655. The
first two E. coli strains are B strains, and the latter two are K12
strains. Decoupling of production from growth was also demonstrated
in a variant of MG1655 with ack and pta genes deleted. This variant
also demonstrated less production of acetate.
Exemplary Polypeptides and Nucleic Acids
[0315] Various isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation or transcription factor
polypeptides and nucleic acids can be used in the compositions and
methods described herein.
[0316] In some embodiments, the fusion polypeptide includes part or
all of a first polypeptide (e.g., an isoprene synthase, DXS, IDI,
MVA pathway, hydrogenase, hydrogenase maturation or transcription
factor polypeptide or catalytically active fragment thereof) and
may optionally include part or all of a second polypeptide (e.g., a
peptide that facilitates purification or detection of the fusion
polypeptide, such as a His-tag). In some embodiments, the fusion
polypeptide has an activity of two or more MVA pathway polypeptides
(such as AA-CoA thiolase and HMG-CoA reductase polypeptides). In
some embodiments, the polypeptide is a naturally-occurring
polypeptide (such as the polypeptide encoded by an Enterococcus
faecalis mvaE nucleic acid) that has an activity of two or more MVA
pathway polypeptides.
[0317] In various embodiments, a polypeptide has at least or about
50, 100, 150, 175, 200, 250, 300, 350, 400, or more amino acids. In
some embodiments, the polypeptide fragment contains at least or
about 25, 50, 75, 100, 150, 200, 300, or more contiguous amino
acids from a full-length polypeptide and has at least or about 5%,
10%, 20%, 30%, 40%, 50%, 60%, 70%, 80%, 90%, 95%, or 100% of an
activity of a corresponding full-length polypeptide. In particular
embodiments, the polypeptide includes a segment of or the entire
amino acid sequence of any naturally-occurring isoprene synthase,
DXS, IDI, MVA pathway, hydrogenase, hydrogenase maturation or
transcription factor polypeptide. In some embodiments, the
polypeptide has one or more mutations compared to the sequence of a
wild-type (i.e., a sequence occurring in nature) isoprene synthase,
DXS, IDI, MVA pathway, hydrogenase, hydrogenase maturation or
transcription factor polypeptide.
[0318] In some embodiments, the polypeptide is an isolated
polypeptide. In some embodiments, the polypeptide is a heterologous
polypeptide.
[0319] In some embodiments, the nucleic acid is a recombinant
nucleic acid. In some embodiments, an isoprene synthase, DXS, IDI,
MVA pathway, hydrogenase, hydrogenase maturation or transcription
factor nucleic acid is operably linked to another nucleic acid
encoding all or a portion of another polypeptide such that the
recombinant nucleic acid encodes a fusion polypeptide that includes
an isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation or transcription factor polypeptide and all
or part of another polypeptide (e.g., a peptide that facilitates
purification or detection of the fusion polypeptide, such as a
His-tag). In some embodiments, part or all of a recombinant nucleic
acid is chemically synthesized. It is to be understood that
mutations, including single nucleotide mutations, can occur within
a nucleic acid as defined herein.
[0320] In some embodiments, the nucleic acid is a heterologous
nucleic acid. In particular embodiments, the nucleic acid includes
a segment of or the entire nucleic acid sequence of any
naturally-occurring isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation or transcription factor nucleic
acid. In some embodiments, the nucleic acid includes at least or
about 50, 100, 150, 200, 300, 400, 500, 600, 700, 800, or more
contiguous nucleotides from a naturally-occurring isoprene synthase
nucleic acid DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation or transcription factor nucleic acid. In some
embodiments, the nucleic acid has one or more mutations compared to
the sequence of a wild-type (i.e., a sequence occurring in nature)
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation or transcription factor nucleic acid. In some
embodiments, the nucleic acid has one or more mutations (e.g., a
silent mutation) that increase the transcription or translation of
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, or
transcription factor nucleic acid. In some embodiments, the nucleic
acid is a degenerate variant of any nucleic acid encoding an
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation or transcription factor polypeptide.
[0321] The accession numbers of exemplary isoprene synthase, DXS,
IDI, and/or MVA pathway polypeptides and nucleic acids are listed
in Appendix 1 (the accession numbers of Appendix 1 and their
corresponding sequences are herein incorporated by reference in
their entireties, particularly with respect to the amino acid and
nucleic acid sequences of isoprene synthase, DXS, IDI, and/or MVA
pathway polypeptides and nucleic acids). The Kegg database also
contains the amino acid and nucleic acid sequences of numerous
exemplary isoprene synthase, DXS, IDI, and/or MVA pathway
polypeptides and nucleic acids (see, for example, the world-wide
web at "genome.jp/kegg/pathway/map/map00100.html" and the sequences
therein, which are each hereby incorporated by reference in their
entireties, particularly with respect to the amino acid and nucleic
acid sequences of isoprene synthase, DXS, IDI, and/or MVA pathway
polypeptides and nucleic acids). In some embodiments, one or more
of the isoprene synthase, DXS, IDI, and/or MVA pathway polypeptides
and/or nucleic acids have a sequence identical to a sequence
publicly available on Dec. 12, 2007 or Sep. 14, 2008 such as any of
the sequences that correspond to any of the accession numbers in
Appendix 1 or any of the sequences present in the Kegg database.
Additional exemplary isoprene synthase, DXS, IDI, and/or MVA
pathway polypeptides and nucleic acids are described further
below.
Exemplary Isoprene Synthase Polypeptides and Nucleic Acids
[0322] As noted above, isoprene synthase polypeptides convert
dimethyl allyl diphosphate (DMAPP) into isoprene. Exemplary
isoprene synthase polypeptides include polypeptides, fragments of
polypeptides, peptides, and fusions polypeptides that have at least
one activity of an isoprene synthase polypeptide. Standard methods
can be used to determine whether a polypeptide has isoprene
synthase polypeptide activity by measuring the ability of the
polypeptide to convert DMAPP into isoprene in vitro, in a cell
extract, or in vivo. In an exemplary assay, cell extracts are
prepared by growing a strain (e.g., the E. coli/pTrcKudzu strain
described herein) in the shake flask method as described in Example
1. After induction is complete, approximately 10 mL of cells are
pelleted by centrifugation at 7000.times.g for 10 minutes and
re-suspended in 5 ml of PEB without glycerol. The cells are lysed
using a French Pressure cell using standard procedures.
Alternatively the cells are treated with lysozyme (Ready-Lyse
lysozyme solution; EpiCentre) after a freeze/thaw at -80.degree.
C.
[0323] Isoprene synthase polypeptide activity in the cell extract
can be measured, for example, as described in Silver et al., J.
Biol. Chem. 270:13010-13016, 1995 and references therein, which are
each hereby incorporated by reference in their entireties,
particularly with respect to assays for isoprene synthase
polypeptide activity. DMAPP (Sigma) is evaporated to dryness under
a stream of nitrogen and re-hydrated to a concentration of 100 mM
in 100 mM potassium phosphate buffer pH 8.2 and stored at
-20.degree. C. To perform the assay, a solution of 5 .mu.L of 1M
MgCl.sub.2, 1 mM (250 .mu.g/ml) DMAPP, 65 .mu.L of Plant Extract
Buffer (PEB) (50 mM Tris-HCl, pH 8.0, 20 mM MgCl.sub.2, 5%
glycerol, and 2 mM DTT) is added to 25 .mu.L of cell extract in a
20 ml Headspace vial with a metal screw cap and teflon coated
silicon septum (Agilent Technologies) and cultured at 37.degree. C.
for 15 minutes with shaking. The reaction is quenched by adding 200
.mu.L of 250 mM EDTA and quantified by GC/MS as described in
Example 1, part II.
[0324] Exemplary isoprene synthase nucleic acids include nucleic
acids that encode a polypeptide, fragment of a polypeptide,
peptide, or fusion polypeptide that has at least one activity of an
isoprene synthase polypeptide. Exemplary isoprene synthase
polypeptides and nucleic acids include naturally-occurring
polypeptides and nucleic acids from any of the source organisms
described herein as well as mutant polypeptides and nucleic acids
derived from any of the source organisms described herein.
[0325] In some embodiments, the isoprene synthase polypeptide or
nucleic acid is from the family Fabaceae, such as the Faboideae
subfamily. In some embodiments, the isoprene synthase polypeptide
or nucleic acid is a polypeptide or nucleic acid from Pueraria
montana (kudzu) (Sharkey et al., Plant Physiology 137: 700-712,
2005), Pueraria lobata, poplar (such as Populus alba, Populus
nigra, Populus trichocarpa, or Populus alba.times.tremula
(CAC35696) Miller et al., Planta 213: 483-487, 2001) aspen (such as
Populus tremuloides) Silver et al., JBC 270(22): 13010-1316, 1995),
or English Oak (Quercus robur) (Zimmer et al., WO 98/02550), which
are each hereby incorporated by reference in their entireties,
particularly with respect to isoprene synthase nucleic acids and
the expression of isoprene synthase polypeptides. Suitable isoprene
synthases include, but are not limited to, those identified by
Genbank Accession Nos. AY341431, AY316691, AY279379, AJ457070, and
AY182241, which are each hereby incorporated by reference in their
entireties, particularly with respect to sequences of isoprene
synthase nucleic acids and polypeptides. In some embodiments, the
isoprene synthase polypeptide or nucleic acid is not a
naturally-occurring polypeptide or nucleic acid from Quercus robur
(i.e., the isoprene synthase polypeptide or nucleic acid is an
isoprene synthase polypeptide or nucleic acid other than a
naturally-occurring polypeptide or nucleic acid from Quercus
robur). In some embodiments, the isoprene synthase nucleic acid or
polypeptide is a naturally-occurring polypeptide or nucleic acid
from poplar. In some embodiments, the isoprene synthase nucleic
acid or polypeptide is not a naturally-occurring polypeptide or
nucleic acid from poplar.
Exemplary DXS Polypeptides and Nucleic Acids
[0326] As noted above, 1-deoxy-D-xylulose-5-phosphate synthase
(DXS) polypeptides convert pyruvate and
D-glyceraldehyde-3-phosphate into 1-deoxy-D-xylulose-5-phosphate.
Exemplary DXS polypeptides include polypeptides, fragments of
polypeptides, peptides, and fusions polypeptides that have at least
one activity of a DXS polypeptide. Standard methods (such as those
described herein) can be used to determine whether a polypeptide
has DXS polypeptide activity by measuring the ability of the
polypeptide to convert pyruvate and D-glyceraldehyde-3-phosphate
into 1-deoxy-D-xylulose-5-phosphate in vitro, in a cell extract, or
in vivo. Exemplary DXS nucleic acids include nucleic acids that
encode a polypeptide, fragment of a polypeptide, peptide, or fusion
polypeptide that has at least one activity of a DXS polypeptide.
Exemplary DXS polypeptides and nucleic acids include
naturally-occurring polypeptides and nucleic acids from any of the
source organisms described herein as well as mutant polypeptides
and nucleic acids derived from any of the source organisms
described herein.
Exemplary IDI Polypeptides and Nucleic Acids
[0327] Isopentenyl diphosphate isomerase polypeptides
(isopentenyl-diphosphate delta-isomerase or IDI) catalyses the
interconversion of isopentenyl diphosphate (IPP) and dimethyl allyl
diphosphate (DMAPP) (e.g., converting IPP into DMAPP and/or
converting DMAPP into IPP). Exemplary IDI polypeptides include
polypeptides, fragments of polypeptides, peptides, and fusions
polypeptides that have at least one activity of an IDI polypeptide.
Standard methods (such as those described herein) can be used to
determine whether a polypeptide has IDI polypeptide activity by
measuring the ability of the polypeptide to interconvert IPP and
DMAPP in vitro, in a cell extract, or in vivo. Exemplary IDI
nucleic acids include nucleic acids that encode a polypeptide,
fragment of a polypeptide, peptide, or fusion polypeptide that has
at least one activity of an IDI polypeptide. Exemplary IDI
polypeptides and nucleic acids include naturally-occurring
polypeptides and nucleic acids from any of the source organisms
described herein as well as mutant polypeptides and nucleic acids
derived from any of the source organisms described herein.
Exemplary MVA Pathway Polypeptides and Nucleic Acids
[0328] Exemplary MVA pathway polypeptides include acetyl-CoA
acetyltransferase (AA-CoA thiolase) polypeptides,
3-hydroxy-3-methylglutaryl-CoA synthase (HMG-CoA synthase)
polypeptides, 3-hydroxy-3-methylglutaryl-CoA reductase (HMG-CoA
reductase) polypeptides, mevalonate kinase (MVK) polypeptides,
phosphomevalonate kinase (PMK) polypeptides, diphosphomevalonate
decarboxylase (MVD) polypeptides, phosphomevalonate decarboxylase
(PMDC) polypeptides, isopentenyl phosphate kinase (IPK)
polypeptides, IDI polypeptides, and polypeptides (e.g., fusion
polypeptides) having an activity of two or more MVA pathway
polypeptides. In particular, MVA pathway polypeptides include
polypeptides, fragments of polypeptides, peptides, and fusions
polypeptides that have at least one activity of an MVA pathway
polypeptide. Exemplary MVA pathway nucleic acids include nucleic
acids that encode a polypeptide, fragment of a polypeptide,
peptide, or fusion polypeptide that has at least one activity of an
MVA pathway polypeptide. Exemplary MVA pathway polypeptides and
nucleic acids include naturally-occurring polypeptides and nucleic
acids from any of the source organisms described herein as well as
mutant polypeptides and nucleic acids derived from any of the
source organisms described herein.
[0329] In particular, acetyl-CoA acetyltransferase polypeptides
(AA-CoA thiolase or AACT) convert two molecules of acetyl-CoA into
acetoacetyl-CoA. Standard methods (such as those described herein)
can be used to determine whether a polypeptide has AA-CoA thiolase
polypeptide activity by measuring the ability of the polypeptide to
convert two molecules of acetyl-CoA into acetoacetyl-CoA in vitro,
in a cell extract, or in vivo.
[0330] 3-hydroxy-3-methylglutaryl-CoA synthase (HMG-CoA synthase or
HMGS) polypeptides convert acetoacetyl-CoA into
3-hydroxy-3-methylglutaryl-CoA. Standard methods (such as those
described herein) can be used to determine whether a polypeptide
has HMG-CoA synthase polypeptide activity by measuring the ability
of the polypeptide to convert acetoacetyl-CoA into
3-hydroxy-3-methylglutaryl-CoA in vitro, in a cell extract, or in
vivo.
[0331] 3-hydroxy-3-methylglutaryl-CoA reductase (HMG-CoA reductase
or HMGR) polypeptides convert 3-hydroxy-3-methylglutaryl-CoA into
mevalonate. Standard methods (such as those described herein) can
be used to determine whether a polypeptide has HMG-CoA reductase
polypeptide activity by measuring the ability of the polypeptide to
convert 3-hydroxy-3-methylglutaryl-CoA into mevalonate in vitro, in
a cell extract, or in vivo.
[0332] Mevalonate kinase (MVK) polypeptides phosphorylates
mevalonate to form mevalonate-5-phosphate. Standard methods (such
as those described herein) can be used to determine whether a
polypeptide has MVK polypeptide activity by measuring the ability
of the polypeptide to convert mevalonate into
mevalonate-5-phosphate in vitro, in a cell extract, or in vivo.
[0333] Phosphomevalonate kinase (PMK) polypeptides phosphorylates
mevalonate-5-phosphate to form mevalonate-5-diphosphate. Standard
methods (such as those described herein) can be used to determine
whether a polypeptide has PMK polypeptide activity by measuring the
ability of the polypeptide to convert mevalonate-5-phosphate into
mevalonate-5-diphosphate in vitro, in a cell extract, or in
vivo.
[0334] Diphosphomevalonate decarboxylase (MVD or DPMDC)
polypeptides convert mevalonate-5-diphosphate into isopentenyl
diphosphate (IPP). Standard methods (such as those described
herein) can be used to determine whether a polypeptide has MVD
polypeptide activity by measuring the ability of the polypeptide to
convert mevalonate-5-diphosphate into IPP in vitro, in a cell
extract, or in vivo.
[0335] Phosphomevalonate decarboxylase (PMDC) polypeptides convert
mevalonate-5-phosphate into isopentenyl phosphate (IP). Standard
methods (such as those described herein) can be used to determine
whether a polypeptide has PMDC polypeptide activity by measuring
the ability of the polypeptide to convert mevalonate-5-phosphate
into IP in vitro, in a cell extract, or in vivo.
[0336] Isopentenyl phosphate kinase (IPK) polypeptides
phosphorylate isopentyl phosphate (IP) to form isopentenyl
diphosphate (IPP). Standard methods (such as those described
herein) can be used to determine whether a polypeptide has IPK
polypeptide activity by measuring the ability of the polypeptide to
convert IP into IPP in vitro, in a cell extract, or in vivo.
[0337] Exemplary IDI polypeptides and nucleic acids are described
above.
Exemplary Hydrogenase Polypeptides and Nucleic Acids
[0338] Hydrogenase polypeptides catalyze the reaction:
2H.sup.++2e.sup.-<->H.sub.2. In vitro that reaction is
reversible, but certain hydrogenases may work in only one direction
in vivo, either oxidizing H.sub.2 or reducing H.sup.+. Hydrogenase
polypeptides can be oxygen-sensitive, contain complex metal
cofactors as part of their catalytic center and sometimes consist
of multiple subunits, with hydrogenase gene expression sometimes
involving additional accessory polypeptides, such as `maturation`
factors or transcription regulatory factors (i.e., activators or
repressors). Hydrogenases are classified into at least three broad
groups based upon the type of metal cofactor in their catalytic
center: (1) nickel-iron ("NiFe") hydrogenases have a nickel/iron
cofactor; (2) iron-iron hydrogenases ("FeFe") have an iron/iron
cofactor; and (3) iron/sulfur-free ("Fe") hydrogenases, which lack
the 4Fe4S clusters found in groups (1) and (2), have an iron
cofactor and a methenyl-tetrahydromethanopterin electron carrier.
See, e.g., Chung-Jung Chou et al., "Hydrogenesis in
hyperthermophilic microorganisms: implications for biofuels,"
Metabol. Eng. 10:394-404 (2008), and Gonul Vardar-Schara et al.,
"Metabolically engineered bacteria for producing hydrogen via
fermentation," Microbial Biotechnol. 1(2):107-125 (2008), both of
which are incorporated herein by reference in their entireties,
particularly with respect to the various types and classes of
hydrogenases. Although many organisms contain multiple
hydrogenases, few contain genes for both NiFe and FeFe
hydrogenases.
[0339] The catalytic center of NiFe hydrogenases consists of a
nickel atom and an iron atom, each with two carbon monoxide (CO)
and two cyanide (CN.sup.-) ligands. The NiFe hydrogenases all
comprise at least a second subunit containing multiple iron-sulfur
(Fe--S) centers for the transfer of electrons to and from the
catalytic center. The NiFe hydrogenases can be subdivided into four
main classes: (1) respiratory enzymes, which are part of
multi-enzyme systems that couple the oxidation of H.sub.2 to
reduction of terminal electron acceptors such as SO.sub.4.sup.2- or
NO.sub.3.sup.- under anaerobic conditions, or to O.sub.2 in aerobic
microorganisms; (2) H.sub.2 sensors, which activate expression of
the metabolically active NiFe hydrogenases; (3) cytoplasmic
hydrogenases, containing multiple subunits able to utilize
NADP.sup.+, which are readily reversible in vitro, but in vivo may
only oxidize H.sub.2; and (4) membrane-bound, energy-conserving
multi-enzyme complexes also found in bacteria and Archaea.
Chung-Jung Chou et al., "Hydrogenesis in hyperthermophilic
microorganisms: implications for biofuels," Metabol. Eng.
10:394-404 (2008).
[0340] The catalytic center of FeFe hydrogenases contains a
catalytic "H cluster" which coordinates a binuclear (FeFe) site
bridged to a [4Fe-4S] center by a single protein (cysteine) ligand.
The two iron atoms of the binuclear center each have two carbon
monoxide (CO) and two cyanide (CN.sup.-) ligands, and are also
bridged by two sulfur atoms which are part of a small organic
molecule. Most FeFe hydrogenases are monomeric enzymes of about 50
kilodaltons (kDa), and appear to function in vivo primarily to
dispose of excess reducing equivalents by reducing protons to
hydrogen gas. Chung-Jung Chou et al., "Hydrogenesis in
hyperthermophilic microorganisms: implications for biofuels,"
Metabol. Eng. 10:394-404 (2008).
[0341] The catalytic center of Fe hydrogenases was originally
thought to have an active site based on an organic cofactor with no
metals involved, but was later shown to contain a mononuclear Fe
atom. Despite the phylogenetic differences between the three types
of hydrogenase, in addition to at least one iron atom, all three
groups of hydrogenases also contain at least one carbon monoxide
(CO) ligand to the iron atom in their active sites, which
facilitates the catalytic oxidation of H.sub.2 and the reduction of
protons. Chung-Jung Chou et al., "Hydrogenesis in hyperthermophilic
microorganisms: implications for biofuels," Metabol. Eng.
10:394-404 (2008).
[0342] Exemplary hydrogenase polypeptides include, but are not
limited to, the E. coli hydrogenase-1 (Hyd-1) polypeptides, E. coli
hydrogenase-2 (Hyd-2) polypeptides, E. coli hydrogenase-3 (Hyd-3)
polypeptides, E. coli hydrogenase-4 (Hyd-4) polypeptides, E. coli
formate hydrogen lyase (FHL) complex, which produces hydrogen gas
from formate and CO.sub.2 under anaerobic conditions at acidic pH
(see, e.g., Akihito Yoshida et al., "Efficient induction of formate
hydrogen lyase of aerobically grown Escherichia coli in a
three-step biohydrogen production process," Appl. Microbiol.
Biotechnol. 74:754-760 (2007), which is incorporated herein by
reference in its entirety, particularly with respect to the
induction of expression of formate hydrogen lyase in E. coli),
Ralstonia eutropha H16 hydrogenase (R. eutropha HoxH) Rhodococcus
opacus MR11 hydrogenase (R. opacus HoxH) polypeptides,
Synechosystis sp. PCC 6803 hydrogenase (Syn. PCC 6803 HoxH)
polypeptides, Desulfovibrio gigas hydrogenase (D. gigas)
polypeptides, and Desulfovibrio desulfuricans ATCC 7757 hydrogenase
(D. desulfuricans) polypeptides (see, e.g., Gonul Vardar-Schara et
al., "Metabolically engineered bacteria for producing hydrogen via
fermentation," Microbial Biotechnol. 1(2):107-125 (2008), which is
incorporated herein by reference in its entirety, particularly with
respect to the various types and classes of hydrogenases) and
polypeptides (e.g., fusion polypeptides) having an activity of two
or more hydrogenase polypeptides. In particular, hydrogenase
polypeptides include polypeptides, fragments of polypeptides,
peptides, and fusion polypeptides that have at least one activity
of a hydrogenase polypeptide. Exemplary hydrogenase nucleic acids
include nucleic acids that encode a polypeptide, fragment of a
polypeptide, peptide, or fusion polypeptide that has at least one
activity of a hydrogenase polypeptide, or at least one activity
necessary for expression, processing, or maturation of a
hydrogenase polypeptide. Exemplary hydrogenase polypeptides and
nucleic acids include naturally-occurring polypeptides and nucleic
acids from any of the source organisms described herein as well as
mutant polypeptides and nucleic acids derived from any of the
source organisms described herein.
[0343] E. coli Hyd-3, which is part of the anaerobic formate
hydrogen lyase (FHL) complex, is encoded by the hyc operon
(comprising the hycA, hycB, hycC, hycD, hycE, hycF, hycG, hycH, and
hycI genes). E. coli Hyd-4 is encoded by the hyf operon (comprising
the hyfA, hyfB, hyfC, hyfD, hyfE, hyfF, hyfG, hyfH, hyfI, hyfJ, and
hyfR genes). E. coli FHL is encoded by six genes from the hyc
operon (hycB, hycC, hycD, hycE, hycF and hycG) and the fdhF gene
(encoding formate dehydrogenase H (Fdh-H)). Expression of the FHL
complex can further involve expression of pyruvate formate lyase
(pfl), FhlA, a transcription factor that activates transcription of
fdhF and the hyc operon, or deletion/inactivation of HycA, a
transcription factor encoded by the hycA gene that negatively
regulates transcription of FHL. Co-production of isoprene and
hydrogen can be improved by expression or inactivation/deletion of
additional proteins involved in the regulation of gene expression
for hydrogenases and other enzymes, such as, for example,
iron-sulfur complex transcriptional regulator (iscR) (Kalim-Akhtar
et al., "Deletion of iscR stimulates recombinant Clostridial Fe/Fe
hydrogenase activity and H.sub.2-accumulation in Escherichia coli
BL21(DE3)," Appl. Microbiol. Biotechnol. 78:853-862 (2008), which
is incorporated herein by reference in its entirety, particularly
with reference to stimulation of Clostridial Fe/Fe hydrogenase
activity and hydrogen accumulation in E. coli by deleting the iscR
gene).
[0344] Exemplary ferredoxin-dependent hydrogenase polypeptides
include, but are not limited to, Clostridium acetobutulicum
hydrogenase A (HydA) (see, e.g., P. W. King et al., "Functional
studies of [FeFe] hydrogenase maturation in an Escherichia coli
biosynthetic system," J. Bacteriol. 188(6):163-172 (2006), which is
incorporated herein by reference in its entirety, particularly with
respect to production of hydrogen by HydA and three HydA-associated
maturation enzymes (HydE, HydG, and HydF), which may be expressed
alone or in conjunction with one or more of: (1) Bacillus subtilis
NADPH ferredoxin oxidoreductase (NFOR) (see, e.g., Viet et al.,
(2008)), which is incorporated herein by reference in its entirety,
particularly with respect to production of hydrogen by NFOR; see
also PCT Publication No. WO/2007/089901, which is incorporated
herein by reference in its entirety, particularly with respect to
optimization of E. coli strains for production of hydrogen),
Clostridium kluyveri NADH ferredoxin oxidoreductase (RnfCDGEAB)
(Henning Seedorf et al., "The genome of Clostridium kluyveri, a
strict anaerobe with unique metabolic features," Proc. Nat'l Acad.
Sci. U.S.A. 105(6):2128-2133 (2008), which is incorporated herein
by reference in its entirety, particular with reference to NADH
ferredoxin oxidoreductase, and with reference to components of the
anaerobic ethanol-acetate fermentation pathway), or Clostridium
pasteuranium ferredoxin oxidoreductase (Fdx); (2)
glyceraldehyde-6-phosphate ferredoxin oxidoreductase ("GAPOR"); or
(3) pyruvate ferredoxin oxidoreductase ("POR"), and polypeptides
(e.g., fusion polypeptides) having an activity of two or more
hydrogenase polypeptides or of one or more hydrogenase polypeptides
and an activity of one or more ferredoxin-dependent
oxidoreductases. In particular, ferredoxin-dependent hydrogenase
polypeptides include polypeptides, fragments of polypeptides,
peptides, and fusion polypeptides that have at least one activity
of a ferredoxin-dependent hydrogenase polypeptide.
[0345] Exemplary NADPH-dependent hydrogenase polypeptides include,
but are not limited to thermophilic hydrogenase polypeptides such
as Pyrococcus furiosus hydrogenase (see, e.g., J. Woodward et al.,
"Enzymatic production of biohydrogen," Nature 405(6790):1014-1015
(2000)), and polypeptides (e.g., fusion polypeptides) having an
activity of two or more NADPH-dependent hydrogenase polypeptides.
In particular, NADPH-dependent hydrogenase polypeptides include
polypeptides, fragments of polypeptides, peptides, and fusion
polypeptides that have at least one activity of a NADPH-dependent
hydrogenase polypeptide.
[0346] Exemplary oxygen-tolerant or oxygen-insensitive hydrogenases
include, but are not limited to, Rubrivivax gelatinosus hydrogenase
(see, e.g., P. C. Maness et al., "Characterization of the oxygen
tolerance of a hydrogenase linked to a carbon monoxide oxidation
pathway in Rubrivivax gelatinosus," Appl. Environ. Microbiol.
68(6):2633-2636 (2002), which is incorporated herein by reference
in its entirety, particularly with respect to R. gelatinosus
hydrogenase), and Ralstonia eutropha hydrogenase polypeptides (see,
e.g., T. Burgdorf et al., "[NiFe]-hydrogenases of Ralstonia
eutropha H16: modular enzymes for oxygen-tolerant biological
hydrogen oxidation," J. Mol. Microbiol. Biotechnol. 10(2-4):181-196
(2005), which is incorporated herein by reference in its entirety,
particularly with respect to R. eutropha hydrogenase polypeptides).
Alternatively, heterologous nucleic acids encoding hydrogenase
polypeptides can be mutagenized and screened for O.sub.2-tolerance
or O.sub.2-insensitivity using standard methods and assays (see,
e.g., L. E. Nagy et al., "Application of gene-shuffling for the
rapid generation of novel [FeFe]-hydrogenase libraries,"
Biotechnol. Letts. 29(3)421-430 (2007), which is incorporated
herein by reference, particularly with respect to mutagenesis and
screening for oxygen tolerant hydrogenase polypeptides).
[0347] Standard methods (such as those described herein) can be
used to determine whether a polypeptide has hydrogenase activity by
measuring the ability of the polypeptide to produce hydrogen gas in
vitro, in a cell extract, or in vivo.
Exemplary Polypeptides and Nucleic Acids for Genes Related to
Production of Fermentation Side Products
[0348] In addition to expressing or over-expressing heterologous or
native hydrogenases in E. coli, co-production of isoprene and
hydrogen can be improved by inactivation of anaerobic biosynthetic
pathways, thereby blocking the carbon flow to a variety of
metabolites (i.e., fermentation side products) produced under
oxygen-limited or anaerobic conditions, including, but not limited
to, lactate, acetate, pyruvate, ethanol, succinate, and glycerol.
Exemplary polypeptides involved in the production of fermentation
side products include formate dehydrogenase N, alpha subunit
(fdnG), formate dehydrogenase O, large subunit (fdoG), nitrate
reductase (narG), formate transporter A (focA), formate transporter
B (focB), pyruvate oxidase (poxB), pyruvate dehydrogenase E1
component ackA/pta (aceE), alcohol dehydrogenase (adhE), fumarate
reductase membrane protein (frdC), and lactate dehydrogenase
(ldhA). See, e.g., Toshinori Maeda et al., "Enhanced hydrogen
production from glucose by metabolically engineered Escherichia
coli," Appl. Microbiol. Biotechnol. 77(4):879-890 (2007), which is
incorporated by reference in its entirety, particularly with
respect to production of E. coli strains with modified glucose
metabolism. Exemplary polypeptides involved in the regulation or
expression of genes involved in the production of fermentation side
products that may also be inactivated to improve co-production of
isoprene and hydrogen include, but are not limited to, repressor of
formate hydrogen lyase (hycA), fumarate reductase regulator (fnr),
acetyl-coenzyme A synthetase (acs), and formate dehydrogenase
regulatory protein (hycA), which regulates expression of the
transcriptional regulator fhlA (formate hydrogen lyase
transcriptional activator).
Exemplary Polypeptides and Nucleic Acids for Genes Related to
Hydrogen Re-Uptake
[0349] Exemplary polypeptides involved in hydrogen re-uptake that
may also be inactivated to improve co-production of isoprene and
hydrogen include, but are not limited to, E. coli hydrogenase-1
(Hyd-1) (hya operon) and E. coli hydrogenase-2 (Hyd-2) (hyb
operon). E. coli Hyd-1 is encoded by the hya operon (comprising the
hyaA, hyaB, hyaC, hyaD, hyaE, and hyaF genes). E. coli Hyd-2 is
encoded by the hyb operon (comprising the hybA, hybB, hybC, hybD,
hybE, hybF, hybG, and hybO genes).
Exemplary Methods for Isolating Nucleic Acids
[0350] Isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acids
can be isolated using standard methods. Methods of obtaining
desired nucleic acids from a source organism of interest (such as a
bacterial genome) are common and well known in the art of molecular
biology (see, for example, WO 2004/033646 and references cited
therein, which are each hereby incorporated by reference in their
entireties, particularly with respect to the isolation of nucleic
acids of interest). For example, if the sequence of the nucleic
acid is known (such as any of the known nucleic acids described
herein), suitable genomic libraries may be created by restriction
endonuclease digestion and may be screened with probes
complementary to the desired nucleic acid sequence. Once the
sequence is isolated, the DNA may be amplified using standard
primer directed amplification methods such as polymerase chain
reaction (PCR) (U.S. Pat. No. 4,683,202, which is incorporated by
reference in its entirety, particularly with respect to PCR
methods) to obtain amounts of DNA suitable for transformation using
appropriate vectors.
[0351] Alternatively, isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acids (such as any isoprene synthase, DXS, IDI, MVA
pathway, hydrogenase, hydrogenase maturation and/or transcription
factor nucleic acids with a known nucleic acid sequence) can be
chemically synthesized using standard methods.
[0352] Additional isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
polypeptides and nucleic acids which may be suitable for use in the
compositions and methods described herein can be identified using
standard methods. For example, cosmid libraries of the chromosomal
DNA of organisms known to produce isoprene naturally can be
constructed in organisms such as E. coli, and then screened for
isoprene production. In particular, cosmid libraries may be created
where large segments of genomic DNA (35-45 kb) are packaged into
vectors and used to transform appropriate hosts. Cosmid vectors are
unique in being able to accommodate large quantities of DNA.
Generally cosmid vectors have at least one copy of the cos DNA
sequence which is needed for packaging and subsequent
circularization of the heterologous DNA. In addition to the cos
sequence, these vectors also contain an origin of replication such
as ColEI and drug resistance markers such as a nucleic acid
resistant to ampicillin or neomycin. Methods of using cosmid
vectors for the transformation of suitable bacterial hosts are well
described in Sambrook et al., Molecular Cloning: A Laboratory
Manual, 2.sup.nd ed., Cold Spring Harbor, 1989, which is hereby
incorporated by reference in its entirety, particularly with
respect to transformation methods.
[0353] Typically to clone cosmids, heterologous DNA is isolated
using the appropriate restriction endonucleases and ligated
adjacent to the cos region of the cosmid vector using the
appropriate ligases. Cosmid vectors containing the linearized
heterologous DNA are then reacted with a DNA packaging vehicle such
as bacteriophage. During the packaging process, the cos sites are
cleaved and the heterologous DNA is packaged into the head portion
of the bacterial viral particle. These particles are then used to
transfect suitable host cells such as E. coli. Once injected into
the cell, the heterologous DNA circularizes under the influence of
the cos sticky ends. In this manner, large segments of heterologous
DNA can be introduced and expressed in host cells.
[0354] Additional methods for obtaining isoprene synthase, DXS,
IDI, MVA pathway, hydrogenase, hydrogenase maturation and/or
transcription factor nucleic acids include screening a metagenomic
library by assay (such as the headspace assay described herein) or
by PCR using primers directed against nucleotides encoding for a
length of conserved amino acids (for example, at least 3 conserved
amino acids). Conserved amino acids can be identified by aligning
amino acid sequences of known isoprene synthase, DXS, IDI, MVA
pathway, hydrogenase, hydrogenase maturation and/or transcription
factor polypeptides. Conserved amino acids for isoprene synthase
polypeptides can be identified based on aligned sequences of known
isoprene synthase polypeptides. An organism found to produce
isoprene naturally can be subjected to standard protein
purification methods (which are well known in the art) and the
resulting purified polypeptide can be sequenced using standard
methods. Other methods are found in the literature (see, for
example, Julsing et al., Applied. Microbiol. Biotechnol. 75:
1377-84, 2007; Withers et al., Appl Environ Microbiol.
73(19):6277-83, 2007, which are each hereby incorporated by
reference in their entireties, particularly with respect to
identification of nucleic acids involved in the synthesis of
isoprene).
[0355] Additionally, standard sequence alignment and/or structure
prediction programs can be used to identify additional DXS, IDI,
MVA pathway, hydrogenase, hydrogenase maturation and/or
transcription factor polypeptides and nucleic acids based on the
similarity of their primary and/or predicted polypeptide secondary
structure with that of known DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor polypeptides and
nucleic acids. Standard databases such as the swissprot-trembl
database (world-wide web at "expasy.org", Swiss Institute of
Bioinformatics Swiss-Prot group CMU-1 rue Michel Servet CH-1211
Geneva 4, Switzerland) can also be used to identify isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription regulatory polypeptides and nucleic
acids. The secondary and/or tertiary structure of an isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor polypeptide can be predicted
using the default settings of standard structure prediction
programs, such as PredictProtein (630 West, 168 Street, BB217, New
York, N.Y. 10032, USA). Alternatively, the actual secondary and/or
tertiary structure of an isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
polypeptide can be determined using standard methods. Additional
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acids can also be
identified by hybridization to probes generated from known isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acids.
Exemplary Promoters and Vectors
[0356] Any of the isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acids described herein can be included in one or more
vectors. Accordingly, also described herein are vectors with one
more nucleic acids encoding any of the isoprene synthase, DXS, IDI,
MVA pathway, hydrogenase, hydrogenase maturation and/or
transcription factor polypeptides that are described herein. In
some embodiments, the vector contains a nucleic acid under the
control of an expression control sequence.
[0357] In some embodiments, the vector contains a selective marker
or selectable marker. Markers useful in vector systems for
transformation of Trichoderma are known in the art (see, e.g.,
Finkelstein, Chapter 6 in Biotechnology of Filamentous Fungi,
Finkelstein et al., Eds. Butterworth-Heinemann, Boston, Mass.,
Chap. 6., 1992; and Kinghorn et al., Applied Molecular Genetics of
Filamentous Fungi, Blackie Academic and Professional, Chapman and
Hall, London, 1992, which are each hereby incorporated by reference
in their entireties, particularly with respect to selective
markers). In some embodiments, the selective marker is the amdS
nucleic acid, which encodes the enzyme acetamidase, allowing
transformed cells to grow on acetamide as a nitrogen source. The
use of an A. nidulans amdS nucleic acid as a selective marker is
described in Kelley et al., EMBO J. 4:475-479, 1985 and Penttila et
al., Gene 61:155-164, 1987 (which are each hereby incorporated by
reference in their entireties, particularly with respect to
selective markers). In some embodiments, an isoprene synthase, DXS,
IDI, MVA pathway, hydrogenase, hydrogenase maturation, or
transcription regulatory nucleic acid integrates into a chromosome
of the cells without a selective marker.
[0358] Suitable vectors are those which are compatible with the
host cell employed. Suitable vectors can be derived, for example,
from a bacterium, a virus (such as bacteriophage T7 or a M-13
derived phage), a cosmid, a yeast, or a plant. Protocols for
obtaining and using such vectors are known to those in the art
(see, for example, Sambrook et al., Molecular Cloning: A Laboratory
Manual, 2.sup.nd ed., Cold Spring Harbor, 1989, which is hereby
incorporated by reference in its entirety, particularly with
respect to the use of vectors).
[0359] Promoters are well known in the art. Any promoter that
functions in the host cell can be used for expression of an
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid in the host
cell. Initiation control regions or promoters, which are useful to
drive expression of isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acids in various host cells are numerous and familiar to
those skilled in the art (see, for example, WO 2004/033646 and
references cited therein, which are each hereby incorporated by
reference in their entireties, particularly with respect to vectors
for the expression of nucleic acids of interest). Virtually any
promoter capable of driving these nucleic acids can be used
including, but not limited to, CYC1, HIS3, GAL1, GAL10, ADH1, PGK,
PHO5, GAPDH, ADCI, TRP1, URA3, LEU2, ENO, and TPI (useful for
expression in Saccharomyces); AOX1 (useful for expression in
Pichia); and lac, trp, P.sub.L, P.sub.R, T7, tac, and trc (useful
for expression in E. coli).
[0360] In some embodiments, a glucose isomerase promoter is used
(see, for example, U.S. Pat. No. 7,132,527 and references cited
therein, which are each hereby incorporated by reference in their
entireties, particularly with respect promoters and plasmid systems
for expressing polypeptides of interest). Reported glucose
isomerase promoter mutants can be used to vary the level of
expression of the polypeptide encoded by a nucleic acid operably
linked to the glucose isomerase promoter (U.S. Pat. No. 7,132,527).
In various embodiments, the glucose isomerase promoter is contained
in a low, medium, or high copy plasmid (U.S. Pat. No.
7,132,527).
[0361] In various embodiments, an isoprene synthase, DXS, IDI, MVA
pathway, hydrogenase, hydrogenase maturation and/or transcription
factor nucleic acid is contained in a low copy plasmid (e.g., a
plasmid that is maintained at about 1 to about 4 copies per cell),
medium copy plasmid (e.g., a plasmid that is maintained at about 10
to about 15 copies per cell), or high copy plasmid (e.g., a plasmid
that is maintained at about 50 or more copies per cell). In some
embodiments, the heterologous or extra endogenous isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid is operably
linked to a T7 promoter. In some embodiments, the heterologous or
extra endogenous isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acid operably linked to a T7 promoter is contained in a
medium or high copy plasmid. In some embodiments, the heterologous
or extra endogenous isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acid is operably linked to a Trc promoter. In some
embodiments, the heterologous or extra endogenous isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid operably linked
to a Trc promoter is contained in a medium or high copy plasmid. In
some embodiments, the heterologous or extra endogenous isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid is operably
linked to a Lac promoter. In some embodiments, the heterologous or
extra endogenous isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acid operably linked to a Lac promoter is contained in a
low copy plasmid. In some embodiments, the heterologous or extra
endogenous isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acid is
operably linked to an endogenous promoter, such as an endogenous
Escherichia, Panteoa, Bacillus, Yarrowia, Streptomyces, or
Trichoderma promoter or an endogenous alkaline serine protease,
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor promoter. In some
embodiments, the heterologous or extra endogenous isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid operably linked
to an endogenous promoter is contained in a high copy plasmid. In
some embodiments, the vector is a replicating plasmid that does not
integrate into a chromosome in the cells. In some embodiments, part
or all of the vector integrates into a chromosome in the cells.
[0362] In some embodiments, the vector is any vector which when
introduced into a fungal host cell is integrated into the host cell
genome and is replicated. Reference is made to the Fungal Genetics
Stock Center Catalogue of Strains (FGSC, the world-wide web at
"fgsc.net" and the references cited therein, which are each hereby
incorporated by reference in their entireties, particularly with
respect to vectors) for a list of vectors. Additional examples of
suitable expression and/or integration vectors are provided in
Sambrook et al., Molecular Cloning: A Laboratory Manual, 2.sup.nd
ed., Cold Spring Harbor, 1989, Current Protocols in Molecular
Biology (F. M. Ausubel et al. (eds) 1987, Supplement 30, section
7.7.18); van den Hondel et al. in Bennett and Lasure (Eds.) More
Gene Manipulations in Fungi, Academic Press pp. 396-428, 1991; and
U.S. Pat. No. 5,874,276, which are each hereby incorporated by
reference in their entireties, particularly with respect to
vectors. Particularly useful vectors include pFB6, pBR322, PUC18,
pUC100, and pENTR/D.
[0363] In some embodiments, an isoprene synthase, DXS, IDI, MVA
pathway, hydrogenase, hydrogenase maturation and/or transcription
factor nucleic acid is operably linked to a suitable promoter that
shows transcriptional activity in a fungal host cell. The promoter
may be derived from one or more nucleic acids encoding a
polypeptide that is either endogenous or heterologous to the host
cell. In some embodiments, the promoter is useful in a Trichoderma
host. Suitable non-limiting examples of promoters include cbh1,
cbh2, egl1, egl2, pepA, hfb1, hfb2, xyn1, and amy. In some
embodiments, the promoter is one that is native to the host cell.
For example, in some embodiments when T. reesei is the host, the
promoter is a native T. reesei promoter. In some embodiments, the
promoter is T. reesei cbh1, which is an inducible promoter and has
been deposited in GenBank under Accession No. D86235, which is
incorporated by reference in its entirety, particularly with
respect to promoters. In some embodiments, the promoter is one that
is heterologous to the fungal host cell. Other examples of useful
promoters include promoters from the genes of A. awamori and A.
niger glucoamylase (glaA) (Nunberg et al., Mol. Cell Biol.
4:2306-2315, 1984 and Boel et al., EMBO J. 3:1581-1585, 1984, which
are each hereby incorporated by reference in their entireties,
particularly with respect to promoters); Aspergillus niger alpha
amylases, Aspergillus oryzae TAKA amylase, T. reesei xln1, and the
T. reesei cellobiohydrolase 1 (EP 137280, which is incorporated by
reference in its entirety, particularly with respect to
promoters).
[0364] In some embodiments, the expression vector also includes a
termination sequence. Termination control regions may also be
derived from various genes native to the host cell. In some
embodiments, the termination sequence and the promoter sequence are
derived from the same source. In another embodiment, the
termination sequence is endogenous to the host cell. A particularly
suitable terminator sequence is cbh1 derived from a Trichoderma
strain (such as T. reesei). Other useful fungal terminators include
the terminator from an A. niger or A. awamori glucoamylase nucleic
acid (Nunberg et al., Mol. Cell Biol. 4:2306-2315, 1984 and Boel et
al., EMBO J. 3:1581-1585, 1984; which are each hereby incorporated
by reference in their entireties, particularly with respect to
fungal terminators). Optionally, a termination site may be
included. For effective expression of the polypeptides, DNA
encoding the polypeptide are linked operably through initiation
codons to selected expression control regions such that expression
results in the formation of the appropriate messenger RNA.
[0365] In some embodiments, the promoter, coding, region, and
terminator all originate from the isoprene synthase, DXS, IDI, MVA
pathway, hydrogenase, hydrogenase maturation and/or transcription
factor nucleic acid to be expressed. In some embodiments, the
coding region for an isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acid is inserted into a general-purpose expression vector
such that it is under the transcriptional control of the expression
construct promoter and terminator sequences. In some embodiments,
genes or part thereof are inserted downstream of the strong cbh1
promoter.
[0366] An isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acid can
be incorporated into a vector, such as an expression vector, using
standard techniques (Sambrook et al., Molecular Cloning: A
Laboratory Manual, Cold Spring Harbor, 1982, which is hereby
incorporated by reference in its entirety, particularly with
respect to the screening of appropriate DNA sequences and the
construction of vectors). Methods used to ligate the DNA construct
comprising a nucleic acid of interest (such as an isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid), a promoter, a
terminator, and other sequences and to insert them into a suitable
vector are well known in the art. For example, restriction enzymes
can be used to cleave the isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acid and the vector. Then, the compatible ends of the
cleaved isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acid and
the cleaved vector can be ligated. Linking is generally
accomplished by ligation at convenient restriction sites. If such
sites do not exist, the synthetic oligonucleotide linkers are used
in accordance with conventional practice (see, Sambrook et al.,
Molecular Cloning: A Laboratory Manual, 2.sup.nd ed., Cold Spring
Harbor, 1989, and Bennett and Lasure, More Gene Manipulations in
Fungi, Academic Press, San Diego, pp 70-76, 1991, which are each
hereby incorporated by reference in their entireties, particularly
with respect to oligonucleotide linkers). Additionally, vectors can
be constructed using known recombination techniques (e.g.,
Invitrogen Life Technologies, Gateway Technology).
[0367] In some embodiments, it may be desirable to over-express
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acids at levels far
higher than currently found in naturally-occurring cells. This
result may be accomplished by the selective cloning of the nucleic
acids encoding those polypeptides into multicopy plasmids or
placing those nucleic acids under a strong inducible or
constitutive promoter. Methods for over-expressing desired
polypeptides are common and well known in the art of molecular
biology and examples may be found in Sambrook et al., Molecular
Cloning: A Laboratory Manual, 2.sup.nd ed., Cold Spring Harbor,
1989, which is hereby incorporated by reference in its entirety,
particularly with respect to cloning techniques.
[0368] In some embodiments, it may be desirable to under-express
(e.g., mutate, inactivate, or delete) isoprene synthase, DXS, IDI,
MVA pathway, hydrogenase, hydrogenase maturation, or transcription
factor polypeptide-encoding nucleic acids at levels far below that
those currently found in naturally-occurring cells. This result may
be accomplished by the mutation or inactivation of transcriptional
regulatory proteins required for expression of isoprene synthase,
DXS, IDI, MVA pathway, hydrogenase, hydrogenase maturation and/or
transcription factor nucleic acids, by deletion of the isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acids, or by placing
those nucleic acids under the control of a strong repressible
promoter. Methods for mutating, inactivating, or deleting desired
polypeptides are common and well known in the art of molecular
biology and examples may be found in Sambrook et al., Molecular
Cloning: A Laboratory Manual, 2.sup.nd ed., Cold Spring Harbor,
1989, which is hereby incorporated by reference in its entirety,
particularly with respect to cloning and mutagenesis
techniques.
[0369] The following resources include descriptions of additional
general methodology useful in accordance with the compositions and
methods described herein: Kreigler, Gene Transfer and Expression; A
Laboratory Manual, 1990 and Ausubel et al., Eds. Current Protocols
in Molecular Biology, 1994, which are each hereby incorporated by
reference in their entireties, particularly with respect to
molecular biology and cloning techniques.
Exemplary Source Organisms
[0370] Isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acids
(and their encoded polypeptides) can be obtained from any organism
that naturally contains isoprene synthase, DXS, IDI, MVA pathway,
hydrogenase, hydrogenase maturation and/or transcription factor
nucleic acids. As noted above, isoprene is formed naturally by a
variety of organisms, such as bacteria, yeast, plants, and animals.
Organisms contain the MVA pathway, DXP pathway, or both the MVA and
DXP pathways for producing isoprene (FIGS. 19A and 19B). Thus, DXS
nucleic acids can be obtained, e.g., from any organism that
contains the DXP pathway or contains both the MVA and DXP pathways.
IDI and isoprene synthase nucleic acids can be obtained, e.g., from
any organism that contains the MVA pathway, DXP pathway, or both
the MVA and DXP pathways. MVA pathway nucleic acids can be
obtained, e.g., from any organism that contains the MVA pathway or
contains both the MVA and DXP pathways. Hydrogenase nucleic acids
can be obtained, e.g., from any organism that oxidizes hydrogen or
reduces hydrogen ions. Fermentation side product genes can be
obtained or identified, e.g., from any organism that undergoes
oxygen-limited or anaerobic respiration, such as glycolysis.
[0371] In some embodiments, the nucleic acid sequence of the
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic is identical to the
sequence of a nucleic acid that is produced by any of the following
organisms in nature. In some embodiments, the amino acid sequence
of the isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor polypeptide is
identical to the sequence of a polypeptide that is produced by any
of the following organisms in nature. In some embodiments, the
isoprene synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor nucleic acid or polypeptide
is a mutant nucleic acid or polypeptide derived from any of the
organisms described herein. As used herein, "derived from" refers
to the source of the nucleic acid or polypeptide into which one or
more mutations is introduced. For example, a polypeptide that is
"derived from a plant polypeptide" refers to polypeptide of
interest that results from introducing one or more mutations into
the sequence of a wild-type (i.e., a sequence occurring in nature)
plant polypeptide.
[0372] In some embodiments, the source organism is a fungus,
examples of which are species of Aspergillus such as A. oryzae and
A. niger, species of Saccharomyces such as S. cerevisiae, species
of Schizosaccharomyces such as S. pombe, and species of Trichoderma
such as T. reesei. In some embodiments, the source organism is a
filamentous fungal cell. The term "filamentous fungi" refers to all
filamentous forms of the subdivision Eumycotina (see, Alexopoulos,
C. J. (1962), Introductory Mycology, Wiley, New York). These fungi
are characterized by a vegetative mycelium with a cell wall
composed of chitin, cellulose, and other complex polysaccharides.
The filamentous fungi are morphologically, physiologically, and
genetically distinct from yeasts. Vegetative growth by filamentous
fungi is by hyphal elongation and carbon catabolism is obligatory
aerobic. The filamentous fungal parent cell may be a cell of a
species of, but not limited to, Trichoderma, (e.g., Trichoderma
reesei, the asexual morph of Hypocrea jecorina, previously
classified as T. longibrachiatum, Trichoderma viride, Trichoderma
koningii, Trichoderma harzianum) (Sheir-Neirs et al., Appl.
Microbiol. Biotechnol 20: 46-53, 1984; ATCC No. 56765 and ATCC No.
26921); Penicillium sp., Humicola sp. (e.g., H. insolens, H.
lanuginose, or H. grisea); Chrysosporium sp. (e.g., C.
lucknowense), Gliocladium sp., Aspergillus sp. (e.g., A. oryzae, A.
niger, A sojae, A. japonicus, A. nidulans, or A. awamori) (Ward et
al., Appl. Microbiol. Biotechnol. 39: 7380743, 1993 and Goedegebuur
et al., Genet 41: 89-98, 2002), Fusarium sp., (e.g., F. roseum, F.
graminum F. cerealis, F. oxysporuim, or F. venenatum), Neurospora
sp., (e.g., N. crassa), Hypocrea sp., Mucor sp., (e.g., M. miehei),
Rhizopus sp. and Emericella sp. (see also, Innis et al., Sci. 228:
21-26, 1985). The term "Trichoderma" or "Trichoderma sp." or
"Trichoderma spp." refer to any fungal genus previously or
currently classified as Trichoderma.
[0373] In some embodiments, the fungus is A. nidulans, A. awamori,
A. oryzae, A. aculeatus, A. niger, A. japonicus, T. reesei, T.
viride, F. oxysporum, or F. solani. Aspergillus strains are
disclosed in Ward et al., Appl. Microbiol. Biotechnol. 39:738-743,
1993 and Goedegebuur et al., Curr Gene 41:89-98, 2002, which are
each hereby incorporated by reference in their entireties,
particularly with respect to fungi. In particular embodiments, the
fungus is a strain of Trichoderma, such as a strain of T. reesei.
Strains of T. reesei are known and non-limiting examples include
ATCC No. 13631, ATCC No. 26921, ATCC No. 56764, ATCC No. 56765,
ATCC No. 56767, and NRRL 15709, which are each hereby incorporated
by reference in their entireties, particularly with respect to
strains of T. reesei. In some embodiments, the host strain is a
derivative of RL-P37. RL-P37 is disclosed in Sheir-Neiss et al.,
Appl. Microbiol. Biotechnology 20:46-53, 1984, which is hereby
incorporated by reference in its entirety, particularly with
respect to strains of T. reesei.
[0374] In some embodiments, the source organism is a yeast, such as
Saccharomyces sp., Schizosaccharomyces sp., Pichia sp., or Candida
sp. In some embodiments, the Saccharomyces sp. is Saccharomyces
cerevisiae.
[0375] In some embodiments, the source organism is a bacterium,
such as strains of Bacillus such as B. lichenformis or B. subtilis,
strains of Pantoea such as P. citrea, strains of Pseudomonas such
as P. alcaligenes, P. putida, or P. fluorescens, strains of
Streptomyces such as S. lividans or S. rubiginosus, strains of
Corynebacterium sp. such as Corynebacterium glutamicum, strains of
Rhodopseudomonas sp. such as Rhodopseudomonas palustris, or strains
of Escherichia such as E. coli.
[0376] As used herein, "the genus Bacillus" includes all species
within the genus "Bacillus," as known to those of skill in the art,
including but not limited to B. subtilis, B. licheniformis, B.
lentus, B. brevis, B. stearothermophilus, B. alkalophilus, B.
amyloliquefaciens, B. clausii, B. halodurans, B. megaterium, B.
coagulans, B. circulans, B. lautus, and B. thuringiensis. It is
recognized that the genus Bacillus continues to undergo taxonomical
reorganization. Thus, it is intended that the genus include species
that have been reclassified, including but not limited to such
organisms as B. stearothermophilus, which is now named "Geobacillus
stearothermophilus." The production of resistant endospores in the
presence of oxygen is considered the defining feature of the genus
Bacillus, although this characteristic also applies to the recently
named Alicyclobacillus, Amphibacillus, Aneurinibacillus,
Anoxybacillus, Brevibacillus, Filobacillus, Gracilibacillus,
Halobacillus, Paenibacillus, Salibacillus, Thermobacillus,
Ureibacillus, and Virgibacillus.
[0377] In some embodiments, the source organism is a gram-positive
bacterium. Non-limiting examples include strains of Streptomyces
(e.g., S. lividans, S. coelicolor, or S. griseus) and Bacillus. In
some embodiments, the source organism is a gram-negative bacterium,
such as E. coli., Rhodopseudomonas sp. such as Rhodopseudomonas
palustris, or Pseudomonas sp., such as P. alcaligenes, P. putida,
or P. fluorescens.
[0378] In some embodiments, the source organism is a plant, such as
a plant from the family Fabaceae, such as the Faboideae subfamily.
In some embodiments, the source organism is kudzu, poplar (such as
Populus alba.times.tremula CAC35696), aspen (such as Populus
tremuloides), or Quercus robur.
[0379] In some embodiments, the source organism is an algae, such
as a green algae, red algae, glaucophytes, chlorarachniophytes,
euglenids, chromista, or dinoflagellates.
[0380] In some embodiments, the source organism is a cyanobacteria,
such as cyanobacteria classified into any of the following groups
based on morphology: Chroococcales, Pleurocapsales,
Oscillatoriales, Nostocales, or Stigonematales.
[0381] In some embodiments, the source organism is an anaerobic
organism. Anaerobic organisms can include, but are not limited to,
obligate anaerobes, facultatitive anaerobes, and aerotolerant
anaerobes. Such organisms can be any of the organisms listed above,
bacteria, yeast, etc. In one embodiment, the obligate anaerobes can
be any one or combination selected from the group consisting of
Clostridium ljungdahlii, Clostridium autoethanogenum, Eurobacterium
limosum, Clostridium carboxydivorans, Peptostreptococcus productus,
and Butyribacterium methylotrophicum. It is to be understood that
any combination of any of the source organisms described herein can
be used for other embodiments of the invention.
Exemplary Host Cells
[0382] A variety of host cells can be used to express isoprene
synthase, DXS, IDI, MVA pathway, hydrogenase, hydrogenase
maturation and/or transcription factor polypeptides and to
co-produce isoprene and hydrogen in the methods described herein.
Exemplary host cells include cells from any of the organisms listed
in the prior section under the heading "Exemplary Source
Organisms." The host cell may be a cell that naturally produces
isoprene or a cell that does not naturally produce isoprene. In
some embodiments, the host cell naturally produces isoprene using
the DXP pathway, and an isoprene synthase, DXS, and/or IDI nucleic
acid is added to enhance production of isoprene using this pathway.
In some embodiments, the host cell naturally produces isoprene
using the MVA pathway, and an isoprene synthase and/or one or more
MVA pathway nucleic acids are added to enhance production of
isoprene using this pathway. In some embodiments, the host cell
naturally produces isoprene using the DXP pathway and one or more
MVA pathway nucleic acids are added to produce isoprene using part
or all of the MVA pathway as well as the DXP pathway. In some
embodiments, the host cell naturally produces isoprene using both
the DXP and MVA pathways and one or more isoprene synthase, DXS,
IDI, or MVA pathway nucleic acids are added to enhance production
of isoprene by one or both of these pathways.
[0383] In some embodiments, the host cell naturally produces
isoprene using both the DXP and MVA pathways, and one or more
isoprene synthase, DXS, IDI, or MVA pathway nucleic acids are added
to enhance production of isoprene by one or both of these pathways,
one or more hydrogenase nucleic acids are added to enhance hydrogen
production and one or more fermentation side product-producing
genes are inactivated or deleted to limit production of
fermentation side products. In some embodiments, the host cell
naturally co-produces isoprene and hydrogen using both the DXP and
MVA pathways and one or more isoprene synthase, DXS, IDI, or MVA
pathway nucleic acids are added to enhance production of isoprene
by one or both of these pathways, one or more hydrogenase nucleic
acids are added to enhance hydrogen production, one or more
fermentation side product-producing genes are inactivated or
deleted to limit production of fermentation side products, and one
or more hydrogen reuptake genes are inactivated or deleted to
increase hydrogen production. In some embodiments, the host cell
naturally co-produces isoprene and hydrogen using both the DXP and
MVA pathways and a hydrogenase, and one or more isoprene synthase,
DXS, IDI, or MVA pathway nucleic acids are added to enhance
production of isoprene by one or both of these pathways, one or
more hydrogenase nucleic acids are added to enhance hydrogen
production, one or more hydrogenase maturation nucleic acids are
added to enhance hydrogen production, one or more fermentation side
product-producing genes are inactivated or deleted to limit
production of fermentation side products, and one or more hydrogen
reuptake genes are inactivated or deleted to increase hydrogen
production. In some embodiments, the host cell naturally
co-produces isoprene and hydrogen using both the DXP and MVA
pathways and one or more isoprene synthase, DXS, IDI, or MVA
pathway nucleic acids are added to enhance production of isoprene
by one or both of these pathways, one or more hydrogenase nucleic
acids are added to enhance hydrogen production, one or more
hydrogenase maturation nucleic acids are added to enhance hydrogen
production, one or more transcription factor nucleic acids are
added or inactivated or deleted to enhance hydrogenase production,
one or more fermentation side product-producing genes are
inactivated or deleted to limit production of fermentation side
products, and one or more hydrogen reuptake genes are inactivated
or deleted to increase hydrogen production.
Exemplary Transformation Methods
[0384] Isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor nucleic acids or
vectors containing them can be inserted into a host cell (e.g., a
plant cell, a fungal cell, a yeast cell, or a bacterial cell
described herein) using standard techniques for expression of the
encoded isoprene synthase, DXS, IDI, MVA pathway, hydrogenase,
hydrogenase maturation and/or transcription factor polypeptide.
Introduction of a DNA construct or vector into a host cell can be
performed using techniques such as transformation, electroporation,
nuclear microinjection, transduction, transfection (e.g.,
lipofection mediated or DEAE-Dextrin mediated transfection or
transfection using a recombinant phage virus), incubation with
calcium phosphate DNA precipitate, high velocity bombardment with
DNA-coated microprojectiles, and protoplast fusion. General
transformation techniques are known in the art (see, e.g., Current
Protocols in Molecular Biology (F. M. Ausubel et al. (eds) Chapter
9, 1987; Sambrook et al., Molecular Cloning: A Laboratory Manual,
2.sup.nd ed., Cold Spring Harbor, 1989; and Campbell et al., Curr.
Genet. 16:53-56, 1989, which are each hereby incorporated by
reference in their entireties, particularly with respect to
transformation methods). The expression of heterologous polypeptide
in Trichoderma is described in U.S. Pat. No. 6,022,725; U.S. Pat.
No. 6,268,328; U.S. Pat. No. 7,262,041; WO 2005/001036; Harkki et
al., Enzyme Microb. Technol. 13:227-233, 1991; Harkki et al., Bio
Technol. 7:596-603, 1989; EP 244,234; EP 215,594; and Nevalainen et
al., "The Molecular Biology of Trichoderma and its Application to
the Expression of Both Homologous and Heterologous Genes," in
Molecular Industrial Mycology, Eds. Leong and Berka, Marcel Dekker
Inc., NY pp. 129-148, 1992, which are each hereby incorporated by
reference in their entireties, particularly with respect to
transformation and expression methods). Reference is also made to
Cao et al., (Sci. 9:991-1001, 2000; EP 238023; and Yelton et al.,
Proceedings. Natl. Acad. Sci. USA 81:1470-1474, 1984 (which are
each hereby incorporated by reference in their entireties,
particularly with respect to transformation methods) for
transformation of Aspergillus strains. The introduced nucleic acids
may be integrated into chromosomal DNA or maintained as
extrachromosomal replicating sequences.
[0385] Any method known in the art may be used to select
transformants. In one non-limiting example, stable transformants
including an amdS marker are distinguished from unstable
transformants by their faster growth rate and the formation of
circular colonies with a smooth, rather than ragged outline on
solid culture medium containing acetamide. Additionally, in some
cases a further test of stability is conducted by growing the
transformants on a solid non-selective medium (e.g., a medium that
lacks acetamide), harvesting spores from this culture medium, and
determining the percentage of these spores which subsequently
germinate and grow on selective medium containing acetamide.
[0386] In some embodiments, fungal cells are transformed by a
process involving protoplast formation and transformation of the
protoplasts followed by regeneration of the cell wall in a known
manner. In one specific embodiment, the preparation of Trichoderma
sp. for transformation involves the preparation of protoplasts from
fungal mycelia (see, Campbell et al., Curr. Genet. 16:53-56, 1989,
which is incorporated by reference in its entirety, particularly
with respect to transformation methods). In some embodiments, the
mycelia are obtained from germinated vegetative spores. The mycelia
are treated with an enzyme that digests the cell wall resulting in
protoplasts. The protoplasts are then protected by the presence of
an osmotic stabilizer in the suspending medium. These stabilizers
include sorbitol, mannitol, potassium chloride, magnesium sulfate,
and the like. Usually the concentration of these stabilizers varies
between 0.8 M and 1.2 M. It is desirable to use about a 1.2 M
solution of sorbitol in the suspension medium.
[0387] Uptake of DNA into the host Trichoderma sp. strain is
dependent upon the calcium ion concentration. Generally, between
about 10 mM CaCl.sub.2 and 50 mM CaCl.sub.2 is used in an uptake
solution. In addition to the calcium ion in the uptake solution,
other compounds generally included are a buffering system such as
TE buffer (10 Mm Tris, pH 7.4; 1 mM EDTA) or 10 mM MOPS, pH 6.0
buffer (morpholinepropanesulfonic acid) and polyethylene glycol
(PEG). While not intending to be bound to any particular theory, it
is believed that the polyethylene glycol acts to fuse the cell
membranes, thus permitting the contents of the medium to be
delivered into the cytoplasm of the Trichoderma sp. strain and the
plasmid DNA to be transferred to the nucleus. This fusion
frequently leaves multiple copies of the plasmid DNA integrated
into the host chromosome.
[0388] Usually a suspension containing the Trichoderma sp.
protoplasts or cells that have been subjected to a permeability
treatment at a density of 10.sup.5 to 10.sup.7/mL (such as
2.times.10.sup.6/mL) are used in the transformation. A volume of
100 .mu.L of these protoplasts or cells in an appropriate solution
(e.g., 1.2 M sorbitol and 50 mM CaCl.sub.2) are mixed with the
desired DNA. Generally, a high concentration of PEG is added to the
uptake solution. From 0.1 to 1 volume of 25% PEG 4000 can be added
to the protoplast suspension. In some embodiments, about 0.25
volumes are added to the protoplast suspension. Additives such as
dimethyl sulfoxide, heparin, spermidine, potassium chloride, and
the like may also be added to the uptake solution and aid in
transformation. Similar procedures are available for other fungal
host cells (see, e.g., U.S. Pat. No. 6,022,725 and U.S. Pat. No.
6,268,328, which are each hereby incorporated by reference in their
entireties, particularly with respect to transformation
methods).
[0389] Generally, the mixture is then cultured at approximately
0.degree. C. for a period of between 10 to 30 minutes. Additional
PEG is then added to the mixture to further enhance the uptake of
the desired nucleic acid sequence. The 25% PEG 4000 is generally
added in volumes of 5 to 15 times the volume of the transformation
mixture; however, greater and lesser volumes may be suitable. The
25% PEG 4000 is desirably about 10 times the volume of the
transformation mixture. After the PEG is added, the transformation
mixture is then cultured either at room temperature or on ice
before the addition of a sorbitol and CaCl.sub.2 solution. The
protoplast suspension is then further added to molten aliquots of a
growth medium. When the growth medium includes a growth selection
(e.g., acetamide or an antibiotic) it permits the growth of
transformants only.
[0390] The transformation of bacterial cells may be performed
according to conventional methods, e.g., as described in Sambrook
et al., Molecular Cloning: A Laboratory Manual, Cold Spring Harbor,
1982, which is hereby incorporated by reference in its entirety,
particularly with respect to transformation methods.
Exemplary Cell Culture Media
[0391] Also described herein is a cell or a population of cells in
culture that co-produce isoprene and hydrogen. By "cells in
culture" is meant two or more cells in a solution (e.g., a cell
growth medium) that allows the cells to undergo one or more cell
divisions. "Cells in culture" do not include plant cells that are
part of a living, multicellular plant containing cells that have
differentiated into plant tissues. In various embodiments, the cell
culture includes at least or about 10, 20, 50, 100, 200, 500,
1,000, 5,000, 10,000 or more cells.
[0392] By "cells in oxygen-limited culture" is meant two or more
cells in a solution (e.g., a cell growth medium) that allows the
cell to under go one or more cell divisions, wherein the solution
contains a limiting amount of oxygen. The term "oxygen-limited
culture" means that the culture is either anoxic or contains less
than the required amount of oxygen to support respiration via the
biological transfer of reducing equivalents to oxygen, and also
encompasses anaerobic cultures. Under oxygen-limited culture
conditions, some electrons derived from carbon metabolism cannot be
accepted because oxygen concentrations are too low, causing cells
to switch to hydrogen production if they comprise the appropriate
metabolic pathways for doing so. Oxygen-limited culture conditions
occur when the oxygen transfer rate ("OTR") is less than the oxygen
uptake rate ("OUR") indicated by dissolved oxygen concentrations of
close to zero in culture medium.
[0393] Any carbon source can be used to cultivate the host cells.
The term "carbon source" refers to one or more carbon-containing
compounds capable of being metabolized by a host cell or organism.
For example, the cell medium used to cultivate the host cells may
include any carbon source suitable for maintaining the viability or
growing the host cells.
[0394] In some embodiments, the carbon source is a carbohydrate
(such as monosaccharide, disaccharide, oligosaccharide, or
polysaccharides), invert sugar (e.g., enzymatically treated sucrose
syrup), glycerol, glycerine (e.g., a glycerine byproduct of a
biodiesel or soap-making process), dihydroxyacetone, one-carbon
source, oil (e.g., a plant or vegetable oil such as corn, palm, or
soybean oil), animal fat, animal oil, fatty acid (e.g., a saturated
fatty acid, unsaturated fatty acid, or polyunsaturated fatty acid),
lipid, phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, polypeptide (e.g., a microbial or plant protein or
peptide), renewable carbon source (e.g., a biomass carbon source
such as a hydrolyzed biomass carbon source), yeast extract,
component from a yeast extract, polymer, acid, alcohol, aldehyde,
ketone, amino acid, succinate, lactate, acetate, ethanol, or any
combination of two or more of the foregoing. In some embodiments,
the carbon source is a product of photosynthesis, including, but
not limited to, glucose.
[0395] Exemplary monosaccharides include glucose and fructose;
exemplary oligosaccharides include lactose and sucrose, and
exemplary polysaccharides include starch and cellulose. Exemplary
carbohydrates include C6 sugars (e.g., fructose, mannose,
galactose, or glucose) and C5 sugars (e.g., xylose or arabinose).
In some embodiments, the cell medium includes a carbohydrate as
well as a carbon source other than a carbohydrate (e.g., glycerol,
glycerine, dihydroxyacetone, one-carbon source, oil, animal fat,
animal oil, fatty acid, lipid, phospholipid, glycerolipid,
monoglyceride, diglyceride, triglyceride, renewable carbon source,
or a component from a yeast extract). In some embodiments, the cell
medium includes a carbohydrate as well as a polypeptide (e.g., a
microbial or plant protein or peptide). In some embodiments, the
microbial polypeptide is a polypeptide from yeast or bacteria. In
some embodiments, the plant polypeptide is a polypeptide from soy,
corn, canola, jatropha, palm, peanut, sunflower, coconut, mustard,
rapeseed, cottonseed, palm kernel, olive, safflower, sesame, or
linseed.
[0396] In some embodiments, the concentration of the carbohydrate
is at least or about 5 grams per liter of broth (g/L, wherein the
volume of broth includes both the volume of the cell medium and the
volume of the cells), such as at least or about 10, 15, 20, 30, 40,
50, 60, 80, 100, 150, 200, 300, 400, or more g/L. In some
embodiments, the concentration of the carbohydrate is between about
50 and about 400 g/L, such as between about 100 and about 360 g/L,
between about 120 and about 360 g/L, or between about 200 and about
300 g/L. In some embodiments, this concentration of carbohydrate
includes the total amount of carbohydrate that is added before
and/or during the culturing of the host cells.
[0397] In some embodiments, the cells are cultured under limited
glucose conditions. By "limited glucose conditions" is meant that
the amount of glucose that is added is less than or about 105%
(such as about 100%) of the amount of glucose that is consumed by
the cells. In particular embodiments, the amount of glucose that is
added to the culture medium is approximately the same as the amount
of glucose that is consumed by the cells during a specific period
of time. In some embodiments, the rate of cell growth is controlled
by limiting the amount of added glucose such that the cells grow at
the rate that can be supported by the amount of glucose in the cell
medium. In some embodiments, glucose does not accumulate during the
time the cells are cultured. In various embodiments, the cells are
cultured under limited glucose conditions for greater than or about
1, 2, 3, 5, 10, 15, 20, 25, 30, 35, 40, 50, 60, or 70 hours. In
various embodiments, the cells are cultured under limited glucose
conditions for greater than or about 5, 10, 15, 20, 25, 30, 35, 40,
50, 60, 70, 80, 90, 95, or 100% of the total length of time the
cells are cultured. While not intending to be bound by any
particular theory, it is believed that limited glucose conditions
may allow more favorable regulation of the cells.
[0398] In some embodiments, the cells are cultured in the presence
of an excess of glucose. In particular embodiments, the amount of
glucose that is added is greater than about 105% (such as about or
greater than 110, 120, 150, 175, 200, 250, 300, 400, or 500%) or
more of the amount of glucose that is consumed by the cells during
a specific period of time. In some embodiments, glucose accumulates
during the time the cells are cultured.
[0399] Exemplary lipids are any substance containing one or more
fatty acids that are C4 and above fatty acids that are saturated,
unsaturated, or branched.
[0400] Exemplary oils are lipids that are liquid at room
temperature. In some embodiments, the lipid contains one or more C4
or above fatty acids (e.g., contains one or more saturated,
unsaturated, or branched fatty acid with four or more carbons). In
some embodiments, the oil is obtained from soy, corn, canola,
jatropha, palm, peanut, sunflower, coconut, mustard, rapeseed,
cottonseed, palm kernel, olive, safflower, sesame, linseed,
oleagineous microbial cells, Chinese tallow, or any combination of
two or more of the foregoing.
[0401] Exemplary fatty acids include compounds of the formula
RCOOH, where "R" is a hydrocarbon. Exemplary unsaturated fatty
acids include compounds where "R" includes at least one
carbon-carbon double bond. Exemplary unsaturated fatty acids
include, but are not limited to, oleic acid, vaccenic acid,
linoleic acid, palmitoleic acid, and arachidonic acid. Exemplary
polyunsaturated fatty acids include compounds where "R" includes a
plurality of carbon-carbon double bonds. Exemplary saturated fatty
acids include compounds where "R" is a saturated aliphatic group.
In some embodiments, the carbon source includes one or more
C.sub.12-C.sub.22 fatty acids, such as a C.sub.12 saturated fatty
acid, a C.sub.14 saturated fatty acid, a C.sub.16 saturated fatty
acid, a C.sub.18 saturated fatty acid, a C.sub.20 saturated fatty
acid, or a C.sub.22 saturated fatty acid. In an exemplary
embodiment, the fatty acid is palmitic acid. In some embodiments,
the carbon source is a salt of a fatty acid (e.g., an unsaturated
fatty acid), a derivative of a fatty acid (e.g., an unsaturated
fatty acid), or a salt of a derivative of fatty acid (e.g., an
unsaturated fatty acid). Suitable salts include, but are not
limited to, lithium salts, potassium salts, sodium salts, and the
like. Di- and triglycerols are fatty acid esters of glycerol.
[0402] In some embodiments, the concentration of the lipid, oil,
fat, fatty acid, monoglyceride, diglyceride, or triglyceride is at
least or about 1 gram per liter of broth (g/L, wherein the volume
of broth includes both the volume of the cell medium and the volume
of the cells), such as at least or about 5, 10, 15, 20, 30, 40, 50,
60, 80, 100, 150, 200, 300, 400, or more g/L. In some embodiments,
the concentration of the lipid, oil, fat, fatty acid,
monoglyceride, diglyceride, or triglyceride is between about 10 and
about 400 g/L, such as between about 25 and about 300 g/L, between
about 60 and about 180 g/L, or between about 75 and about 150 g/L.
In some embodiments, the concentration includes the total amount of
the lipid, oil, fat, fatty acid, monoglyceride, diglyceride, or
triglyceride that is added before and/or during the culturing of
the host cells. In some embodiments, the carbon source includes
both (i) a lipid, oil, fat, fatty acid, monoglyceride, diglyceride,
or triglyceride and (ii) a carbohydrate, such as glucose. In some
embodiments, the ratio of the lipid, oil, fat, fatty acid,
monoglyceride, diglyceride, or triglyceride to the carbohydrate is
about 1:1 on a carbon basis (i.e., one carbon in the lipid, oil,
fat, fatty acid, monoglyceride, diglyceride, or triglyceride per
carbohydrate carbon). In particular embodiments, the amount of the
lipid, oil, fat, fatty acid, monoglyceride, diglyceride, or
triglyceride is between about 60 and 180 g/L, and the amount of the
carbohydrate is between about 120 and 360 g/L.
[0403] Exemplary microbial polypeptide carbon sources include one
or more polypeptides from yeast or bacteria. Exemplary plant
polypeptide carbon sources include one or more polypeptides from
soy, corn, canola, jatropha, palm, peanut, sunflower, coconut,
mustard, rapeseed, cottonseed, palm kernel, olive, safflower,
sesame, or linseed.
[0404] Exemplary renewable carbon sources include cheese whey
permeate, cornsteep liquor, sugar beet molasses, barley malt, and
components from any of the foregoing. Exemplary renewable carbon
sources also include glucose, hexose, pentose and xylose present in
biomass, such as corn, switchgrass, sugar cane, cell waste of
fermentation processes, and protein by-product from the milling of
soy, corn, or wheat. In some embodiments, the biomass carbon source
is a lignocellulosic, hemicellulosic, or cellulosic material such
as, but are not limited to, a grass, wheat, wheat straw, bagasse,
sugar cane bagasse, soft wood pulp, corn, corn cob or husk, corn
kernel, fiber from corn kernels, corn stover, switch grass, rice
hull product, or a by-product from wet or dry milling of grains
(e.g., corn, sorghum, rye, triticate, barley, wheat, and/or
distillers grains). Exemplary cellulosic materials include wood,
paper and pulp waste, herbaceous plants, and fruit pulp. In some
embodiments, the carbon source includes any plant part, such as
stems, grains, roots, or tubers. In some embodiments, all or part
of any of the following plants are used as a carbon source: corn,
wheat, rye, sorghum, triticate, rice, millet, barley, cassava,
legumes, such as beans and peas, potatoes, sweet potatoes, bananas,
sugarcane, and/or tapioca. In some embodiments, the carbon source
is a biomass hydrolysate, such as a biomass hydrolysate that
includes both xylose and glucose or that includes both sucrose and
glucose.
[0405] In some embodiments, the renewable carbon source (such as
biomass) is pretreated before it is added to the cell culture
medium. In some embodiments, the pretreatment includes enzymatic
pretreatment, chemical pretreatment, or a combination of both
enzymatic and chemical pretreatment (see, for example, Farzaneh et
al., Bioresource Technology 96 (18): 2014-2018, 2005; U.S. Pat. No.
6,176,176; U.S. Pat. No. 6,106,888; which are each hereby
incorporated by reference in their entireties, particularly with
respect to the pretreatment of renewable carbon sources). In some
embodiments, the renewable carbon source is partially or completely
hydrolyzed before it is added to the cell culture medium.
[0406] In some embodiments, the renewable carbon source (such as
corn stover) undergoes ammonia fiber expansion (AFEX) pretreatment
before it is added to the cell culture medium (see, for example,
Farzaneh et al., Bioresource Technology 96 (18): 2014-2018, 2005).
During AFEX pretreatment, a renewable carbon source is treated with
liquid anhydrous ammonia at moderate temperatures (such as about 60
to about 100.degree. C.) and high pressure (such as about 250 to
about 300 psi) for about 5 minutes. Then, the pressure is rapidly
released. In this process, the combined chemical and physical
effects of lignin solubilization, hemicellulose hydrolysis,
cellulose decrystallization, and increased surface area enables
near complete enzymatic conversion of cellulose and hemicellulose
to fermentable sugars. AFEX pretreatment has the advantage that
nearly all of the ammonia can be recovered and reused, while the
remaining serves as nitrogen source for microbes in downstream
processes. Also, a wash stream is not required for AFEX
pretreatment. Thus, dry matter recovery following the AFEX
treatment is essentially 100%. AFEX is basically a dry to dry
process. The treated renewable carbon source is stable for long
periods and can be fed at very high solid loadings in enzymatic
hydrolysis or fermentation processes. Cellulose and hemicellulose
are well preserved in the AFEX process, with little or no
degradation. There is no need for neutralization prior to the
enzymatic hydrolysis of a renewable carbon source that has
undergone AFEX pretreatment. Enzymatic hydrolysis of AFEX-treated
carbon sources produces clean sugar streams for subsequent
fermentation use.
[0407] In some embodiments, the concentration of the carbon source
(e.g., a renewable carbon source) is equivalent to at least or
about 0.1, 0.5, 1, 1.5 2, 3, 4, 5, 10, 15, 20, 30, 40, or 50%
glucose (w/v). The equivalent amount of glucose can be determined
by using standard HPLC methods with glucose as a reference to
measure the amount of glucose generated from the carbon source. In
some embodiments, the concentration of the carbon source (e.g., a
renewable carbon source) is equivalent to between about 0.1 and
about 20% glucose, such as between about 0.1 and about 10% glucose,
between about 0.5 and about 10% glucose, between about 1 and about
10% glucose, between about 1 and about 5% glucose, or between about
1 and about 2% glucose.
[0408] In some embodiments, the carbon source includes yeast
extract or one or more components of yeast extract. In some
embodiments, the concentration of yeast extract is at least 1 gram
of yeast extract per liter of broth (g/L, wherein the volume of
broth includes both the volume of the cell medium and the volume of
the cells), such at least or about 5, 10, 15, 20, 30, 40, 50, 60,
80, 100, 150, 200, 300, or more g/L. In some embodiments, the
concentration of yeast extract is between about 1 and about 300
g/L, such as between about 1 and about 200 g/L, between about 5 and
about 200 g/L, between about 5 and about 100 g/L, or between about
5 and about 60 g/L. In some embodiments, the concentration includes
the total amount of yeast extract that is added before and/or
during the culturing of the host cells. In some embodiments, the
carbon source includes both yeast extract (or one or more
components thereof) and another carbon source, such as glucose. In
some embodiments, the ratio of yeast extract to the other carbon
source is about 1:5, about 1:10, or about 1:20 (w/w).
[0409] Additionally the carbon source may also be one-carbon
substrates such as carbon dioxide, or methanol. Glycerol production
from single carbon sources (e.g., methanol, formaldehyde, or
formate) has been reported in methylotrophic yeasts (Yamada et al.,
Agric. Biol. Chem., 53(2) 541-543, 1989, which is hereby
incorporated by reference in its entirety, particularly with
respect to carbon sources) and in bacteria (Hunter et. al.,
Biochemistry, 24, 4148-4155, 1985, which is hereby incorporated by
reference in its entirety, particularly with respect to carbon
sources). These organisms can assimilate single carbon compounds,
ranging in oxidation state from methane to formate, and produce
glycerol. The pathway of carbon assimilation can be through
ribulose monophosphate, through serine, or through
xylulose-momophosphate (Gottschalk, Bacterial Metabolism, Second
Edition, Springer-Verlag: New York, 1986, which is hereby
incorporated by reference in its entirety, particularly with
respect to carbon sources). The ribulose monophosphate pathway
involves the condensation of formate with ribulose-5-phosphate to
form a six carbon sugar that becomes fructose and eventually the
three carbon product glyceraldehyde-3-phosphate. Likewise, the
serine pathway assimilates the one-carbon compound into the
glycolytic pathway via methylenetetrahydrofolate.
[0410] In addition to one and two carbon substrates, methylotrophic
organisms are also known to utilize a number of other carbon
containing compounds such as methylamine, glucosamine and a variety
of amino acids for metabolic activity. For example, methylotrophic
yeast are known to utilize the carbon from methylamine to form
trehalose or glycerol (Bellion et al., Microb. Growth Cl Compd.,
[Int. Symp.], 7.sup.th ed., 415-32. Editors: Murrell et al.,
Publisher: Intercept, Andover, UK, 1993, which is hereby
incorporated by reference in its entirety, particularly with
respect to carbon sources). Similarly, various species of Candida
metabolize alanine or oleic acid (Sulter et al., Arch. Microbiol.
153(5), 485-9, 1990, which is hereby incorporated by reference in
its entirety, particularly with respect to carbon sources).
[0411] In some embodiments, cells are cultured in a standard medium
containing physiological salts and nutrients (see, e.g., Pourquie,
J. et al., Biochemistry and Genetics of Cellulose Degradation, eds.
Aubert et al., Academic Press, pp. 71-86, 1988 and Ilmen et al.,
Appl. Environ. Microbiol. 63:1298-1306, 1997, which are each hereby
incorporated by reference in their entireties, particularly with
respect to cell medias). Exemplary growth media are common
commercially prepared media such as Luria Bertani (LB) broth,
Sabouraud Dextrose (SD) broth, or Yeast medium (YM) broth. Other
defined or synthetic growth media may also be used, and the
appropriate medium for growth of particular host cells are known by
someone skilled in the art of microbiology or fermentation
science.
[0412] In addition to an appropriate carbon source, the cell medium
desirably contains suitable minerals, salts, cofactors, buffers,
and other components known to those skilled in the art suitable for
the growth of the cultures or the enhancement of isoprene
production (see, for example, WO 2004/033646 and references cited
therein and WO 96/35796 and references cited therein, which are
each hereby incorporated by reference in their entireties,
particularly with respect cell medias and cell culture conditions).
In some embodiments where an isoprene synthase, DXS, IDI, and/or
MVA pathway nucleic acid is under the control of an inducible
promoter, the inducing agent (e.g., a sugar, metal salt or
antimicrobial), is desirably added to the medium at a concentration
effective to induce expression of an isoprene synthase, DXS, IDI,
and/or MVA pathway polypeptide. In some embodiments, cell medium
has an antibiotic (such as kanamycin) that corresponds to the
antibiotic resistance nucleic acid (such as a kanamycin resistance
nucleic acid) on a vector that has one or more DXS, IDI, or MVA
pathway nucleic acids.
Exemplary Cell Culture Conditions
[0413] Materials and methods suitable for the maintenance and
growth of bacterial cultures are well known in the art. Exemplary
techniques may be found in Manual of Methods for General
Bacteriology Gerhardt et al., eds), American Society for
Microbiology, Washington, D.C. (1994) or Brock in Biotechnology: A
Textbook of Industrial Microbiology, Second Edition (1989) Sinauer
Associates, Inc., Sunderland, Mass., which are each hereby
incorporated by reference in their entireties, particularly with
respect to cell culture techniques. In some embodiments, the cells
are cultured in a culture medium under conditions permitting the
expression of one or more isoprene synthase, DXS, IDI, or MVA
pathway polypeptides encoded by a nucleic acid inserted into the
host cells.
[0414] Standard cell culture conditions can be used to culture the
cells (see, for example, WO 2004/033646 and references cited
therein, which are each hereby incorporated by reference in their
entireties, particularly with respect to cell culture and
fermentation conditions). Cells are grown and maintained at an
appropriate temperature, gas mixture, and pH (such as at about
20.degree. C. to about 37.degree. C., at about 6% to about 84%
CO.sub.2, and at a pH between about 5 to about 9). In some
embodiments, cells are grown at 35.degree. C. in an appropriate
cell medium. In some embodiments, e.g., cultures are cultured at
approximately 28.degree. C. in appropriate medium in shake cultures
or fermentors until the desired amount of isoprene and hydrogen
co-production is achieved. In some embodiments, the pH ranges for
fermentation are between about pH 5.0 to about pH 9.0 (such as
about pH 6.0 to about pH 8.0 or about 6.5 to about 7.0). Reactions
may be performed under aerobic, anoxic, or anaerobic conditions
based on the requirements of the host cells. In some embodiments,
the cells are cultured under oxygen-limited conditions. In some
embodiments, the cells are cultured in the presence of oxygen under
conditions where 0.5 moles of oxygen are taken up per mole of
isoprene produced. In some embodiments, the cells are cultured
under anaerobic conditions. Exemplary culture conditions for a
given filamentous fungus are known in the art and may be found in
the scientific literature and/or from the source of the fungi such
as the American Type Culture Collection and Fungal Genetics Stock
Center.
[0415] In various embodiments, the cells are grown using any known
mode of fermentation, such as batch, fed-batch, or continuous
processes. In some embodiments, a batch method of fermentation is
used. Classical batch fermentation is a closed system where the
composition of the media is set at the beginning of the
fermentation and is not subject to artificial alterations during
the fermentation. Thus, at the beginning of the fermentation the
cell medium is inoculated with the desired host cells and
fermentation is permitted to occur adding nothing to the system.
Typically, however, "batch" fermentation is batch with respect to
the addition of carbon source and attempts are often made at
controlling factors such as pH and oxygen concentration. In batch
systems, the metabolite and biomass compositions of the system
change constantly until the time the fermentation is stopped.
Within batch cultures, cells moderate through a static lag phase to
a high growth log phase and finally to a stationary phase where
growth rate is diminished or halted. In some embodiments, cells in
log phase are responsible for the bulk of the isoprene production.
In some embodiments, cells in stationary phase produce
isoprene.
[0416] In some embodiments, a variation on the standard batch
system is used, such as the Fed-Batch system. Fed-Batch
fermentation processes comprise a typical batch system with the
exception that the carbon source is added in increments as the
fermentation progresses. Fed-Batch systems are useful when
catabolite repression is apt to inhibit the metabolism of the cells
and where it is desirable to have limited amounts of carbon source
in the cell medium. Fed-batch fermentations may be performed with
the carbon source (e.g., glucose) in a limited or excess amount.
Measurement of the actual carbon source concentration in Fed-Batch
systems is difficult and is therefore estimated on the basis of the
changes of measurable factors such as pH, dissolved oxygen, and the
partial pressure of waste gases such as CO.sub.2. Batch and
Fed-Batch fermentations are common and well known in the art and
examples may be found in Brock, Biotechnology: A Textbook of
Industrial Microbiology, Second Edition (1989) Sinauer Associates,
Inc., which is hereby incorporated by reference in its entirety,
particularly with respect to cell culture and fermentation
conditions.
[0417] In some embodiments, continuous fermentation methods are
used. Continuous fermentation is an open system where a defined
fermentation medium is added continuously to a bioreactor and an
equal amount of conditioned medium is removed simultaneously for
processing. Continuous fermentation generally maintains the
cultures at a constant high density where cells are primarily in
log phase growth.
[0418] Continuous fermentation allows for the modulation of one
factor or any number of factors that affect cell growth or isoprene
production. For example, one method maintains a limiting nutrient
such as the carbon source or nitrogen level at a fixed rate and
allows all other parameters to moderate. In other systems, a number
of factors affecting growth can be altered continuously while the
cell concentration (e.g., the concentration measured by media
turbidity) is kept constant. Continuous systems strive to maintain
steady state growth conditions. Thus, the cell loss due to media
being drawn off is balanced against the cell growth rate in the
fermentation. Methods of modulating nutrients and growth factors
for continuous fermentation processes as well as techniques for
maximizing the rate of product formation are well known in the art
of industrial microbiology and a variety of methods are detailed by
Brock, Biotechnology: A Textbook of Industrial Microbiology, Second
Edition (1989) Sinauer Associates, Inc., which is hereby
incorporated by reference in its entirety, particularly with
respect to cell culture and fermentation conditions.
[0419] In some embodiments, cells are immobilized on a substrate as
whole cell catalysts and subjected to fermentation conditions for
isoprene production.
[0420] In some embodiments, bottles of liquid culture are placed in
shakers in order to introduce oxygen to the liquid and maintain the
uniformity of the culture. In some embodiments, an incubator is
used to control the temperature, humidity, shake speed, and/or
other conditions in which a culture is grown. The simplest
incubators are insulated boxes with an adjustable heater, typically
going up to .about.65.degree. C. More elaborate incubators can also
include the ability to lower the temperature (via refrigeration),
or the ability to control humidity or CO.sub.2 levels. Most
incubators include a timer; some can also be programmed to cycle
through different temperatures, humidity levels, etc. Incubators
can vary in size from tabletop to units the size of small
rooms.
[0421] If desired, a portion or all of the cell medium can be
changed to replenish nutrients and/or avoid the build up of
potentially harmful metabolic byproducts and dead cells. In the
case of suspension cultures, cells can be separated from the media
by centrifuging or filtering the suspension culture and then
resuspending the cells in fresh media. In the case of adherent
cultures, the media can be removed directly by aspiration and
replaced. In some embodiments, the cell medium allows at least a
portion of the cells to divide for at least or about 5, 10, 20, 40,
50, 60, 65, or more cell divisions in a continuous culture (such as
a continuous culture without dilution).
[0422] In some embodiments, a constitutive or leaky promoter (such
as a Trc promoter) is used and a compound (such as IPTG) is not
added to induce expression of the isoprene synthase, DXS, IDI, or
MVA pathway nucleic acid(s) operably linked to the promoter. In
some embodiments, a compound (such as IPTG) is added to induce
expression of the isoprene synthase, DXS, IDI, or MVA pathway
nucleic acid(s) operably linked to the promoter.
Exemplary Methods for Decoupling Isoprene Production from Cell
Growth
[0423] Desirably, carbon from the feedstock is converted to
isoprene rather than to the growth and maintenance of the cells. In
some embodiments, the cells are grown to a low to medium
OD.sub.600, then production of isoprene is started or increased.
This strategy permits a large portion of the carbon to be converted
to isoprene.
[0424] In some embodiments, cells reach an optical density such
that they no longer divide or divide extremely slowly, but continue
to make isoprene for several hours (such as about 2, 4, 6, 8, 10,
15, 20, 25, 30, or more hours). For example, FIGS. 60A-67C
illustrate that cells may continue to produce a substantial amount
of mevalonic acid or isoprene after the cells reach an optical
density such that they no longer divide or divide extremely slowly.
In some cases, the optical density at 550 nm decreases over time
(such as a decrease in the optical density after the cells are no
longer in an exponential growth phase due to cell lysis), and the
cells continue to produce a substantial amount of mevalonic acid or
isoprene. In some embodiments, the optical density at 550 nm of the
cells increases by less than or about 50% (such as by less than or
about 40, 30, 20, 10, 5, or 0%) over a certain time period (such as
greater than or about 5, 10, 15, 20, 25, 30, 40, 50 or 60 hours),
and the cells produce isoprene at greater than or about 1, 10, 25,
50, 100, 150, 200, 250, 300, 400, 500, 600, 700, 800, 900, 1,000,
1,250, 1,500, 1,750, 2,000, 2,500, 3,000, 4,000, 5,000, or more
nmole of isoprene/gram of cells for the wet weight of the
cells/hour (nmole/g.sub.wcm/hr) during this time period. In some
embodiments, the amount of isoprene is between about 2 to about
5,000 nmole/g.sub.wcm/hr, such as between about 2 to about 100
nmole/g.sub.wcm/hr, about 100 to about 500 nmole/g.sub.wcm/hr,
about 150 to about 500 nmole/g.sub.wcm/hr, about 500 to about 1,000
nmole/g.sub.wcm/hr, about 1,000 to about 2,000 nmole/g.sub.wcm/hr,
or about 2,000 to about 5,000 nmole/g.sub.wcm/hr. In some
embodiments, the amount of isoprene is between about 20 to about
5,000 nmole/g.sub.wcm/hr, about 100 to about 5,000
nmole/g.sub.wcm/hr, about 200 to about 2,000 nmole/g.sub.wcm/hr,
about 200 to about 1,000 nmole/g.sub.wcm/hr, about 300 to about
1,000 nmole/g.sub.wcm/hr, or about 400 to about 1,000
nmole/g.sub.wcm/hr.
[0425] In some embodiments, the optical density at 550 nm of the
cells increases by less than or about 50% (such as by less than or
about 40, 30, 20, 10, 5, or 0%) over a certain time period (such as
greater than or about 5, 10, 15, 20, 25, 30, 40, 50 or 60 hours),
and the cells produce a cumulative titer (total amount) of isoprene
at greater than or about 1, 10, 25, 50, 100, 150, 200, 250, 300,
400, 500, 600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000,
2,500, 3,000, 4,000, 5,000, 10,000, 50,000, 100,000, or more mg of
isoprene/L of broth (mg/L.sub.broth, wherein the volume of broth
includes the volume of the cells and the cell medium) during this
time period. In some embodiments, the amount of isoprene is between
about 2 to about 5,000 mg/L.sub.broth, such as between about 2 to
about 100 mg/L.sub.broth, about 100 to about 500 mg/L.sub.broth,
about 500 to about 1,000 mg/L.sub.broth, about 1,000 to about 2,000
mg/L.sub.broth, or about 2,000 to about 5,000 mg/L.sub.broth. In
some embodiments, the amount of isoprene is between about 20 to
about 5,000 mg/L.sub.broth, about 100 to about 5,000
mg/L.sub.broth, about 200 to about 2,000 mg/L.sub.broth, about 200
to about 1,000 mg/L.sub.broth, about 300 to about 1,000
mg/L.sub.broth, or about 400 to about 1,000 mg/L.sub.broth.
[0426] In some embodiments, the optical density at 550 nm of the
cells increases by less than or about 50% (such as by less than or
about 40, 30, 20, 10, 5, or 0%) over a certain time period (such as
greater than or about 5, 10, 15, 20, 25, 30, 40, 50 or 60 hours),
and the cells convert greater than or about 0.0015, 0.002, 0.005,
0.01, 0.02, 0.05, 0.1, 0.12, 0.14, 0.16, 0.2, 0.3, 0.4, 0.5, 0.6,
0.7, 0.8, 0.9, 1.0, 1.2, 1.4, 1.6, 1.8, 2.0, 2.5, 3.0, 3.5, 4.0,
5.0, 6.0, 7.0, or 8.0% of the carbon in the cell culture medium
into isoprene during this time period. In some embodiments, the
percent conversion of carbon into isoprene is between such as about
0.002 to about 4.0%, about 0.002 to about 3.0%, about 0.002 to
about 2.0%, about 0.002 to about 1.6%, about 0.002 to about 0.005%,
about 0.005 to about 0.01%, about 0.01 to about 0.05%, about 0.05
to about 0.15%, 0.15 to about 0.2%, about 0.2 to about 0.3%, about
0.3 to about 0.5%, about 0.5 to about 0.8%, about 0.8 to about
1.0%, or about 1.0 to about 1.6%. In some embodiments, the percent
conversion of carbon into isoprene is between about 0.002 to about
0.4%, 0.002 to about 0.16%, 0.04 to about 0.16%, about 0.005 to
about 0.3%, about 0.01 to about 0.3%, or about 0.05 to about
0.3%.
[0427] In some embodiments, isoprene is only produced in stationary
phase. In some embodiments, isoprene is produced in both the growth
phase and stationary phase. In various embodiments, the amount of
isoprene produced (such as the total amount of isoprene produced or
the amount of isoprene produced per liter of broth per hour per
OD.sub.600) during stationary phase is greater than or about 2, 3,
4, 5, 10, 20, 30, 40, 50, or more times the amount of isoprene
produced during the growth phase for the same length of time. In
various embodiments, greater than or about 5, 10, 20, 30, 40, 50,
60, 70, 80, 90, 95, 99% or more of the total amount of isoprene
that is produced (such as the production of isoprene during a
fermentation for a certain amount of time, such as 20 hours) is
produced while the cells are in stationary phase. In various
embodiments, greater than or about 5, 10, 20, 30, 40, 50, 60, 70,
80, 90, 95, 99% or more of the total amount of isoprene that is
produced (such as the production of isoprene during a fermentation
for a certain amount of time, such as 20 hours) is produced while
the cells divide slowly or not at all such that the optical density
at 550 nm of the cells increases by less than or about 50% (such as
by less than or about 40, 30, 20, 10, 5, or 0%). In some
embodiments, isoprene is only produced in the growth phase.
[0428] In some embodiments, one or more MVA pathway, IDI, DXP, or
isoprene synthase nucleic acids are placed under the control of a
promoter or factor that is more active in stationary phase than in
the growth phase. For example, one or more MVA pathway, IDI, DXP,
or isoprene synthase nucleic acids may be placed under control of a
stationary phase sigma factor, such as RpoS. In some embodiments,
one or more MVA pathway, IDI, DXP, or isoprene synthase nucleic
acids are placed under control of a promoter inducible in
stationary phase, such as a promoter inducible by a response
regulator active in stationary phase.
Production of Isoprene within Safe Operating Ranges
[0429] The production of isoprene within safe operating levels
according to its flammability characteristics simplifies the design
and construction of commercial facilities, vastly improves the
ability to operate safely, and limits the potential for fires to
occur. In particular, the optimal ranges for the production of
isoprene are within the safe zone, i.e., the nonflammable range of
isoprene concentrations. In one such aspect, described herein is a
method for the production of isoprene within the nonflammable range
of isoprene concentrations (outside the flammability envelope of
isoprene).
[0430] Thus, computer modeling and experimental testing were used
to determine the flammability limits of isoprene (such as isoprene
in the presence of O.sub.2, N.sub.2, CO.sub.2, or any combination
of two or more of the foregoing gases) in order to ensure process
safety. The flammability envelope is characterized by the lower
flammability limit (LFL), the upper flammability limit (UFL), the
limiting oxygen concentration (LOC), and the limiting temperature.
For a system to be flammable, a minimum amount of fuel (such as
isoprene) must be in the presence of a minimum amount of oxidant,
typically oxygen. The LFL is the minimum amount of isoprene that
must be present to sustain burning, while the UFL is the maximum
amount of isoprene that can be present. Above this limit, the
mixture is fuel rich and the fraction of oxygen is too low to have
a flammable mixture. The LOC indicates the minimum fraction of
oxygen that must also be present to have a flammable mixture. The
limiting temperature is based on the flash point of isoprene and is
that lowest temperature at which combustion of isoprene can
propagate. These limits are specific to the concentration of
isoprene, type and concentration of oxidant, inerts present in the
system, temperature, and pressure of the system. Compositions that
fall within the limits of the flammability envelope propagate
combustion and require additional safety precautions in both the
design and operation of process equipment.
[0431] The following conditions were tested using computer
simulation and mathematical analysis and experimental testing. If
desired, other conditions (such as other temperature, pressure, and
permanent gas compositions) may be tested using the methods
described herein to determine the LFL, UFL, and LOC
concentrations.
(1) Computer Simulation and Mathematical Analysis
Test Suite 1:
[0432] isoprene: 0 wt %-14 wt %
O.sub.2: 6 wt %-21 wt %
N.sub.2: 79 wt %-94 wt %
Test Suite 2:
[0433] isoprene: 0 wt %-14 wt %
O.sub.2: 6 wt %-21 wt %
N.sub.2: 79 wt %-94 wt %
[0434] Saturated with H.sub.2O
Test Suite 3:
[0435] isoprene: 0 wt %-14 wt %
O.sub.2: 6 wt %-21 wt %
N.sub.2: 79 wt %-94 wt %
CO.sub.2: 5 wt %-30 wt %
(2) Experimental Testing for Final Determination of Flammability
Limits
Test Suite 1:
[0436] isoprene: 0 wt %-14 wt %
O.sub.2: 6 wt %-21 wt %
N.sub.2: 79 wt %-94 wt %
Test Suite 2:
[0437] isoprene: 0 wt %-14 wt %
O.sub.2: 6 wt %-21 wt %
N.sub.2: 79 wt %-94 wt %
[0438] Saturated with H.sub.2O
[0439] Simulation software was used to give an estimate of the
flammability characteristics of the system for several different
testing conditions. CO.sub.2 showed no significant affect on the
system's flammability limits. Test suites 1 and 2 were confirmed by
experimental testing. The modeling results were in-line with the
experimental test results. Only slight variations were found with
the addition of water.
[0440] The LOC was determined to be 9.5 vol % for an isoprene,
O.sub.2, N.sub.2, and CO.sub.2 mixture at 40.degree. C. and 1
atmosphere. The addition of up to 30% CO.sub.2 did not
significantly affect the flammability characteristics of an
isoprene, O.sub.2, and N.sub.2 mixture. Only slight variations in
flammability characteristics were shown between a dry and water
saturated isoprene, O.sub.2, and N.sub.2 system. The limiting
temperature is about -54.degree. C. Temperatures below about
-54.degree. C. are too low to propagate combustion of isoprene.
[0441] In some embodiments, the LFL of isoprene ranges from about
1.5 vol. % to about 2.0 vol %, and the UFL of isoprene ranges from
about 2.0 vol. % to about 12.0 vol. %, depending on the amount of
oxygen in the system. In some embodiments, the LOC is about 9.5 vol
% oxygen. In some embodiments, the LFL of isoprene is between about
1.5 vol. % to about 2.0 vol %, the UFL of isoprene is between about
2.0 vol. % to about 12.0 vol. %, and the LOC is about 9.5 vol %
oxygen when the temperature is between about 25.degree. C. to about
55.degree. C. (such as about 40.degree. C.) and the pressure is
between about 1 atmosphere and 3 atmospheres.
[0442] In some embodiments, isoprene is produced in the presence of
less than about 9.5 vol % oxygen (that is, below the LOC required
to have a flammable mixture of isoprene). In some embodiments in
which isoprene is produced in the presence of greater than or about
9.5 vol % oxygen, the isoprene concentration is below the LFL (such
as below about 1.5 vol. %). For example, the amount of isoprene can
be kept below the LFL by diluting the isoprene composition with an
inert gas (e.g., by continuously or periodically adding an inert
gas such as nitrogen to keep the isoprene composition below the
LFL). In some embodiments in which isoprene is produced in the
presence of greater than or about 9.5 vol % oxygen, the isoprene
concentration is above the UFL (such as above about 12 vol. %). For
example, the amount of isoprene can be kept above the UFL by using
a system (such as any of the cell culture systems described herein)
that produces isoprene at a concentration above the UFL. If
desired, a relatively low level of oxygen can be used so that the
UFL is also relatively low. In this case, a lower isoprene
concentration is needed to remain above the UFL.
[0443] In some embodiments in which isoprene is produced in the
presence of greater than or about 9.5 vol % oxygen, the isoprene
concentration is within the flammability envelope (such as between
the LFL and the UFL). In some embodiments when the isoprene
concentration may fall within the flammability envelope, one or
more steps are performed to reduce the probability of a fire or
explosion. For example, one or more sources of ignition (such as
any materials that may generate a spark) can be avoided. In some
embodiments, one or more steps are performed to reduce the amount
of time that the concentration of isoprene remains within the
flammability envelope. In some embodiments, a sensor is used to
detect when the concentration of isoprene is close to or within the
flammability envelope. If desired, the concentration of isoprene
can be measured at one or more time points during the culturing of
cells, and the cell culture conditions and/or the amount of inert
gas can be adjusted using standard methods if the concentration of
isoprene is close to or within the flammability envelope. In
particular embodiments, the cell culture conditions (such as
fermentation conditions) are adjusted to either decrease the
concentration of isoprene below the LFL or increase the
concentration of isoprene above the UFL. In some embodiments, the
amount of isoprene is kept below the LFL by diluting the isoprene
composition with an inert gas (such as by continuously or
periodically adding an inert gas to keep the isoprene composition
below the LFL).
[0444] In some embodiments, the amount of flammable volatiles other
than isoprene (such as one or more sugars) is at least about 2, 5,
10, 50, 75, or 100-fold less than the amount of isoprene produced.
In some embodiments, the portion of the gas phase other than
isoprene gas comprises between about 0% to about 100% (volume)
oxygen, such as between about 0% to about 10%, about 10% to about
20%, about 20% to about 30%, about 30% to about 40%, about 40% to
about 50%, about 50% to about 60%, about 60% to about 70%, about
70% to about 80%, about 90% to about 90%, or about 90% to about
100% (volume) oxygen. In some embodiments, the portion of the gas
phase other than isoprene gas comprises between about 0% to about
99% (volume) nitrogen, such as between about 0% to about 10%, about
10% to about 20%, about 20% to about 30%, about 30% to about 40%,
about 40% to about 50%, about 50% to about 60%, about 60% to about
70%, about 70% to about 80%, about 90% to about 90%, or about 90%
to about 99% (volume) nitrogen.
[0445] In some embodiments, the portion of the gas phase other than
isoprene gas comprises between about 1% to about 50% (volume)
CO.sub.2, such as between about 1% to about 10%, about 10% to about
20%, about 20% to about 30%, about 30% to about 40%, or about 40%
to about 50% (volume) CO.sub.2.
[0446] In some embodiments, an isoprene composition also contains
ethanol. For example, ethanol may be used for extractive
distillation of isoprene, resulting in compositions (such as
intermediate product streams) that include both ethanol and
isoprene. Desirably, the amount of ethanol is outside the
flammability envelope for ethanol. The LOC of ethanol is about 8.7
vol %, and the LFL for ethanol is about 3.3 vol % at standard
conditions, such as about 1 atmosphere and about 60 F (NFPA 69
Standard on Explosion Prevention Systems, 2008 edition, which is
hereby incorporated by reference in its entirety, particularly with
respect to LOC, LFL, and UFL values). In some embodiments,
compositions that include isoprene and ethanol are produced in the
presence of less than the LOC required to have a flammable mixture
of ethanol (such as less than about 8.7% vol %). In some
embodiments in which compositions that include isoprene and ethanol
are produced in the presence of greater than or about the LOC
required to have a flammable mixture of ethanol, the ethanol
concentration is below the LFL (such as less than about 3.3 vol.
%).
[0447] In various embodiments, the amount of oxidant (such as
oxygen) is below the LOC of any fuel in the system (such as
isoprene or ethanol). In various embodiments, the amount of oxidant
(such as oxygen) is less than about 60, 40, 30, 20, 10, or 5% of
the LOC of isoprene or ethanol. In various embodiments, the amount
of oxidant (such as oxygen) is less than the LOC of isoprene or
ethanol by at least 2, 4, 5, or more absolute percentage points
(vol %). In particular embodiments, the amount of oxygen is at
least 2 absolute percentage points (vol %) less than the LOC of
isoprene or ethanol (such as an oxygen concentration of less than
7.5 vol % when the LOC of isoprene is 9.5 vol %). In various
embodiments, the amount of fuel (such as isoprene or ethanol) is
less than or about 25, 20, 15, 10, or 5% of the LFL for that
fuel.
High Efficiency Production and Recovery of Isoprene, a Volatile
Hydrocarbon, by Fermentation
[0448] Methods are provided herein of producing isoprene comprising
a) culturing cells under suitable conditions for production of
isoprene; and b) producing isoprene, wherein the liquid phase
concentration of isoprene is less than about 200 mg/L. In some
embodiments, the liquid phase concentration of isoprene in the
culture is less than about any of 175 mg/L, 150 mg/L, 125 mg/L, 100
mg/L, 75 mg/L, 50 mg/L, 25 mg/L, 20 mg/L, 15 mg/L, 10 mg/L, 5 mg/L,
or 2.5 mg/L. In some embodiments, the liquid phase concentration of
isoprene in culture is between about any of 0.1 mg/L to 200 mg/L, 1
mg/L to 200 mg/L, 1 mg/L to 150 mg/L, 1 mg/L to 100 mg/L, 1 mg/L to
50 mg/L, 1 mg/L to 25 mg/L, 1 mg/L to 20 mg/L, or 10 mg/L to 20
mg/L. In some embodiments, the isoprene produced is any
concentration or amount disclosed in the section entitled
"Exemplary Production of Isoprene." In some embodiments, the liquid
phase concentration is below the solubility limit of isoprene.
[0449] In some embodiments of the methods, the cells produce
greater than about 400 nmole/gwcm/hour of isoprene. In some
embodiments, the amount of isoprene is between about any of 400
nmole/g.sub.wcm/hour to 1 mole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 1 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 40 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 4 mmole/g.sub.wcm/hour, 1
mmole/g.sub.wcm/hour to 1.5 mmole/g.sub.wcm/hour, 1.5
mmole/g.sub.wcm/hour to 3 mmole/g.sub.wcm/hour, 3
mmole/g.sub.wcm/hour to 5 mmole/g.sub.wcm/hour, 5
mmole/g.sub.wcm/hour to 25 mmole/g.sub.wcm/hour, 25
mmole/g.sub.wcm/hour to 100 mmole/g.sub.wcm/hour, 100
mmole/g.sub.wcm/hour to 500 mmole/g.sub.wcm/hour, or 500
mmole/g.sub.wcm/hour to 1000 mmole/g.sub.wcm/hour. In some
embodiments, the amount of isoprene is about any of 1
mmole/g.sub.wcm/hour, 1.5 mmole/g.sub.wcm/hour, 2
mmole/g.sub.wcm/hour, 3 mmole/g.sub.wcm/hour, 4
mmole/g.sub.wcm/hour, or 5 mmole/g.sub.wcm/hour.
[0450] The low value for Henry's coefficient (in M atm.sup.-1
units) means that isoprene can be recovered from fermentation broth
by gas stripping at low sparging rates, for example 0.01 vvm to 2
vvm. In some embodiments, the gas sparging rate is between about
any of 0.1 vvm to 1 vvm, 0.01 vvm to 0.5 vvm, 0.2 vvm to 1 vvm, or
0.5 vvm to 1 vvm. In some embodiments, the gas sparging rate is
about any of 0.1 vvm, 0.25 vvm, 0.5 vvm, 0.75 vvm, 1 vvm, 1.25 vvm,
1.5 vvm, 1.75 vvm, or 2 vvm. In some embodiments, the low sparging
rates are maintained for the entire course of the fermentation run,
during growth phase, or during stationary phase. In some
embodiments, the low sparging rates are maintained for between
about any of 1 hour to 5 hours, 5 hours to 10 hours, 10 hours to 20
hours, 20 hours to 30 hours, 30 hours to 40 hours, 40 hours to 50
hours, or 50 hours to 60 hours. The lower desirable gas sparge
limit is defined by the point at which the aqueous phase becomes
saturated with isoprene and a liquid organic phase forms. This can
only occur below the boiling point of isoprene (34.1.degree. C. at
1 atm), above which a liquid isoprene phase will never form. At
temperatures below the boiling point of isoprene, the formation of
a liquid phase is determined by the aqueous solubility of isoprene,
which is approximately 650 mg/L at 25.degree. C. While it is highly
desirable to avoid the formation of a liquid isoprene phase, it is
not absolutely required provided that the cells can tolerate the
presence of liquid isoprene without toxic effects.
[0451] In some embodiments, the oxygen, CO.sub.2, and isoprene are
any of the amounts or concentrations discussed in the section
entitled "Production of Isoprene with Safe Operating Ranges." In
some embodiments, all the oxygen is consumed by the cells while
maintaining fully aerobic metabolism. In some embodiments, an
excess of oxygen is used in order to satisfy the oxygen demands of
the cells. Desirable ranges of oxygen in the off-gas are less than
20%, or less than 15% or less than 10% (v/v). Levels of oxygen
below the limiting oxygen concentration required for combustion of
isoprene (9.5% v/v at 1 atm) are particularly desirable. In some
embodiments, oxygen-enriched air is utilized with the purpose of
allowing minimal gas sweep rates while satisfying the cellular
oxygen demand. In some embodiments, the portion of the gas phase of
the gas sweep comprises between about 0.1% to about 10%, about 10%
to about 20%, or about 20% to about 30% (volume) oxygen. In some
embodiments, isoprene fermentations are performed under high
pressure in order minimize the amount of excess oxygen required to
maintain the required dissolved oxygen levels in the liquid
phase.
[0452] In some embodiments, the reduction of the gas sweep rate
through the fermentor is advantageous for an integrated isoprene
production process in that such conditions enrich the off-gas
isoprene levels up to about 30,000 .mu.g/L (about 1% v/v) without
adversely affecting the physiology of the cells.
[0453] In some embodiments, reduced gas-sparge rates do not
significantly adversely affect the physiology of the cells. In some
embodiments, the carbon dioxide evolution rate of cells in culture
with reduced gas-sparge rates is between about any of
1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1 mmol/L/hour
to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25 mmol/L/hour
to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour, or 450
mmol/L/hour to 550 mmol/L/hour. In some embodiments, the carbon
dioxide evolution rate is about any of 50 mmol/L/hour, 100
mmol/L/hour, 150 mmol/L/hour, 200 mmol/L/hour, 250 mmol/L/hour, 300
mmol/L/hour, 350 mmol/L/hour, 400 mmol/L/hour, 450 mmol/L/hour, or
500 mmol/L/hour. In some embodiments, cell viability with reduced
gas-sparge rates is reduced by less than about any of 1.75-fold,
1.5-fold, 1.25-fold, 1-fold, 0.75-fold, 0.5-fold, or 0.25-fold. In
some embodiments, cell viability with reduced gas-sparge rates is
reduced by about 2-fold. In some embodiments, cell viability with
reduced gas-sparge rates of a cell expressing a MVA pathway and/or
DXP pathway RNA and/or protein from one or more of a heterologous
and/or duplicate copy of a MVA pathway and/or DXP pathway nucleic
acid is compared to a control cell lacking one or more of a
heterologous and/or duplicate copy of a MVA pathway and/or DXP
pathway nucleic acid with reduced gas-sparge rates. In some
embodiments, cell viability with reduced gas-sparge rates of a cell
expressing a MVA pathway and/or DXP pathway RNA and/or protein from
one or more of a heterologous and/or duplicate copy of a MVA
pathway and/or DXP pathway nucleic acid under the control of an
inducible promoter, wherein the promotor is induced, is compared to
a control cell containing one or more of a heterologous and/or
duplicate copy of a MVA pathway and/or DXP pathway nucleic acid
under the control of an inducible promoter, wherein the promotor is
not induced (uninduced) with reduced gas-sparge rates. In some
embodiments, the inducible promoter is a beta-galactosidase
promotor.
[0454] In some embodiments, the fermentation of a genetically
modified host organism that converts at least 5% of the total
carbon consumed by the organism into a volatile, unsaturated
hydrocarbon. In some embodiments, the production of an unsaturated
hydrocarbon at such a rate as to be present in the fermentation
off-gas at a level of at least about any of 100 .mu.g/L, 500
.mu.g/L, 1000 .mu.g/L, 2,500 .mu.g/L, 5,000 .mu.g/L, 7,500 .mu.g/L,
or 10,000 .mu.g/L.
[0455] In some embodiments, the unsaturated hydrocarbon is
recovered from the off-gas stream in a manner that is suited to
high-rates of production, which correspond to concentrations in the
off-gas of at least about any of 100 .mu.g/L, 500 .mu.g/L, 1000
.mu.g/L, 2,500 .mu.g/L, 5,000 .mu.g/L, 7,500 .mu.g/L, or 10,000
.mu.g/L. In some embodiments, the continuous extraction and
recovery of an unsaturated hydrocarbon from the fermentation
off-gas in particular at low gas sweep rates such that the
resulting off-gas is enriched in the volatile component of
interest. In some embodiments, recovery of the volatile hydrocarbon
by methods that depend on elevated concentrations of the volatile.
For example, efficient capture of isoprene in fermentation off-gas
through the use of compression/condensation or extractive
distillation technologies. Also contemplated is the use of
activated carbon cartridges in addition to silica gel adsorbants,
desorption and concentration of isoprene from carbon cartridges,
and/or construction and fermentation of host organisms such as E.
coli strains that can convert about 5% or more of the glucose
substrate to isoprene and result in off-gas concentrations of
greater than about 15,000 .mu.g/L isoprene. Recovery methods
include any of the methods described herein.
[0456] Also provided herein are methods of producing a compound,
wherein the compound has one or more characteristics selected from
the group consisting of (a) a Henry's law coefficient of less than
about 250 M/atm and (b) a solubility in water of less than about
100 g/L. In some embodiments, the method comprises: a) culturing
cells under suitable conditions for production of the compound,
wherein gas is added (such as the addition of gas to a system such
as a fermentation system) at a gas sparging rate between about 0.01
vvm to about 2 vvm; and b) producing the compound.
[0457] In some embodiments, the amount of the compound that
partitions into the cell mass is not included in the liquid phase
solubility values. In some embodiments, the liquid phase
concentration is below the solubility limit of compound.
[0458] In some embodiments, the compounds can be continuously
recovered from fermentation broth by gas stripping at moderate to
low gas sparging rates, in particular those compounds with Henry's
law coefficients of about any of less than 250 M/atm, 200 M/atm,
150 M/atm, 100 M/atm, 75 M/atm, 50 M/atm, 25 M/atm, 10 M/atm, 5
M/atm, or 1 M/atm. Examples include aldehydes such as acetaldehyde
(15 M/atm), ketones such as acetone (30 M/atm) or 2-butanone (20
M/atm), or alcohols including methanol (220 M/atm), ethanol (200
M/atm), 1-butanol (120 M/atm) or C5 alcohols including
3-methyl-3-buten-1-ol, and 3-methyl-2-buten-1-ol (50-100 M/atm).
Esters of alcohols generally have lower Henry's constants than the
respective alcohols, for example ethyl acetate (6-9 M/atm) or the
acetyl esters of C5 alcohols (<5 M/atm). Compounds with Henry's
law coefficients of less than 1 M/atm are particularly desirable.
Examples include hemiterpenes, monoterpenes, or sesquiterpenes, in
addition to other hydrocarbons such as C1 to C5 hydrocarbons (e.g.,
methane, ethane, ethylene, or propylene). In some embodiments, the
hydrocarbons such as C1 to C5 hydrocarbons are saturated,
unsaturated, or branched.
[0459] In general, there is a correlation between Henry's law
coefficient and water solubility in that compounds with very low
coefficients are sparingly soluble in water (substantially water
insoluble). Although volatiles with infinite solubilities in water
(e.g. acetone or ethanol) can be removed by gas stripping,
desirable solubility limits are less than about any of 100 g/L, 75
g/L, 50 g/L, 25 g/L, 10 g/L, 5 g/L, or 1 g/L.
[0460] In some embodiments of any of the methods of producing any
of the compounds described above, the gas sparging rate is between
about any of 0.1 vvm to 1 vvm, 0.2 vvm to 1 vvm, or 0.5 vvm to 1
vvm. In some embodiments, the gas sparging rate is about any of 0.1
vvm, 0.25 vvm, 0.5 vvm, 0.75 vvm, 1 vvm, 1.25 vvm, 1.5 vvm, 1.75
vvm, or 2 vvm. In some embodiments, the low sparging rates are
maintained for the entire course of the fermentation run, during
growth phase, or during stationary phase. In some embodiments, the
low sparging rates are maintained for between about any of 1 hour
to 5 hours, 5 hours to 10 hours, 10 hours to 20 hours, 20 hours to
30 hours, 30 hours to 40 hours, 40 hours to 50 hours, or 50 hours
to 60 hours.
[0461] Any of the systems described herein can be used in the
methods of producing a compound described above. Standard methods
would be used to purify such as those described in the section
entitled "Exemplary Purification Methods." Separation can be
performed post-recovery for example, by distillation or selective
adsorption techniques.
Exemplary Production of BioIsoprene
[0462] In some embodiments, the cells are cultured in a culture
medium under conditions permitting the production of isoprene by
the cells.
[0463] By "peak absolute productivity" is meant the maximum
absolute amount of isoprene in the off-gas during the culturing of
cells for a particular period of time (e.g., the culturing of cells
during a particular fermentation run). By "peak absolute
productivity time point" is meant the time point during a
fermentation run when the absolute amount of isoprene in the
off-gas is at a maximum during the culturing of cells for a
particular period of time (e.g., the culturing of cells during a
particular fermentation run). In some embodiments, the isoprene
amount is measured at the peak absolute productivity time point. In
some embodiments, the peak absolute productivity for the cells is
about any of the isoprene amounts disclosed herein.
[0464] By "peak specific productivity" is meant the maximum amount
of isoprene produced per cell during the culturing of cells for a
particular period of time (e.g., the culturing of cells during a
particular fermentation run). By "peak specific productivity time
point" is meant the time point during the culturing of cells for a
particular period of time (e.g., the culturing of cells during a
particular fermentation run) when the amount of isoprene produced
per cell is at a maximum. The peak specific productivity is
determined by dividing the total productivity by the amount of
cells, as determined by optical density at 600 nm (OD.sub.600). In
some embodiments, the isoprene amount is measured at the peak
specific productivity time point. In some embodiments, the peak
specific productivity for the cells is about any of the isoprene
amounts per cell disclosed herein.
[0465] By "peak volumetric productivity" is meant the maximum
amount of isoprene produced per volume of broth (including the
volume of the cells and the cell medium) during the culturing of
cells for a particular period of time (e.g., the culturing of cells
during a particular fermentation run). By "peak specific volumetric
productivity time point" is meant the time point during the
culturing of cells for a particular period of time (e.g., the
culturing of cells during a particular fermentation run) when the
amount of isoprene produced per volume of broth is at a maximum.
The peak specific volumetric productivity is determined by dividing
the total productivity by the volume of broth and amount of time.
In some embodiments, the isoprene amount is measured at the peak
specific volumetric productivity time point. In some embodiments,
the peak specific volumetric productivity for the cells is about
any of the isoprene amounts per volume per time disclosed
herein.
[0466] By "peak concentration" is meant the maximum amount of
isoprene produced during the culturing of cells for a particular
period of time (e.g., the culturing of cells during a particular
fermentation run). By "peak concentration time point" is meant the
time point during the culturing of cells for a particular period of
time (e.g., the culturing of cells during a particular fermentation
run) when the amount of isoprene produced per cell is at a maximum.
In some embodiments, the isoprene amount is measured at the peak
concentration time point. In some embodiments, the peak
concentration for the cells is about any of the isoprene amounts
disclosed herein.
[0467] By "average volumetric productivity" is meant the average
amount of isoprene produced per volume of broth (including the
volume of the cells and the cell medium) during the culturing of
cells for a particular period of time (e.g., the culturing of cells
during a particular fermentation run). The average volumetric
productivity is determined by dividing the total productivity by
the volume of broth and amount of time. In some embodiments, the
average specific volumetric productivity for the cells is about any
of the isoprene amounts per volume per time disclosed herein.
[0468] By "cumulative total productivity" is meant the cumulative,
total amount of isoprene produced during the culturing of cells for
a particular period of time (e.g., the culturing of cells during a
particular fermentation run). In some embodiments, the cumulative,
total amount of isoprene is measured. In some embodiments, the
cumulative total productivity for the cells is about any of the
isoprene amounts disclosed herein.
[0469] As used herein, "relative detector response" refers to the
ratio between the detector response (such as the GC/MS area) for
one compound (such as isoprene) to the detector response (such as
the GC/MS area) of one or more compounds (such as all C5
hydrocarbons). The detector response may be measured as described
herein, such as the GC/MS analysis performed with an Agilent 6890
GC/MS system fitted with an Agilent HP-5MS GC/MS column (30
m.times.250 .mu.m; 0.25 .mu.m film thickness). If desired, the
relative detector response can be converted to a weight percentage
using the response factors for each of the compounds. This response
factor is a measure of how much signal is generated for a given
amount of a particular compound (that is, how sensitive the
detector is to a particular compound). This response factor can be
used as a correction factor to convert the relative detector
response to a weight percentage when the detector has different
sensitivities to the compounds being compared. Alternatively, the
weight percentage can be approximated by assuming that the response
factors are the same for the compounds being compared. Thus, the
weight percentage can be assumed to be approximately the same as
the relative detector response.
[0470] In some embodiments, the cells in culture produce isoprene
at greater than or about 1, 10, 25, 50, 100, 150, 200, 250, 300,
400, 500, 600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000,
2,500, 3,000, 4,000, 5,000, 10,000, 12,500, 20,000, 30,000, 40,000,
50,000, 75,000, 100,000, 125,000, 150,000, 188,000, or more nmole
of isoprene/gram of cells for the wet weight of the cells/hour
(nmole/g.sub.wcm/hr). In some embodiments, the amount of isoprene
is between about 2 to about 200,000 nmole/g.sub.wcm/hr, such as
between about 2 to about 100 nmole/g.sub.wcm/hr, about 100 to about
500 nmole/g.sub.wcm/hr, about 150 to about 500 nmole/g.sub.wcm/hr,
about 500 to about 1,000 nmole/g.sub.wcm/hr, about 1,000 to about
2,000 nmole/g.sub.wcm/hr, or about 2,000 to about 5,000
nmole/g.sub.wcm/hr, about 5,000 to about 10,000 nmole/g.sub.wcm/hr,
about 10,000 to about 50,000 nmole/g.sub.wcm/hr, about 50,000 to
about 100,000 nmole/g.sub.wcm/hr, about 100,000 to about 150,000
nmole/g.sub.wcm/hr, or about 150,000 to about 200,000
nmole/g.sub.wcm/hr. In some embodiments, the amount of isoprene is
between about 20 to about 5,000 nmole/g.sub.wcm/hr, about 100 to
about 5,000 nmole/g.sub.wcm/hr, about 200 to about 2,000
nmole/g.sub.wcm/hr, about 200 to about 1,000 nmole/g.sub.wcm/hr,
about 300 to about 1,000 nmole/g.sub.wcm/hr, or about 400 to about
1,000 nmole/g.sub.wcm/hr, about 1,000 to about 5,000
nmole/g.sub.wcm/hr, about 2,000 to about 20,000 nmole/g.sub.wcm/hr,
about 5,000 to about 50,000 nmole/g.sub.wcm/hr, about 10,000 to
about 100,000 nmole/g.sub.wcm/hr, about 20,000 to about 150,000
nmole/g.sub.wcm/hr, or about 20,000 to about 200,000
nmole/g.sub.wcm/hr.
[0471] The amount of isoprene in units of nmole/g.sub.wcm/hr can be
measured as disclosed in U.S. Pat. No. 5,849,970, which is hereby
incorporated by reference in its entirety, particularly with
respect to the measurement of isoprene production. For example, two
mL of headspace (e.g., headspace from a culture such as 2 mL of
culture cultured in sealed vials at 32.degree. C. with shaking at
200 rpm for approximately 3 hours) are analyzed for isoprene using
a standard gas chromatography system, such as a system operated
isothermally (85.degree. C.) with an n-octane/porasil C column
(Alltech Associates, Inc., Deerfield, Ill.) and coupled to a RGD2
mercuric oxide reduction gas detector (Trace Analytical, Menlo
Park, Calif.) (see, for example, Greenberg et al, Atmos. Environ.
27A: 2689-2692, 1993; Silver et al., Plant Physiol. 97:1588-1591,
1991, which are each hereby incorporated by reference in their
entireties, particularly with respect to the measurement of
isoprene production). The gas chromatography area units are
converted to nmol isoprene via a standard isoprene concentration
calibration curve. In some embodiments, the value for the grams of
cells for the wet weight of the cells is calculated by obtaining
the A.sub.600 value for a sample of the cell culture, and then
converting the A.sub.600 value to grams of cells based on a
calibration curve of wet weights for cell cultures with a known
A.sub.600 value. In some embodiments, the grams of the cells is
estimated by assuming that one liter of broth (including cell
medium and cells) with an A.sub.600 value of 1 has a wet cell
weight of 1 gram. The value is also divided by the number of hours
the culture has been incubating for, such as three hours.
[0472] In some embodiments, the cells in culture produce isoprene
at greater than or about 1, 10, 25, 50, 100, 150, 200, 250, 300,
400, 500, 600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000,
2,500, 3,000, 4,000, 5,000, 10,000, 100,000, or more ng of
isoprene/gram of cells for the wet weight of the cells/hr
(ng/g.sub.wcm/h). In some embodiments, the amount of isoprene is
between about 2 to about 5,000 ng/g.sub.wcm/h, such as between
about 2 to about 100 ng/g.sub.wcm/h, about 100 to about 500
ng/g.sub.wcm/h, about 500 to about 1,000 ng/g.sub.wcm/h, about
1,000 to about 2,000 ng/g.sub.wcm/h, or about 2,000 to about 5,000
ng/g.sub.wcm/h. In some embodiments, the amount of isoprene is
between about 20 to about 5,000 ng/g.sub.wcm/h, about 100 to about
5,000 ng/g.sub.wcm/h, about 200 to about 2,000 ng/g.sub.wcm/h,
about 200 to about 1,000 ng/g.sub.wcm/h, about 300 to about 1,000
ng/g.sub.wcm/h, or about 400 to about 1,000 ng/g.sub.wcm/h. The
amount of isoprene in ng/g.sub.wcm/h can be calculated by
multiplying the value for isoprene production in the units of
nmole/g.sub.wcm/hr discussed above by 68.1 (as described in
Equation 5 below).
[0473] In some embodiments, the cells in culture produce a
cumulative titer (total amount) of isoprene at greater than or
about 1, 10, 25, 50, 100, 150, 200, 250, 300, 400, 500, 600, 700,
800, 900, 1,000, 1,250, 1,500, 1,750, 2,000, 2,500, 3,000, 4,000,
5,000, 10,000, 50,000, 100,000, or more mg of isoprene/L of broth
(mg/L.sub.broth, wherein the volume of broth includes the volume of
the cells and the cell medium). In some embodiments, the amount of
isoprene is between about 2 to about 5,000 mg/L.sub.broth, such as
between about 2 to about 100 mg/L.sub.broth, about 100 to about 500
mg/L.sub.broth, about 500 to about 1,000 mg/L.sub.broth, about
1,000 to about 2,000 mg/L.sub.broth, or about 2,000 to about 5,000
mg/L.sub.broth. In some embodiments, the amount of isoprene is
between about 20 to about 5,000 mg/L.sub.broth, about 100 to about
5,000 mg/L.sub.broth, about 200 to about 2,000 mg/L.sub.broth,
about 200 to about 1,000 mg/L.sub.broth, about 300 to about 1,000
mg/L.sub.broth, or about 400 to about 1,000 mg/L.sub.broth.
[0474] The specific productivity of isoprene in mg of isoprene/L of
headspace from shake flask or similar cultures can be measured by
taking a 1 ml sample from the cell culture at an OD.sub.600 value
of approximately 1.0, putting it in a 20 mL vial, incubating for 30
minutes, and then measuring the amount of isoprene in the headspace
(as described, for example, in Example I, part II). If the
OD.sub.600 value is not 1.0, then the measurement can be normalized
to an OD.sub.600 value of 1.0 by dividing by the OD.sub.600 value.
The value of mg isoprene/L headspace can be converted to
mg/L.sub.broth/hr/OD.sub.600 of culture broth by multiplying by a
factor of 38. The value in units of mg/L.sub.broth/hr/OD.sub.600
can be multiplied by the number of hours and the OD.sub.600 value
to obtain the cumulative titer in units of mg of isoprene/L of
broth.
[0475] In some embodiments, the cells in culture have an average
volumetric productivity of isoprene at greater than or about 0.1,
1.0, 10, 25, 50, 100, 150, 200, 250, 300, 400, 500, 600, 700, 800,
900, 1,000, 1100, 1200, 1300, 1,400, 1,500, 1,600, 1,700, 1,800,
1,900, 2,000, 2,100, 2,200, 2,300, 2,400, 2,500, 2,600, 2,700,
2,800, 2,900, 3,000, 3,100, 3,200, 3,300, 3,400, 3,500, or more mg
of isoprene/L of broth/hr (mg/L.sub.broth/hr, wherein the volume of
broth includes the volume of the cells and the cell medium). In
some embodiments, the average volumetric productivity of isoprene
is between about 0.1 to about 3,500 mg/L.sub.broth/hr, such as
between about 0.1 to about 100 mg/L.sub.broth/hr, about 100 to
about 500 mg/L.sub.broth/hr, about 500 to about 1,000
mg/L.sub.broth/hr, about 1,000 to about 1,500 mg/L.sub.broth/hr,
about 1,500 to about 2,000 mg/L.sub.broth/hr, about 2,000 to about
2,500 mg/L.sub.broth/hr, about 2,500 to about 3,000
mg/L.sub.broth/hr, or about 3,000 to about 3,500 mg/L.sub.broth/hr.
In some embodiments, the average volumetric productivity of
isoprene is between about 10 to about 3,500 mg/L.sub.broth/hr,
about 100 to about 3,500 mg/L.sub.broth/hr, about 200 to about
1,000 mg/L.sub.broth/hr, about 200 to about 1,500
mg/L.sub.broth/hr, about 1,000 to about 3,000 mg/L.sub.broth/hr, or
about 1,500 to about 3,000 mg/L.sub.broth/hr.
[0476] In some embodiments, the cells in culture have a peak
volumetric productivity of isoprene at greater than or about 0.5,
1.0, 10, 25, 50, 100, 150, 200, 250, 300, 400, 500, 600, 700, 800,
900, 1,000, 1100, 1200, 1300, 1,400, 1,500, 1,600, 1,700, 1,800,
1,900, 2,000, 2,100, 2,200, 2,300, 2,400, 2,500, 2,600, 2,700,
2,800, 2,900, 3,000, 3,100, 3,200, 3,300, 3,400, 3,500, 3,750,
4,000, 4,250, 4,500, 4,750, 5,000, 5,250, 5,500, 5,750, 6,000,
6,250, 6,500, 6,750, 7,000, 7,250, 7,500, 7,750, 8,000, 8,250,
8,500, 8,750, 9,000, 9,250, 9,500, 9,750, 10,000, 12,500, 15,000,
or more mg of isoprene/L of broth/hr (mg/L.sub.broth/hr, wherein
the volume of broth includes the volume of the cells and the cell
medium). In some embodiments, the peak volumetric productivity of
isoprene is between about 0.5 to about 15,000 mg/L.sub.broth/hr,
such as between about 0.5 to about 10 mg/L.sub.broth/hr, about 1.0
to about 100 mg/L.sub.broth/hr, about 100 to about 500
mg/L.sub.broth/hr, about 500 to about 1,000 mg/L.sub.broth/hr,
about 1,000 to about 1,500 mg/L.sub.broth/hr, about 1,500 to about
2,000 mg/L.sub.broth/hr, about 2,000 to about 2,500
mg/L.sub.broth/hr, about 2,500 to about 3,000 mg/L.sub.broth/hr,
about 3,000 to about 3,500 mg/L.sub.broth/hr, about 3,500 to about
5,000 mg/L.sub.broth/hr, about 5,000 to about 7,500
mg/L.sub.broth/hr, about 7,500 to about 10,000 mg/L.sub.broth/hr,
about 10,000 to about 12,500 mg/L.sub.broth/h, or about 12,500 to
about 15,000 mg/L.sub.broth/hr. In some embodiments, the peak
volumetric productivity of isoprene is between about 10 to about
15,000 mg/L.sub.broth/hr, about 100 to about 2,500
mg/L.sub.broth/hr, about 1,000 to about 5,000 mg/L.sub.broth/hr,
about 2,500 to about 7,500 mg/L.sub.broth/hr, about 5,000 to about
10,000 mg/L.sub.broth/hr, about 7,500 to about 12,500
mg/L.sub.broth/hr, or about 10,000 to about 15,000
mg/L.sub.broth/hr.
[0477] The instantaneous isoprene production rate in
mg/L.sub.broth/hr in a fermentor can be measured by taking a sample
of the fermentor off-gas, analyzing it for the amount of isoprene
(in units such as mg of isoprene per L.sub.gas) as described, for
example, in Example I, part II and multiplying this value by the
rate at which off-gas is passed though each liter of broth (e.g.,
at 1 vvm (volume of air/volume of broth/minute) this is 60
L.sub.gas per hour). Thus, an off-gas level of 1 mg/L.sub.gas
corresponds to an instantaneous production rate of 60
mg/L.sub.broth/hr at air flow of 1 vvm. If desired, the value in
the units mg/L.sub.broth/hr can be divided by the OD.sub.600 value
to obtain the specific rate in units of mg/L.sub.broth/hr/OD. The
average value of mg isoprene/L.sub.gas can be converted to the
total product productivity (grams of isoprene per liter of
fermentation broth, mg/L.sub.broth) by multiplying this average
off-gas isoprene concentration by the total amount of off-gas
sparged per liter of fermentation broth during the fermentation.
Thus, an average off-gas isoprene concentration of 0.5
mg/L.sub.broth/hr over 10 hours at 1 vvm corresponds to a total
product concentration of 300 mg isoprene/L.sub.broth.
[0478] In some embodiments, the cells in culture convert greater
than or about 0.0015, 0.002, 0.005, 0.01, 0.02, 0.05, 0.1, 0.12,
0.14, 0.16, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1.0, 1.2, 1.4,
1.6, 1.8, 2.0, 2.2, 2.4, 2.6, 3.0, 4.0, 5.0, 6.0, 7.0, 8.0, 9.0,
10.0, 11.0, 12.0, 13.0, 14.0, 15.0, 16.0, 17.0, 18.0, 19.0, 20.0,
21.0, 22.0, 23.0, 23.2, 23.4, 23.6, 23.8, 24.0, 25.0, 30.0, 31.0,
32.0, 33.0, 35.0, 37.5, 40.0, 45.0, 47.5, 50.0, 55.0, 60.0, 65.0,
70.0, 75.0, 80.0, 85.0, or 90.0 molar % of the carbon in the cell
culture medium into isoprene. In some embodiments, the percent
conversion of carbon into isoprene is between about 0.002 to about
90.0 molar %, such as about 0.002 to about 0.005%, about 0.005 to
about 0.01%, about 0.01 to about 0.05%, about 0.05 to about 0.15%,
0.15 to about 0.2%, about 0.2 to about 0.3%, about 0.3 to about
0.5%, about 0.5 to about 0.8%, about 0.8 to about 1.0%, about 1.0
to about 1.6%, about 1.6 to about 3.0%, about 3.0 to about 5.0%,
about 5.0 to about 8.0%, about 8.0 to about 10.0%, about 10.0 to
about 15.0%, about 15.0 to about 20.0%, about 20.0 to about 25.0%,
about 25.0% to 30.0%, about 30.0% to 35.0%, about 35.0% to 40.0%,
about 45.0% to 50.0%, about 50.0% to 55.0%, about 55.0% to 60.0%,
about 60.0% to 65.0%, about 65.0% to 70.0%, about 75.0% to 80.0%,
about 80.0% to 85.0%, or about 85.0% to 90.0%. In some embodiments,
the percent conversion of carbon into isoprene is between about
0.002 to about 0.4 molar %, 0.002 to about 0.16 molar %, 0.04 to
about 0.16 molar %, about 0.005 to about 0.3 molar %, about 0.01 to
about 0.3 molar %, about 0.05 to about 0.3 molar %, about 0.1 to
0.3 molar %, about 0.3 to about 1.0 molar %, about 1.0 to about 5.0
molar %, about 2 to about 5.0 molar %, about 5.0 to about 10.0
molar %, about 7 to about 10.0 molar %, about 10.0 to about 20.0
molar %, about 12 to about 20.0 molar %, about 16 to about 20.0
molar %, about 18 to about 20.0 molar %, about 18 to 23.2 molar %,
about 18 to 23.6 molar %, about 18 to about 23.8 molar %, about 18
to about 24.0 molar %, about 18 to about 25.0 molar %, about 20 to
about 30.0 molar %, about 30 to about 40.0 molar %, about 30 to
about 50.0 molar %, about 30 to about 60.0 molar %, about 30 to
about 70.0 molar %, about 30 to about 80.0 molar %, or about 30 to
about 90.0 molar %.
[0479] The percent conversion of carbon into isoprene (also
referred to as "% carbon yield") can be measured by dividing the
moles carbon in the isoprene produced by the moles carbon in the
carbon source (such as the moles of carbon in batched and fed
glucose and yeast extract). This number is multiplied by 100% to
give a percentage value (as indicated in Equation 1).
% Carbon Yield=(moles carbon in isoprene produced)/(moles carbon in
carbon source)*100 Equation 1
[0480] For this calculation, yeast extract can be assumed to
contain 50% w/w carbon. As an example, for the 500 liter described
in Example 7, part VIII, the percent conversion of carbon into
isoprene can be calculated as shown in Equation 2.
% Carbon Yield=(39.1 g isoprene*1/68.1 mol/g*5 C/mol)/[(181221 g
glucose*1/180 mol/g*6 C/mol)+(17780 g yeast extract*0.5*1/12
mol/g)]*100=0.042% Equation 2
[0481] For the two 500 liter fermentations described herein
(Example 7, parts VII and VIII), the percent conversion of carbon
into isoprene was between 0.04-0.06%. A 0.11-0.16% carbon yield has
been achieved using 14 liter systems as described herein. Example
11, part V describes the 1.53% conversion of carbon to isoprene
using the methods described herein.
[0482] One skilled in the art can readily convert the rates of
isoprene production or amount of isoprene produced into any other
units. Exemplary equations are listed below for interconverting
between units.
Units for Rate of Isoprene Production (Total and Specific)
[0483] 1 g isoprene/L.sub.broth/hr=14.7 mmol
isoprene/L.sub.broth/hr(total volumetric rate) Equation 3
1 nmol isoprene/g.sub.wcm/hr=1 nmol
isoprene/L.sub.broth/hr/OD.sub.600(This conversion assumes that one
liter of broth with an OD.sub.600 value of 1 has a wet cell weight
of 1 gram.) Equation 4
1 nmol isoprene/g.sub.wcm/hr=68.1 ng isoprene/g.sub.wcm/hr(given
the molecular weight of isoprene) Equation 5
1 nmol isoprene/L.sub.gas O.sub.2/hr=90 nmol
isoprene/L.sub.broth/hr(at an O.sub.2 flow rate of 90 L/hr per L of
culture broth) Equation 6
1 .mu.g isoprene/L.sub.gas isoprene in off-gas=60 .mu.g
isoprene/L.sub.broth/hr at a flow rate of 60 L.sub.gas per
L.sub.broth(1 vvm) Equation 7
Units for Titer (Total and Specific)
[0484] 1 nmol isoprene/mg cell protein=150 nmol
isoprene/L.sub.broth/OD.sub.600(This conversion assumes that one
liter of broth with an OD.sub.600 value of 1 has a total cell
protein of approximately 150 mg) (specific productivity) Equation
8
1 g isoprene/L.sub.broth=14.7 mmol isoprene/L.sub.broth(total
titer) Equation 9
[0485] If desired, Equation 10 can be used to convert any of the
units that include the wet weight of the cells into the
corresponding units that include the dry weight of the cells.
Dry weight of cells=(wet weight of cells)/3.3 Equation 10
[0486] If desired, Equation 11 can be used to convert between units
of ppm and .mu.g/L. In particular, "ppm" means parts per million
defined in terms of .mu.g/g (w/w). Concentrations of gases can also
be expressed on a volumetric basis using "ppmv" (parts per million
by volume), defined in terms of .mu.L/L (vol/vol). Conversion of
.mu.g/L to ppm (e.g., .mu.g of analyte per g of gas) can be
performed by determining the mass per L of off-gas (i.e., the
density of the gas). For example, a liter of air at standard
temperature and pressure (STP; 101.3 kPa (1 bar) and 273.15K). has
a density of approximately 1.29 g/L. Thus, a concentration of 1 ppm
(.mu.g/g) equals 1.29 .mu.g/L at STP (equation 11). The conversion
of ppm (.mu.g/g) to .mu.g/L is a function of both pressure,
temperature, and overall composition of the off-gas.
1 ppm(.mu.g/g)equals 1.29 .mu.g/L at standard temperature and
pressure(STP; 101.3 kPa(1 bar) and 273.15K). Equation 11
[0487] Conversion of .mu.g/L to ppmv (e.g., .mu.L of analyte per L
of gas) can be performed using the Universal Gas Law (equation 12).
For example, an off-gas concentration of 1000 .mu.g/L.sub.gas
corresponds to 14.7 .mu.mol/L.sub.gas. The universal gas constant
is 0.082057 L.atm K.sup.-1 mol.sup.-1, so using equation 12, the
volume occupied by 14.7 .mu.mol of HG at STP is equal to 0.329 mL.
Therefore, the concentration of 1000 .mu.g/L HG is equal to 329
ppmv or 0.0329% (v/v) at STP.
PV=nRT, where "P" is pressure, "V" is volume, "n" is moles of gas,
"R" is the Universal gas constant, and "T" is temperature in
Kelvin. Equation 12
[0488] The amount of impurities in isoprene compositions are
typically measured herein on a weight per volume (w/v) basis in
units such as .mu.g/L. If desired, measurements in units of .mu.g/L
can be converted to units of mg/m.sup.3 using equation 13.
1 .mu.g/L=1 mg/m.sup.3 Equation 13
[0489] In some embodiments described herein, a cell comprising a
heterologous nucleic acid encoding an isoprene synthase polypeptide
produces an amount of isoprene that is at least or about 2-fold,
3-fold, 5-fold, 10-fold, 25-fold, 50-fold, 100-fold, 150-fold,
200-fold, 400-fold, or greater than the amount of isoprene produced
from a corresponding cell grown under essentially the same
conditions without the heterologous nucleic acid encoding the
isoprene synthase polypeptide.
[0490] In some embodiments described herein, a cell comprising a
heterologous nucleic acid encoding an isoprene synthase polypeptide
and one or more heterologous nucleic acids encoding a DXS, IDI,
and/or MVA pathway polypeptide produces an amount of isoprene that
is at least or about 2-fold, 3-fold, 5-fold, 10-fold, 25-fold,
50-fold, 100-fold, 150-fold, 200-fold, 400-fold, or greater than
the amount of isoprene produced from a corresponding cell grown
under essentially the same conditions without the heterologous
nucleic acids.
[0491] In some embodiments, the isoprene composition comprises
greater than or about 99.90, 99.92, 99.94, 99.96, 99.98, or 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the composition. In some embodiments, the
composition has a relative detector response of greater than or
about 99.90, 99.91, 99.92, 99.93, 99.94, 99.95, 99.96, 99.97,
99.98, 99.99, or 100% for isoprene compared to the detector
response for all C5 hydrocarbons in the composition. In some
embodiments, the isoprene composition comprises between about 99.90
to about 99.92, about 99.92 to about 99.94, about 99.94 to about
99.96, about 99.96 to about 99.98, about 99.98 to 100% isoprene by
weight compared to the total weight of all C5 hydrocarbons in the
composition.
[0492] In some embodiments, the isoprene composition comprises less
than or about 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005,
0.001, 0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other
than isoprene (such as 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the composition. In
some embodiments, the composition has a relative detector response
of less than or about 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01,
0.005, 0.001, 0.0005, 0.0001, 0.00005, or 0.00001% for C5
hydrocarbons other than isoprene compared to the detector response
for all C5 hydrocarbons in the composition. In some embodiments,
the composition has a relative detector response of less than or
about 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001,
0.0005, 0.0001, 0.00005, or 0.00001% for 1,3-cyclopentadiene,
cis-1,3-pentadiene, trans-1,3-pentadiene, 1,4-pentadiene,
1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne compared to the detector response for all C5
hydrocarbons in the composition. In some embodiments, the isoprene
composition comprises between about 0.02 to about 0.04%, about 0.04
to about 0.06%, about 0.06 to 0.08%, about 0.08 to 0.10%, or about
0.10 to about 0.12% C5 hydrocarbons other than isoprene (such as
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne) by weight compared to the total weight of all
C5 hydrocarbons in the composition.
[0493] In some embodiments, the isoprene composition comprises less
than or about 50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or
0.005 .mu.g/L of a compound that inhibits the polymerization of
isoprene for any compound in the composition that inhibits the
polymerization of isoprene. In some embodiments, the isoprene
composition comprises between about 0.005 to about 50, such as
about 0.01 to about 10, about 0.01 to about 5, about 0.01 to about
1, about 0.01 to about 0.5, or about 0.01 to about 0.005 .mu.g/L of
a compound that inhibits the polymerization of isoprene for any
compound in the composition that inhibits the polymerization of
isoprene. In some embodiments, the isoprene composition comprises
less than or about 50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01,
or 0.005 .mu.g/L of a hydrocarbon other than isoprene (such as
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne). In some embodiments, the isoprene
composition comprises between about 0.005 to about 50, such as
about 0.01 to about 10, about 0.01 to about 5, about 0.01 to about
1, about 0.01 to about 0.5, or about 0.01 to about 0.005 .mu.g/L of
a hydrocarbon other than isoprene. In some embodiments, the
isoprene composition comprises less than or about 50, 40, 30, 20,
10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005 .mu.g/L of a protein or
fatty acid (such as a protein or fatty acid that is naturally
associated with natural rubber).
[0494] In some embodiments, the isoprene composition comprises less
than or about 10, 5, 1, 0.8, 0.5, 0.1, 0.05, 0.01, or 0.005 ppm of
alpha acetylenes, piperylenes, acetonitrile, or
1,3-cyclopentadiene. In some embodiments, the isoprene composition
comprises less than or about 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005
ppm of sulfur or allenes. In some embodiments, the isoprene
composition comprises less than or about 30, 20, 15, 10, 5, 1, 0.5,
0.1, 0.05, 0.01, or 0.005 ppm of all acetylenes (such as 1-pentyne,
2-pentyne, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, and cis-pent-3-ene-1-yne). In some
embodiments, the isoprene composition comprises less than or about
2000, 1000, 500, 200, 100, 50, 40, 30, 20, 10, 5, 1, 0.5, 0.1,
0.05, 0.01, or 0.005 ppm of isoprene dimers, such as cyclic
isoprene dimmers (e.g., cyclic C10 compounds derived from the
dimerization of two isoprene units).
[0495] In some embodiments, the isoprene composition includes
ethanol, acetone, a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or more
of the foregoing. In particular embodiments, the isoprene
composition comprises greater than or about 0.005, 0.01, 0.05, 0.1,
0.5, 1, 5, 10, 20, 30, 40, 60, 80, 100, or 120 .mu.g/L of ethanol,
acetone, a C5 prenyl alcohol (such as 3-methyl-3-buten-1-ol or
3-methyl-2-buten-1-ol), or any two or more of the foregoing. In
some embodiments, the isoprene composition comprises between about
0.005 to about 120, such as about 0.01 to about 80, about 0.01 to
about 60, about 0.01 to about 40, about 0.01 to about 30, about
0.01 to about 20, about 0.01 to about 10, about 0.1 to about 80,
about 0.1 to about 60, about 0.1 to about 40, about 5 to about 80,
about 5 to about 60, or about 5 to about 40 .mu.g/L of ethanol,
acetone, a C5 prenyl alcohol, or any two or more of the
foregoing.
[0496] In some embodiments, the isoprene composition includes one
or more of the following components: 2-heptanone,
6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, 2,3-cycloheptenolpyridine, or a
linear isoprene polymer (such as a linear isoprene dimer or a
linear isoprene trimer derived from the polymerization of multiple
isoprene units). In various embodiments, the amount of one of these
components relative to amount of isoprene in units of percentage by
weight (i.e., weight of the component divided by the weight of
isoprene times 100) is greater than or about 0.01, 0.02, 0.05, 0.1,
0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or 110% (w/w).
In some embodiments, the relative detector response for the second
compound compared to the detector response for isoprene is greater
than or about 0.01, 0.02, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 50,
60, 70, 80, 90, 100, or 110%. In various embodiments, the amount of
one of these components relative to amount of isoprene in units of
percentage by weight (i.e., weight of the component divided by the
weight of isoprene times 100) is between about 0.01 to about 105%
(w/w), such as about 0.01 to about 90, about 0.01 to about 80,
about 0.01 to about 50, about 0.01 to about 20, about 0.01 to about
10, about 0.02 to about 50, about 0.05 to about 50, about 0.1 to
about 50, or 0.1 to about 20% (w/w).
[0497] In some embodiments, the isoprene composition includes one
or more of the following: an alcohol, an aldehyde, or a ketone
(such as any of the alcohols, aldehydes, or ketones described
herein). In some embodiments, the isoprene composition includes (i)
an alcohol and an aldehyde, (ii) an alcohol and a ketone, (iii) an
aldehyde and a ketone, or (iv) an alcohol, an aldehyde, and a
ketone.
[0498] In some embodiments, the isoprene composition contains one
or more of the following: methanol, acetaldehyde, ethanol,
methanethiol, 1-butanol, 3-methyl-1-propanol, acetone, acetic acid,
2-butanone, 2-methyl-1-butanol, or indole. In some embodiments, the
isoprene composition contains 1 ppm or more of one or more of the
following: methanol, acetaldehyde, ethanol, methanethiol,
1-butanol, 3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole. In some embodiments, the
concentration of more of one or more of the following: methanol,
acetaldehyde, ethanol, methanethiol, 1-butanol,
3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole, is between about 1 to about 10,000
ppm in an isoprene composition (such as off-gas before it is
purified). In some embodiments, the isoprene composition (such as
off-gas after it has undergone one or more purification steps)
includes one or more of the following: methanol, acetaldehyde,
ethanol, methanethiol, 1-butanol, 3-methyl-1-propanol, acetone,
acetic acid, 2-butanone, 2-methyl-1-butanol, or indole, at a
concentration between about 1 to about 100 ppm, such as about 1 to
about 10 ppm, about 10 to about 20 ppm, about 20 to about 30 ppm,
about 30 to about 40 ppm, about 40 to about 50 ppm, about 50 to
about 60 ppm, about 60 to about 70 ppm, about 70 to about 80 ppm,
about 80 to about 90 ppm, or about 90 to about 100 ppm. Volatile
organic compounds from cell cultures (such as volatile organic
compounds in the headspace of cell cultures) can be analyzed using
standard methods such as those described herein or other standard
methods such as proton transfer reaction-mass spectrometry (see,
for example, Bunge et al., Applied and Environmental Microbiology,
74(7):2179-2186, 2008 which is hereby incorporated by reference in
its entirety, particular with respect to the analysis of volatile
organic compounds).
[0499] In some embodiments, the composition comprises greater than
about 2 mg of isoprene, such as greater than or about 5, 10, 20,
30, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400, 500, 600, 700, 800,
900, or 1000 mg of isoprene. In some embodiments, the composition
comprises greater than or about 2, 5, 10, 20, 30, 40, 50, 60, 70,
80, 90, 100 g of isoprene. In some embodiments, the amount of
isoprene in the composition is between about 2 to about 5,000 mg,
such as between about 2 to about 100 mg, about 100 to about 500 mg,
about 500 to about 1,000 mg, about 1,000 to about 2,000 mg, or
about 2,000 to about 5,000 mg. In some embodiments, the amount of
isoprene in the composition is between about 20 to about 5,000 mg,
about 100 to about 5,000 mg, about 200 to about 2,000 mg, about 200
to about 1,000 mg, about 300 to about 1,000 mg, or about 400 to
about 1,000 mg. In some embodiments, greater than or about 20, 25,
30, 40, 50, 60, 70, 80, 90, or 95% by weight of the volatile
organic fraction of the composition is isoprene.
[0500] In some embodiments, the composition includes ethanol. In
some embodiments, the composition includes between about 75 to
about 90% by weight of ethanol, such as between about 75 to about
80%, about 80 to about 85%, or about 85 to about 90% by weight of
ethanol. In some embodiments in which the composition includes
ethanol, the composition also includes between about 4 to about 15%
by weight of isoprene, such as between about 4 to about 8%, about 8
to about 12%, or about 12 to about 15% by weight of isoprene.
[0501] In some embodiments described herein, a cell comprising one
or more heterologous nucleic acids encoding an isoprene synthase
polypeptide, DXS polypeptide, IDI polypeptide, and/or MVA pathway
polypeptide produces an amount of an isoprenoid compound (such as a
compound with 10 or more carbon atoms that is formed from the
reaction of one or more IPP molecules with one or more DMAPP
molecules) that is greater than or about 2-fold, 3-fold, 5-fold,
10-fold, 25-fold, 50-fold, 100-fold, 150-fold, 200-fold, 400-fold,
or greater than the amount of the isoprenoid compound produced from
a corresponding cell grown under essentially the same conditions
without the one or more heterologous nucleic acids. In some
embodiments described herein, a cell comprising one or more
heterologous nucleic acids encoding an isoprene synthase
polypeptide, DXS polypeptide, IDI polypeptide, and/or MVA pathway
polypeptide produces an amount of a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol) that is greater
than or about 2-fold, 3-fold, 5-fold, 10-fold, 25-fold, 50-fold,
100-fold, 150-fold, 200-fold, 400-fold, or greater than the amount
of the C5 prenyl alcohol produced from a corresponding cell grown
under essentially the same conditions without the one or more
heterologous nucleic acids.
Exemplary Co-Production of BioIsoprene and Hydrogen
[0502] In some embodiments, any of the isoprene-producing cells
described herein that comprise one or more heterologous nucleic
acids encoding an isoprene synthase polypeptide, a DXS polypeptide,
an IDI polypeptide, and/or an MVA pathway polypeptide operably
linked to a promoter further comprise a heterologous nucleic acid
also operably linked to a promoter encoding one or more hydrogenase
polypeptides or one or more polypeptides involved in the regulation
or expression of hydrogenase polypeptides (e.g., hydrogenase
maturation proteins or transcription factors). In some embodiments,
any of the isoprene-producing cells described herein that comprise
one or more heterologous nucleic acids encoding an isoprene
synthase polypeptide, a DXS polypeptide, an IDI polypeptide, an MVA
pathway polypeptide, one or more hydrogenase polypeptides or one or
more polypeptides involved in the regulation or expression of
hydrogenase polypeptides operably linked to a promoter further
comprise a mutation or deletion inactivating one or more
polypeptides involved in the production of fermentation side
products, one or more polypeptides involved in the regulation or
expression of genes for the production of fermentation side
products, or one or more polypeptides involved in hydrogen
reuptake. Such cells can co-produce isoprene and hydrogen.
[0503] In some embodiments of any of the aspects described herein,
the cells are bacterial cells, such as gram-positive bacterial
cells (e.g., Bacillus cells such as Bacillus subtilis cells or
Streptomyces cells such as Streptomyces lividans, Streptomyces
coelicolor, or Streptomyces griseus cells). In some embodiments of
any of the aspects described herein, the cells are gram-negative
bacterial cells (e.g., Escherichia cells such as Escherichia coli
cells, Rhodopseudomonas sp. such as Rhodopseudomonas palustris
cells, Pseudomonas sp. such as Pseudomonas fluorescens cells or
Pseudomonas putida cells, or Pantoea cells such as Pantoea citrea
cells). In some embodiments of any of the aspects described herein,
the cells are fungal, cells such as filamentous fungal cells (e.g.,
Trichoderma cells such as Trichoderma reesei cells or Aspergillus
cells such as Aspergillus oryzae and Aspergillus niger) or yeast
cells (e.g., Yarrowia cells such as Yarrowia lipolytica cells or
Sacchraomyces cells such as Saccaromyces cerevisiae).
[0504] In some embodiments of any of the aspects described herein,
the isoprene synthase polypeptide is a polypeptide from a plant
such as Pueraria (e.g., Pueraria montana or Pueraria lobata) or
Populus (e.g., Populus tremuloides, Populus alba, Populus nigra,
Populus trichocarpa, or the hybrid, Populus alba.times.Populus
tremula).
[0505] In some embodiments of any of the aspects described herein,
the cells further comprise a heterologous nucleic acid encoding an
IDI polypeptide. In some embodiments of any of the aspects
described herein, the cells further comprise an insertion of a copy
of an endogenous nucleic acid encoding an IDI polypeptide. In some
embodiments of any of the aspects described herein, the cells
further comprise a heterologous nucleic acid encoding a DXS
polypeptide. In some embodiments of any of the aspects described
herein, the cells further comprise an insertion of a copy of an
endogenous nucleic acid encoding a DXS polypeptide. In some
embodiments of any of the aspects described herein, the cells
further comprise one or more nucleic acids encoding an IDI
polypeptide and a DXS polypeptide. In some embodiments of any of
the aspects described herein, one nucleic acid encodes the isoprene
synthase polypeptide, IDI polypeptide, and DXS polypeptide. In some
embodiments of any of the aspects described herein, one vector
encodes the isoprene synthase polypeptide, IDI polypeptide, and DXS
polypeptide. In some embodiments, the vector comprises a selective
marker or a selectable marker, such as an antibiotic resistance
nucleic acid.
[0506] In some embodiments of any of the aspects described herein,
the cells further comprise a heterologous nucleic acid encoding an
MVA pathway polypeptide (such as an MVA pathway polypeptide from
Saccharomyces cerevisia or Enterococcus faecalis). In some
embodiments of any of the aspects described herein, the cells
further comprise an insertion of a copy of an endogenous nucleic
acid encoding an MVA pathway polypeptide (such as an MVA pathway
polypeptide from Saccharomyces cerevisia or Enterococcus faecalis).
In some embodiments of any of the aspects described herein, the
cells comprise an isoprene synthase, DXS, and MVA pathway nucleic
acid. In some embodiments of any of the aspects described herein,
the cells comprise an isoprene synthase nucleic acid, a DXS nucleic
acid, an IDI nucleic acid, and a MVA pathway nucleic acid.
[0507] In some embodiments, the isoprene-producing cells described
herein further comprise a heterologous nucleic acid encoding a
hydrogenase polypeptide operably linked to a promoter. In some
embodiments, the hydrogenase polypeptide comprises E. coli
hydrogenase-1 (Hyd-1), E. coli hydrogenase-2 (Hyd-2), E. coli
hydrogenase-3 (Hyd-3), E. coli hydrogenase-4 (Hyd-4), E. coli
formate hydrogen lyase (FHL) complex, which produces hydrogen gas
from formate and CO.sub.2 under anaerobic conditions at acidic pH,
Rhodococcus opacus MR11 hydrogenase (R. opacus HoxH), Synechosystis
sp. PCC 6803 hydrogenase (Syn. PCC 6803 HoxH), Desulfovibrio gigas
hydrogenase (D. gigas), and Desulfovibrio desulfuricans ATCC 7757
hydrogenase (D. desulfuricans). In some embodiments, the
isoprene-producing cells further comprising a heterologous nucleic
acid encoding a hydrogenase polypeptide operably linked to a
promoter further comprise E. coli hydrogenase-3 (Hyd-3), E. coli
pyruvate formate lyase (pfl), and E. coli formate hydrogen lyase
(FHL) complex.
[0508] In some embodiments, the hydrogenase polypeptide encodes a
ferredoxin-dependent hydrogenase polypeptide. In some embodiments,
the ferredoxin-dependent hydrogenase polypeptide comprises
Clostridium acetobutulicum hydrogenase A (HydA), which can be
expressed in conjunction with one or more of: (1) Bacillus subtilis
NADPH ferredoxin oxidoreductase (NFOR) or Clostridium kluyveri NADH
ferredoxin oxidoreductase (RnfCDGEAB), Clostridium pasteuranium
ferredoxin oxidoreductase (Fdx); (2) glyceraldehyde-6-phosphate
ferredoxin oxidoreductase (GAPOR); or (3) pyruvate ferredoxin
oxidoreductase (POR). In some embodiments, the ferredoxin-dependent
hydrogenase polypeptide Clostridium acetobutulicum hydrogenase A
(HydA) is expressed with three HydA-associated maturation enzymes
(HydE, HydG, and HydF), and further in conjunction with one or more
of: (1) Bacillus subtilis NADPH ferredoxin oxidoreductase (NFOR) or
Clostridium kluyveri NADH ferredoxin oxidoreductase (RnfCDGEAB),
Clostridium pasteuranium ferredoxin oxidoreductase (Fdx); (2)
glyceraldehyde-6-phosphate ferredoxin oxidoreductase (GAPOR); or
(3) pyruvate ferredoxin oxidoreductase (POR).
[0509] In some embodiments, the hydrogenase polypeptide encodes an
NADPH-dependent hydrogenase polypeptide. In some embodiments, the
NADPH-dependent hydrogenase polypeptide comprises Pyrococcus
furiosus hydrogenase. In some embodiments, the hydrogenase
polypeptide encodes an oxygen-tolerant hydrogenase. In some
embodiments, the oxygen-tolerant hydrogenase comprises Rubrivivax
gelatinosus hydrogenase, and Ralstonia eutropha hydrogenase.
[0510] In some embodiments, the isoprene-producing cells described
herein further comprise a mutation or deletion inactivating a gene
involved in regulation of hydrogenase activity, such as iron-sulfur
complex transcriptional regulator (iscR) (Kalim-Akhtar et al.,
"Deletion of iscR stimulates recombinant Clostridial Fe/Fe
hydrogenase activity and H.sub.2-accumulation in Escherichia coli
BL21(DE3)," Appl. Microbiol. Biotechnol. 78:853-862 (2008), which
is incorporated herein by reference in its entirety, particularly
with reference to stimulation of Clostridial Fe/Fe hydrogenase
activity and hydrogen accumulation in E. coli by deleting the iscR
gene).
[0511] In some embodiments, the isoprene-producing cells described
herein further comprise a mutation or deletion inactivating a gene
encoding one or more cellular polypeptides involved in production
of fermentation side products, such as lactate, acetate, pyruvate,
ethanol, succinate, and glycerol. In some embodiments, the
inactivated polypeptides involved in production of fermentation
side products comprise one or more polypeptides encoding formate
dehydrogenase N, alpha subunit (fdnG), formate dehydrogenase O,
large subunit (fdoG), nitrate reductase (narG), formate transporter
A (focA), formate transporter B (focB), pyruvate oxidase (poxB),
pyruvate dehydrogenase E1 component ackA/pta (aceE), alcohol
dehydrogenase (adhE), fumarate reductase membrane protein (frdC),
or lactate dehydrogenase (ldhA).
[0512] In some embodiments, the isoprene-producing cells described
herein further comprise a mutation or deletion inactivating a gene
encoding one or more cellular polypeptides involved in the
regulation or expression of genes involved in production of
fermentation side products. In some embodiments, the inactivated
polypeptides involved in the regulation or expression of genes
involved in production of fermentation side products comprise
repressor of formate hydrogen lyase (hycA), fumarate reductase
regulator (fnr), acetyl-coenzyme A synthetase (acs), and formate
dehydrogenase regulatory protein (hycA).
[0513] In some embodiments, the isoprene-producing cells described
herein further comprise a mutation or deletion inactivating a gene
encoding one or more cellular polypeptides involved in hydrogen
re-uptake. In some embodiments, the inactivated polypeptides
involved in hydrogen re-uptake comprise E. coli hydrogenase-1
(Hyd-1) (hya operon) and E. coli hydrogenase-2 (Hyd-2) (hyb
operon).
[0514] In some embodiments of any of the aspects described herein,
the heterologous isoprene synthase, DXS polypeptide, IDI
polypeptide, MVA pathway, hydrogenase, hydrogenase maturation or
transcription factor polypeptide or nucleic acid is operably linked
to a T7 promoter, such as a T7 promoter contained in a medium or
high copy plasmid. In some embodiments of any of the aspects
described herein, the heterologous isoprene synthase, DXS
polypeptide, IDI polypeptide, MVA pathway, hydrogenase, hydrogenase
maturation or transcription factor nucleic acid is operably linked
to a Trc promoter, such as a Trc promoter contained in a medium or
high copy plasmid. In some embodiments of any of the aspects
described herein, the heterologous isoprene synthase, DXS
polypeptide, IDI polypeptide, MVA pathway, hydrogenase, hydrogenase
maturation or transcription factor nucleic acid is operably linked
to a Lac promoter, such as a Lac promoter contained in a low copy
plasmid. In some embodiments of any of the aspects described
herein, the heterologous isoprene synthase, DXS polypeptide, IDI
polypeptide, MVA pathway, hydrogenase, hydrogenase maturation or
transcription factor nucleic acid is operably linked to an
endogenous promoter, such as an endogenous alkaline serine protease
promoter. In some embodiments, the heterologous isoprene synthase,
DXS polypeptide, IDI polypeptide, MVA pathway, hydrogenase,
hydrogenase maturation or transcription factor nucleic acid
integrates into a chromosome of the cells without a selective
marker or without a selectable marker.
[0515] In some embodiments, one or more MVA pathway, IDI, DXS,
isoprene synthase, hydrogenase, hydrogenase maturation or
transcription factor nucleic acids are placed under the control of
a promoter or factor that is more active in stationary phase than
in the growth phase. For example, one or more MVA pathway, IDI,
DXS, isoprene synthase, hydrogenase, hydrogenase maturation or
transcription factor nucleic acids may be placed under control of a
stationary phase sigma factor, such as RpoS. In some embodiments,
one or more MVA pathway, IDI, DXS, isoprene synthase, hydrogenase,
hydrogenase maturation or transcription factor nucleic acids are
placed under control of a promoter inducible in stationary phase,
such as a promoter inducible by a response regulator active in
stationary phase.
[0516] In some embodiments of any of the aspects described herein,
at least a portion of the cells maintain the heterologous isoprene
synthase, DXS polypeptide, IDI polypeptide, MVA pathway,
hydrogenase, hydrogenase maturation or transcription factor nucleic
acid for at least or about 5, 10, 20, 40, 50, 60, 65, or more cell
divisions in a continuous culture (such as a continuous culture
without dilution). In some embodiments of any of the aspects
described herein, the nucleic acid comprising the isoprene
synthase, DXS polypeptide, IDI polypeptide, MVA pathway,
hydrogenase, hydrogenase maturation or transcription factor nucleic
acid also comprises a selective marker or a selectable marker, such
as an antibiotic resistance nucleic acid.
[0517] In some embodiments of any of the aspects described herein,
cells that co-produce isoprene and hydrogen are cultured in any of
the culture media described herein, under oxygen-limited conditions
to facilitate the co-production of isoprene and hydrogen by the
cells. In some embodiments, the cells are grown in oxygen-limited
culture. In some embodiments, the cells are grown in the presence
of 0.5 moles of oxygen per mole of isoprene. In some embodiments,
the cells are grown anaerobically, in the absence of oxygen.
[0518] In some embodiments, any of the cells described herein are
grown in oxygen-limited culture and co-produce isoprene and
hydrogen. In some embodiments, the cells in oxygen-limited culture
produce isoprene at a rate greater than about 400
nmole/g.sub.wcm/hr, and produce hydrogen at a rate greater than
about 125 nmole/g.sub.wcm/hr. In some embodiments, the cells in
oxygen-limited culture produce isoprene at a rate between about 400
nmole/g.sub.wcm/hr to about 2.0.times.10.sup.5 nmole/g.sub.wcm/hr
and hydrogen at a rate between about 125 nmole/g.sub.wcm/hr to
about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr. In some embodiments,
the cells in oxygen-limited culture produce isoprene at a rate
between about 400 nmole/g.sub.wcm/hr and about 2.0.times.10.sup.5
nmole/g.sub.wcm/hr, between about 500 nmole/g.sub.wcm/hr and about
1.5.times.10.sup.5 nmole/g.sub.wcm/hr, between about 750
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 1000 nmole/g.sub.wcm/hr and about 1.times.10.sup.5
nmole/g.sub.wcm/hr, between about 2500 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, between about 5000
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 7500 nmole/g.sub.wcm/hr and about 1.times.10.sup.5
nmole/g.sub.wcm/hr, and between about 1.times.10.sup.4
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr.
In some embodiments, the cells in oxygen-limited culture produce
greater than about 400, 500, 600, 700, 800, 900, 1,000, 1,250,
1,500, 1,750, 2,000, 2,500, 3,000, 4,000, 5,000, or more
nmole/g.sub.wcm/hr isoprene. In some embodiments, the cells in
oxygen-limited culture produce hydrogen at a rate between about 125
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 250 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 500 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 750
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 1000 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 1250 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 2500
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 5000 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 7500 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, and between about
1.00.times.10.sup.4 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr. In some embodiments, the cells in
oxygen-limited culture produce greater than about 125, 250, 500,
750, 1000, 1,250, 1,500, 1,750, 2,000, 2,500, 3,000, 4,000, 5,000,
7,500, 10,000, or more nmole/g.sub.wcm/hr hydrogen.
[0519] In some embodiments, any of the cells described herein are
grown in oxygen-limited culture and co-produce isoprene and
hydrogen. In some embodiments, the cells in oxygen-limited culture
have an average volumetric productivity of isoprene greater than
about 0.1 mg/L.sub.broth/hr and an average volumetric productivity
of hydrogen greater than about 0.005 mg/L.sub.broth/hr. In some
embodiments, the cells in oxygen-limited culture have a peak
volumetric productivity of isoprene greater than about 1000
mg/L.sub.broth/hr and a peak volumetric productivity of hydrogen
greater than about 5 mg/L.sub.broth/hr. In some embodiments, the
cells in oxygen-limited culture have a peak volumetric productivity
of isoprene greater than about 3000 mg/L.sub.broth/hr and a peak
volumetric productivity of hydrogen greater than about 5
mg/L.sub.broth/hr. In some embodiments, the cells in oxygen-limited
culture have a peak volumetric productivity of isoprene greater
than about 5000 mg/L.sub.broth/hr and a peak volumetric
productivity of hydrogen greater than about 5 mg/L.sub.broth/hr. In
some embodiments, the cells in oxygen-limited culture have an
average volumetric productivity of isoprene between about 0.1
mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, and an average
volumetric productivity of hydrogen between about 0.005
mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr. In some
embodiments, the cells in oxygen-limited culture have an average
volumetric productivity of isoprene between about 1
mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, between about 5
mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, between about
10 mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, between
about 25 mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr,
between about 50 mg/L.sub.broth/hr and about 5000
mg/L.sub.broth/hr, between about 100 mg/L.sub.broth/hr and about
5000 mg/L.sub.broth/hr, between about 250 mg/L.sub.broth/hr and
about 5000 mg/L.sub.broth/hr, between about 500 mg/L.sub.broth/hr
and about 5000 mg/L.sub.broth/hr, between about 1000
mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, and between
about 2500 mg/L.sub.broth/hr and about 5000 mg/L.sub.broth/hr, and
an average volumetric productivity of hydrogen between about 0.01
mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between about
0.025 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between
about 0.05 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between
about 0.1 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between
about 0.25 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between
about 0.5 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, between
about 1 mg/L.sub.broth/hr and about 5 mg/L.sub.broth/hr, and
between about 2.5 mg/L.sub.broth/hr and about 5
mg/L.sub.broth/hr.
[0520] In some embodiments, any of the cells described herein are
grown in oxygen-limited culture and co-produce isoprene and
hydrogen. In some embodiments, the cells in oxygen-limited culture
convert more than about 0.002 molar percent of the carbon that the
cells consume from a cell culture medium into isoprene, and produce
hydrogen equivalent to more than about 0.024 molar percent of the
carbon that the cells consume from a cell culture medium. In some
embodiments, the cells in oxygen-limited culture convert more than
about 0.002 molar percent of the carbon that the cells consume from
a cell culture medium into isoprene, and produce hydrogen
equivalent to more than about 400 molar percent of the carbon that
the cells consumer from a cell culture medium.
[0521] In some embodiments, any of the cells described herein that
co-produce isoprene and hydrogen are grown in oxygen-limited
culture. In some embodiments, the cells in oxygen-limited culture
co-produce isoprene and hydrogen in a ratio ranging from at least
one molar percent of isoprene for every three molar percent of
hydrogen to at least one molar percent of isoprene for every four
molar percent of hydrogen. In some embodiments, the cells in
oxygen-limited culture produce an off-gas containing from 1 to 11
molar percent isoprene and from 3 to 33 molar percent hydrogen. In
some embodiments, the cells produce from 1 to 11 molar percent
isoprene and from 4 to 44 molar percent hydrogen. In some
embodiments, the cells in oxygen-limited culture also produce an
off-gas containing oxygen, carbon dioxide, or nitrogen. In some
embodiments, the cells in oxygen limited culture produce an off-gas
containing from 0 to 21 molar percent oxygen, from 18 to 44 molar
percent carbon dioxide, and from 0 to 78 molar percent
nitrogen.
[0522] In another aspect, provided herein are cells in
oxygen-limited culture that co-produce isoprene and hydrogen,
comprising a heterologous nucleic acid encoding an isoprene
synthase polypeptide, wherein the cells: (i) produce isoprene at a
rate greater than about 400 nmole/g.sub.wcm/hr and produce hydrogen
at a rate greater than about 125 nmole/g.sub.wcm/hr; (ii) have an
average volumetric productivity of isoprene greater than about 0.1
mg/L.sub.broth/hr and an average volumetric productivity of
hydrogen greater than about 0.005 mg/L.sub.broth/hr; or (iii)
convert more than about 0.002 molar percent of the carbon that the
cells consume from a cell culture medium into isoprene, and produce
hydrogen equivalent to more than about 0.024 molar percent of the
carbon that the cells consume from a cell culture medium.
[0523] In some embodiments, the cells in oxygen-limited culture
comprise a heterologous nucleic acid encoding an isoprene synthase
polypeptide, wherein the heterologous nucleic acid is operably
linked to a promoter, and wherein the cells produce greater than
about 400 nmole/g.sub.wcm/hr of isoprene and greater than about 125
nmole/g.sub.wcm/hr of hydrogen. In some embodiments, the cells in
oxygen-limited culture comprise a heterologous nucleic acid
encoding an isoprene synthase polypeptide, wherein the heterologous
nucleic acid is operably linked to a promoter, and wherein the
cells have an average volumetric productivity of isoprene greater
than about 0.1 mg/L.sub.broth/hr and an average volumetric
productivity of hydrogen greater than about 0.005
mg/L.sub.broth/hr. In some embodiments, the cells in oxygen-limited
culture comprise a heterologous nucleic acid encoding an isoprene
synthase polypeptide, wherein the heterologous nucleic acid is
operably linked to a promoter, and wherein the cells convert more
than about 0.002 molar percent of the carbon that the cells consume
from a cell culture medium into isoprene, and more than about 0.024
molar percent of the carbon that the cells consume from a cell
culture medium into hydrogen. In some embodiments, the isoprene
synthase polypeptide is a plant isoprene synthase polypeptide.
[0524] In some embodiments, the cells in oxygen-limited culture
comprising a heterologous nucleic acid encoding an isoprene
synthase polypeptide produce isoprene at a rate between about 400
nmole/g.sub.wcm/hr and about 2.0.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 500 nmole/g.sub.wcm/hr and about 1.5.times.10.sup.5
nmole/g.sub.wcm/hr, between about 750 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, between about 1000
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 2500 nmole/g.sub.wcm/hr and about 1.times.10.sup.5
nmole/g.sub.wcm/hr, between about 5000 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, between about 7500
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
and between about 1.times.10.sup.4 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, and produce hydrogen at a rate
between about 125 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 250 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 500
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 750 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 1000 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 1250
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 2500 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 5000 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 7500
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
and between about 1.00.times.10.sup.4 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr.
[0525] In some embodiments, provided herein are methods of
co-producing isoprene and hydrogen, the methods comprising: (a)
culturing cells under conditions suitable for the co-production of
isoprene and hydrogen; and (b) co-producing isoprene and hydrogen,
wherein the cells produce greater than about 400
nmole/g.sub.wcm/hour of isoprene, and wherein the cells produce
greater than about 125 nmole/g.sub.wcm/hr of hydrogen.
[0526] In some embodiments, the cells in oxygen-limited culture
comprising a heterologous nucleic acid encoding an isoprene
synthase polypeptide produce isoprene at a rate between about 400
nmole/g.sub.wcm/hr and about 2.0.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 500 nmole/g.sub.wcm/hr and about 1.5.times.10.sup.5
nmole/g.sub.wcm/hr, between about 750 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, between about 1000
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
between about 2500 nmole/g.sub.wcm/hr and about 1.times.10.sup.5
nmole/g.sub.wcm/hr, between about 5000 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, between about 7500
nmole/g.sub.wcm/hr and about 1.times.10.sup.5 nmole/g.sub.wcm/hr,
and between about 1.times.10.sup.4 nmole/g.sub.wcm/hr and about
1.times.10.sup.5 nmole/g.sub.wcm/hr, and produce hydrogen at a rate
between about 125 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 250 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 500
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 750 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 1000 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 1250
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
between about 2500 nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4
nmole/g.sub.wcm/hr, between about 5000 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr, between about 7500
nmole/g.sub.wcm/hr to about 1.25.times.10.sup.4 nmole/g.sub.wcm/hr,
and between about 1.00.times.10.sup.4 nmole/g.sub.wcm/hr to about
1.25.times.10.sup.4 nmole/g.sub.wcm/hr.
[0527] In some embodiments, provided herein are methods of
co-producing isoprene and hydrogen, the methods comprising: (a)
culturing cells under conditions suitable for the co-production of
isoprene and hydrogen; and (b) co-producing isoprene and hydrogen,
wherein the cells have an average volumetric productivity of
isoprene greater than about 0.1 mg/L.sub.broth/hr and an average
volumetric productivity of hydrogen greater than about 0.005
mg/L.sub.broth/hr.
[0528] In some embodiments, provided herein are methods of
co-producing isoprene and hydrogen, the methods comprising: (a)
culturing cells under conditions suitable for the co-production of
isoprene and hydrogen; and (b) co-producing isoprene and hydrogen,
wherein the cells convert more than about 0.002 molar percent of
the carbon that the cells consume from a cell culture medium into
isoprene, and produce hydrogen equivalent to more than about 0.024
molar percent of the carbon that the cells consume from a cell
culture medium.
[0529] In some embodiments, provided herein are compositions
comprising isoprene and hydrogen in a ratio ranging from at least
one molar percent of isoprene for every three molar percent of
hydrogen to at least one molar percent of isoprene for every four
molar percent of hydrogen, and 0.1 molar percent or less of
volatile impurities. In some embodiments, the compositions further
comprise from 1 to 11 molar percent isoprene and from 4 to 44 molar
percent hydrogen. In some embodiments, the compositions further
comprise oxygen, carbon dioxide, or nitrogen. In some embodiments,
the compositions further comprise from 0 to 21 molar percent
oxygen, from 18 to 44 molar percent carbon dioxide, and from 0 to
78 molar percent nitrogen. In some embodiments, the composition
further comprises 1.0.times.10.sup.-4 molar percent or less of
non-methane volatile impurities. In some embodiments, the
non-methane volatile impurities comprise one or more of the
following: 2-heptanone, 6-methyl-5-hepten-2-one,
2,4,5-trimethylpyridine, 2,3,5-trimethylpyrazine, citronellal,
acetaldehyde, methanethiol, methyl acetate, 1-propanol, diacetyl,
2-butanone, 2-methyl-3-buten-2-ol, ethyl acetate,
2-methyl-1-propanol, 3-methyl-1-butanal, 3-methyl-2-butanone,
1-butanol, 2-pentanone, 3-methyl-1-butanol, ethyl isobutyrate,
3-methyl-2-butenal, butyl acetate, 3-methylbutyl acetate,
3-methyl-3-buten-1-yl acetate, 3-methyl-2-buten-1-yl acetate,
3-hexen-1-ol, 3-hexen-1-yl acetate, limonene, geraniol
(trans-3,7-dimethyl-2,6-octadien-1-ol), citronellol
(3,7-dimethyl-6-octen-1-ol), (E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, 2,3-cycloheptenolpyridine, or a
linear isoprene polymer (such as a linear isoprene dimer or a
linear isoprene trimer derived from the polymerization of multiple
isoprene units). In some embodiments, the non-methane volatile
impurities comprise one or more of the following: the isoprene
composition includes one or more of the following: an alcohol, an
aldehyde, or a ketone (such as any of the alcohols, aldehydes, or
ketones described herein). In some embodiments, the isoprene
composition includes (i) an alcohol and an aldehyde, (ii) an
alcohol and a ketone, (iii) an aldehyde and a ketone, or (iv) an
alcohol, an aldehyde, and a ketone. In some embodiments, the
non-methane volatile impurities comprise one or more of the
following: methanol, acetaldehyde, ethanol, methanethiol,
1-butanol, 3-methyl-1-propanol, acetone, acetic acid, 2-butanone,
2-methyl-1-butanol, or indole.
[0530] Also provided herein are methods of co-producing isoprene
and hydrogen, the methods comprising: a) culturing cells under
conditions suitable for the co-production of isoprene and hydrogen;
and b) co-producing isoprene and hydrogen, wherein the peak
concentration of the isoprene produced by the cells in
oxygen-limited culture is greater than about 10 ng/L.sub.broth and
the hydrogen evolution rate of the cells is greater than about
0.0025 mmol/L.sub.broth/hour. In some embodiments of any of these
methods, the hydrogen evolution rate is between about any of 0.0025
mmol/L.sub.broth/hr and about 10 mmol/L.sub.broth/hr, between about
0.0025 mmol/L.sub.broth/hr and about 5 mmol/L.sub.broth/hr, between
about 0.0025 mmol/L.sub.broth/hr and about 2.5 mmol/L.sub.broth/hr,
between about 0.0025 mmol/L.sub.broth/hr and about 1
mmol/L.sub.broth/hr, between about 0.0025 mmol/L.sub.broth/hr and
about 0.5 mmol/L.sub.broth/hr, between about 0.0025
mmol/L.sub.broth/hr and about 0.25 mmol/L.sub.broth/hr, between
about 0.0025 mmol/L.sub.broth/hr and about 0.025
mmol/L.sub.broth/hr, between about 0.025 mmol/L.sub.broth/hr and
about 0.5 mmol/L.sub.broth/hr, between about 0.025
mmol/L.sub.broth/hr and about 1 mmol/L.sub.broth/hr, between about
0.025 mmol/L.sub.broth/hr and about 2.5 mmol/L.sub.broth/hr,
between about 0.025 mmol/L.sub.broth/hr and about 5
mmol/L.sub.broth/hr, between about 0.025 mmol/L.sub.broth/hr and
about 10 mmol/L.sub.broth/hr, between about 0.25
mmol/L.sub.broth/hr and 1 mmol/L.sub.broth/hr, between about 0.25
mmol/L.sub.broth/hr and 2.5 mmol/L.sub.broth/hr, between about 0.25
mmol/L.sub.broth/hr and 2.5 mmol/L.sub.broth/hr, and between about
0.25 mmol/L.sub.broth/hr and 10 mmol/L.sub.broth/hr.
[0531] Provided herein are also methods of co-producing isoprene
and hydrogen comprising a) culturing cells under conditions
suitable for the co-production of isoprene and hydrogen; and b)
co-producing isoprene and hydrogen, wherein the liquid phase
concentration of isoprene is less than about 200 mg/L, the cells
produce greater than about 400 nmole/g.sub.wcm/hour of isoprene,
and the hydrogen evolution rate of the cells is greater than about
0.0025 mmol/L/hour. In some embodiments, the liquid phase
concentration of isoprene in the culture is less than about any of
175 mg/L, 150 mg/L, 125 mg/L, 100 mg/L, 75 mg/L, 50 mg/L, 25 mg/L,
20 mg/L, 15 mg/L, 10 mg/L, 5 mg/L, or 2.5 mg/L. In some
embodiments, the liquid phase concentration of isoprene in culture
is between about any of 0.1 mg/L to 200 mg/L, 1 mg/L to 200 mg/L, 1
mg/L to 150 mg/L, 1 mg/L to 100 mg/L, 1 mg/L to 50 mg/L, 1 mg/L to
25 mg/L, 1 mg/L to 20 mg/L, or 10 mg/L to 20 mg/L. In some
embodiments of any of these methods, the hydrogen evolution rate is
between about any of 0.0025 mmol/L.sub.broth/hr and about 10
mmol/L.sub.broth/hr, between about 0.0025 mmol/L.sub.broth/hr and
about 5 mmol/L.sub.broth/hr, between about 0.0025
mmol/L.sub.broth/hr and about 2.5 mmol/L.sub.broth/hr, between
about 0.0025 mmol/L.sub.broth/hr and about 1 mmol/L.sub.broth/hr,
between about 0.0025 mmol/L.sub.broth/hr and about 0.5
mmol/L.sub.broth/hr, between about 0.0025 mmol/L.sub.broth/hr and
about 0.25 mmol/L.sub.broth/hr, between about 0.0025
mmol/L.sub.broth/hr and about 0.025 mmol/L.sub.broth/hr, between
about 0.025 mmol/L.sub.broth/hr and about 0.5 mmol/L.sub.broth/hr,
between about 0.025 mmol/L.sub.broth/hr and about 1
mmol/L.sub.broth/hr, between about 0.025 mmol/L.sub.broth/hr and
about 2.5 mmol/L.sub.broth/hr, between about 0.025
mmol/L.sub.broth/hr and about 5 mmol/L.sub.broth/hr, between about
0.025 mmol/L.sub.broth/hr and about 10 mmol/L.sub.broth/hr, between
about 0.25 mmol/L.sub.broth/hr and 1 mmol/L.sub.broth/hr, between
about 0.25 mmol/L.sub.broth/hr and 2.5 mmol/L.sub.broth/hr, between
about 0.25 mmol/L.sub.broth/hr and 2.5 mmol/L.sub.broth/hr, and
between about 0.25 mmol/L.sub.broth/hr and 10
mmol/L.sub.broth/hr.
[0532] In one aspect, provided herein are cells in oxygen-limited
culture that co-produce isoprene and hydrogen. In some embodiments,
the oxygen-limited culture is anaerobic. In some embodiments, the
cells in oxygen-limited culture produce greater than about 400
nmole/g.sub.wcm/hr of isoprene and greater than about 125
nmole/g.sub.wcm/hr of hydrogen. In some embodiments, the cells have
a heterologous nucleic acid that (i) encodes an isoprene synthase
polypeptide and (ii) is operably linked to a promoter. In some
embodiments, the cells are cultured in a culture medium that
includes a carbon source, such as, but not limited to, a
carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0533] In some embodiments, provided herein are cells in
oxygen-limited culture that convert more than about 0.002% of the
carbon in a cell culture medium into isoprene and produce hydrogen
equivalent to more than about 0.024 molar percent of the carbon in
a cell culture medium. In some embodiments, the oxygen-limited
culture is anaerobic. In some embodiments, the cells have a
heterologous nucleic acid that (i) encodes an isoprene synthase
polypeptide and (ii) is operably linked to a promoter. In some
embodiments, the cells are cultured in a culture medium that
includes a carbon source, such as, but not limited to, a
carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0534] In some embodiments, provided herein are cells in
oxygen-limited culture that comprise a heterologous nucleic acid
encoding an isoprene synthase polypeptide. In some embodiments, the
oxygen-limited culture is anaerobic. In some embodiments, the cells
have a heterologous nucleic acid that (i) encodes an isoprene
synthase polypeptide and (ii) is operably linked to a promoter. In
some embodiments, the cells are cultured in a culture medium that
includes a carbon source, such as, but not limited to, a
carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0535] In one aspect, provided herein are methods of co-producing
isoprene with another compound, such as methods of using any of the
cells described herein to co-produce isoprene and hydrogen. In some
embodiments, the method involves culturing cells under
oxygen-limited conditions sufficient to produce greater than about
400 nmole/g.sub.wcm/hr of isoprene and greater than about 125
nmole/g.sub.wcm/hr of hydrogen. In some embodiments, the
oxygen-limited culture is anaerobic. In some embodiments, the
method also includes recovering the isoprene and hydrogen produced
by the cells. In some embodiments, the method further includes
purifying the isoprene and the hydrogen produced by the cells. In
some embodiments, the method includes polymerizing the isoprene. In
some embodiments, the cells have a heterologous nucleic acid that
(i) encodes an isoprene synthase polypeptide and (ii) is operably
linked to a promoter. In some embodiments, the cells are cultured
in a culture medium that includes a carbon source, such as, but not
limited to, a carbohydrate, glycerol, glycerine, dihydroxyacetone,
one-carbon source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions. In various embodiments, the amount of
isoprene produced (such as the total amount of isoprene produced or
the amount of isoprene produced per liter of broth per hour per
OD.sub.600) during stationary phase is greater than or about 2 or
more times the amount of isoprene produced during the growth phase
for the same length of time.
[0536] In some embodiments, the method includes culturing cells
under oxygen-limited conditions sufficient to convert more than
about 0.002% of the carbon (mol/mol) in a cell culture medium into
isoprene and to produce hydrogen equivalent to more than about
0.024 molar percent of the carbon in a cell culture medium. In some
embodiments, the oxygen-limited culture is anaerobic. In some
embodiments, the method also includes recovering isoprene and
hydrogen produced by the cells. In some embodiments, the method
further includes purifying isoprene and hydrogen produced by the
cells. In some embodiments, the method includes polymerizing the
isoprene. In some embodiments, the cells have a heterologous
nucleic acid that (i) encodes an isoprene synthase polypeptide and
(ii) is operably linked to a promoter. In some embodiments, the
cells are cultured in a culture medium that includes a carbon
source, such as, but not limited to, a carbohydrate, glycerol,
glycerine, dihydroxyacetone, one-carbon source, oil, animal fat,
animal oil, fatty acid, lipid, phospholipid, glycerolipid,
monoglyceride, diglyceride, triglyceride, renewable carbon source,
polypeptide (e.g., a microbial or plant protein or peptide), yeast
extract, component from a yeast extract, or any combination of two
or more of the foregoing.
[0537] In some embodiments of any of the aspects described herein,
the microbial polypeptide carbon source includes one or more
polypeptides from yeast or bacteria. In some embodiments of any of
the aspects described herein, the plant polypeptide carbon source
includes one or more polypeptides from soy, corn, canola, jatropha,
palm, peanut, sunflower, coconut, mustard, rapeseed, cottonseed,
palm kernel, olive, safflower, sesame, or linseed.
[0538] In some embodiments, isoprene and hydrogen are only
co-produced in stationary phase. In some embodiments, isoprene and
hydrogen are co-produced in both the growth phase and stationary
phase. In various embodiments, the amount of isoprene produced
(such as the total amount of isoprene produced or the amount of
isoprene produced per liter of broth per hour per OD.sub.600)
during stationary phase is greater than or about 2, 3, 4, 5, 10,
20, 30, 40, 50, or more times the amount of isoprene produced
during the growth phase for the same length of time. In various
embodiments, the amount of hydrogen produced (such as the total
amount of hydrogen produced or the amount of hydrogen produced per
liter of broth per hour per OD.sub.600) during stationary phase is
greater than or about 2, 3, 4, 5, 10, 20, 30, 40, 50, or more times
the amount of hydrogen produced during the growth phase for the
same length of time.
[0539] In some embodiments, the compositions provided herein
comprise hydrogen and greater than or about 99.90, 99.92, 99.94,
99.96, 99.98, or 100% isoprene by weight compared to the total
weight of all C5 hydrocarbons in the composition. In some
embodiments, the composition comprises less than or about 0.12,
0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001,
0.00005, or 0.00001% C5 hydrocarbons other than isoprene (such as
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne) by weight compared to the total weight of all
C5 hydrocarbons in the composition. In some embodiments, the
composition has less than or about 0.12, 0.10, 0.08, 0.06, 0.04,
0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001, 0.00005, or 0.00001% for
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne by weight compared to the total weight of all
C5 hydrocarbons in the composition. In particular embodiments, the
composition has greater than about 2 mg of isoprene and has greater
than or about 99.90, 99.92, 99.94, 99.96, 99.98, or 100% isoprene
by weight compared to the total weight of all C5 hydrocarbons in
the composition. In some embodiments, the composition has less than
or about 50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005
.mu.g/L of a compound that inhibits the polymerization of isoprene
for any compound in the composition that inhibits the
polymerization of isoprene. In particular embodiments, the
composition also comprises greater than about 2 mg of isoprene and
greater than about 0.48 mg of hydrogen.
[0540] In some embodiments, the volatile organic fraction of the
gas phase has less than or about 50, 40, 30, 20, 10, 5, 1, 0.5,
0.1, 0.05, 0.01, or 0.005 .mu.g/L of a compound that inhibits the
polymerization of isoprene for any compound in the volatile organic
fraction of the gas phase that inhibits the polymerization of
isoprene. In particular embodiments, the volatile organic fraction
of the gas phase also has greater than about 2 mg of isoprene and
greater than about 0.48 mg of hydrogen.
[0541] In some embodiments, the systems include any of the cells
and/or compositions described herein. In some embodiments, the
system includes a reactor that chamber comprises cells in
oxygen-limited culture that produce greater than about 400, 500,
600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000, 2,500,
3,000, 4,000, 5,000, or more nmole/g.sub.wcm/hr isoprene and
greater than about 125, 250, 500, 750, 1000, 1,250, 1,500, 1,750,
2,000, 2,500, 3,000, 4,000, 5,000, 7,500, 10,000, or more
nmole/g.sub.wcm/hr hydrogen. In some embodiments, the system is not
a closed system. In some embodiments, at least a portion of the
isoprene is removed from the system. In some embodiments, the
system includes a gas phase comprising isoprene and hydrogen. In
various embodiments, the gas phase comprises any of the
compositions described herein.
[0542] In one aspect, featured herein is a product produced by any
of the compositions or methods described herein.
Cell Viability at High Isoprene Titer
[0543] Isoprene is a hydrophobic molecule secreted by many plants,
animals, and microbes. Bacteria, such as Bacillus, produce isoprene
at fairly low levels. While there is some evidence that plants
secrete isoprene to help with thermoprotection, it has been
hypothesized that isoprene may act antagonistically to
cyanobacteria or fungi, or as an antimicrobial agent. See, e.g.,
Ladygina et al., Process Biochemistry 41:1001-1014 (2006), which is
incorporated by reference in its entirety, particularly with
respect to isoprene acting antagonistically. Since the very low
production levels happening in nature are sufficient to be
anti-microbial, it was of great concern that the titers and
productivity levels of isoprene necessary for commercialization of
isoprene would kill the host microbe.
[0544] We have found methods for producing titers and productivity
levels of isoprene for commercialization of isoprene while
maintaining cell viability and/or metabolic activity as indicated
by carbon dioxide evolution rate or total carbon dioxide evolution
rate.
[0545] Provided herein are methods of producing isoprene
comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein cells
produce greater than about 400 nmole/g.sub.wcm/hour of isoprene,
and the carbon dioxide evolution rate of the cells is greater than
about 1.times.10.sup.-18 mmol/L/hour. In some embodiments, the
isoprene produced is any concentration or amount disclosed in the
section entitled "Exemplary Production of Isoprene." In some
embodiments, the amount of isoprene is between about any of 400
nmole/g.sub.wcm/hour to 1 mole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 1 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 40 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 4 mmole/g.sub.wcm/hour, 1
mmole/g.sub.wcm/hour to 1.5 mmole/g.sub.wcm/hour, 1.5
mmole/g.sub.wcm/hour to 3 mmole/g.sub.wcm/hour, 3
mmole/g.sub.wcm/hour to 5 mmole/g.sub.wcm/hour, 5
mmole/g.sub.wcm/hour to 25 mmole/g.sub.wcm/hour, 25
mmole/g.sub.wcm/hour to 100 mmole/g.sub.wcm/hour, 100
mmole/g.sub.wcm/hour to 500 mmole/g.sub.wcm/hour, or 500
mmole/g.sub.wcm/hour to 1000 mmole/g.sub.wcm/hour. In some
embodiments, the amount of isoprene is about any of 1
mmole/g.sub.wcm/hour, 1.5 mmole/g.sub.wcm/hour, 2
mmole/g.sub.wcm/hour, 3 mmole/g.sub.wcm/hour, 4
mmole/g.sub.wcm/hour, or 5 mmole/g.sub.wcm/hour. In some
embodiments, the carbon dioxide evolution rate is between about any
of 1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1
mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25
mmol/L/hour to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour,
or 450 mmol/L/hour to 550 mmol/L/hour. In some embodiments, the
carbon dioxide evolution rate is about any of 50 mmol/L/hour, 100
mmol/L/hour, 150 mmol/L/hour, 200 mmol/L/hour, 250 mmol/L/hour, 300
mmol/L/hour, 350 mmol/L/hour, 400 mmol/L/hour, 450 mmol/L/hour, or
500 mmol/L/hour.
[0546] Provided herein are also methods of producing isoprene
comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein cells
produce greater than about 400 nmole/g.sub.wcm/hour of isoprene,
and cell viability is reduced by less than about two-fold. In some
embodiments, the isoprene produced is any concentration or amount
disclosed in the section entitled "Exemplary Production of
Isoprene." In some embodiments, the amount of isoprene is between
about any of 400 nmole/g.sub.wcm/hour to 1 mole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 1 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 40 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 4 mmole/g.sub.wcm/hour, 1
mmole/g.sub.wcm/hour to 1.5 mmole/g.sub.wcm/hour, 1.5
mmole/g.sub.wcm/hour to 3 mmole/g.sub.wcm/hour, 3
mmole/g.sub.wcm/hour to 5 mmole/g.sub.wcm/hour, 5
mmole/g.sub.wcm/hour to 25 mmole/g.sub.wcm/hour, 25
mmole/g.sub.wcm/hour to 100 mmole/g.sub.wcm/hour, 100
mmole/g.sub.wcm/hour to 500 mmole/g.sub.wcm/hour, or 500
mmole/g.sub.wcm/hour to 1000 mmole/g.sub.wcm/hour. In some
embodiments, the amount of isoprene is about any of 1
mmole/g.sub.wcm/hour, 1.5 mmole/g.sub.wcm/hour, 2
mmole/g.sub.wcm/hour, 3 mmole/g.sub.wcm/hour, 4
mmole/g.sub.wcm/hour, or 5 mmole/g.sub.wcm/hour. In some
embodiments, cell viability is reduced by less than about any of
1.75-fold, 1.5-fold, 1.25-fold, 1-fold, 0.75-fold, 0.5-fold, or
0.25-fold. In some embodiments, cell viability is reduced by about
2-fold.
[0547] Further provided herein are methods of producing isoprene
comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein the
cumulative total productivity of the isoprene produced by the cells
in culture is greater than about 0.2 mg/L.sub.broth/hour and the
carbon dioxide evolution rate of the cells is greater than about
1.times.10.sup.-18 mmol/L/hour. In some embodiments, the cumulative
total productivity of isoprene is any concentration or amount
disclosed in the section entitled "Exemplary Production of
Isoprene." In some embodiments, the cumulative total productivity
of the isoprene is between about any of 0.2 mg/L.sub.broth/hour to
5 g/L.sub.broth/hour, 0.2 mg/L.sub.broth/hour to 1
g/L.sub.broth/hour, 1 g/L.sub.broth/hour to 2.5 g/L.sub.broth/hour,
2.5 g/L.sub.broth/hour to 5 g/L.sub.broth/hour. In some
embodiments, the carbon dioxide evolution rate is between about any
of 1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1
mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25
mmol/L/hour to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour,
or 450 mmol/L/hour to 550 mmol/L/hour. In some embodiments, the
carbon dioxide evolution rate is about any of 50 mmol/L/hour, 100
mmol/L/hour, 150 mmol/L/hour, 200 mmol/L/hour, 250 mmol/L/hour, 300
mmol/L/hour, 350 mmol/L/hour, 400 mmol/L/hour, 450 mmol/L/hour, or
500 mmol/L/hour.
[0548] Provided herein are methods of producing isoprene
comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein the
cumulative total productivity of the isoprene produced by the cells
in culture is greater than about 0.2 mg/L.sub.broth/hour and cell
viability is reduced by less than about two-fold. In some
embodiments, the cumulative total productivity of isoprene is any
concentration or amount disclosed in the section entitled
"Exemplary Production of Isoprene." In some embodiments, the
cumulative total productivity of the isoprene is between about any
of 0.2 mg/L.sub.broth/hour to 5 g/L.sub.broth/hour, 0.2
mg/L.sub.broth/hour to 1 g/L.sub.broth/hour, 1 g/L.sub.broth/hour
to 2.5 g/L.sub.broth/hour, 2.5 g/L.sub.broth/hour to 5
g/L.sub.broth/hour. In some embodiments, cell viability is reduced
by less than about any of 1.75-fold, 1.5-fold, 1.25-fold, 1-fold,
0.75-fold, 0.5-fold, or 0.25-fold.
[0549] Methods of producing isoprene are also provided herein
comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein the peak
concentration of the isoprene produced by the cells in culture is
greater than about 10 ng/L.sub.broth and the carbon dioxide
evolution rate of the cells is greater than about
1.times.10.sup.-18 mmol/L/hour. In some embodiments, the peak
concentration of isoprene is any concentration or amount disclosed
in the section entitled "Exemplary Production of Isoprene." In some
embodiments, the peak concentration of isoprene is between about
any of 10 ng/L.sub.broth to 500 ng/L.sub.broth, 500 ng/L.sub.broth
to 1 .mu.g/L.sub.broth, 1 .mu.g/L.sub.broth to 5 .mu.g/L.sub.broth,
5 .mu.g/L.sub.broth to 50 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to
100 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to 250
.mu.g/L.sub.broth, 250 .mu.g/L.sub.broth to 500 .mu.g/L.sub.broth,
500 .mu.g/L.sub.broth to 1 mg/L.sub.broth, 1 mg/L.sub.broth to 50
mg/L.sub.broth, 1 mg/L.sub.broth to 100 mg/L.sub.broth, 1
mg/L.sub.broth to 200 mg/L.sub.broth, 10 ng/L.sub.broth to 200
mg/L.sub.broth, 5 .mu.g/L.sub.broth to 100 mg/L.sub.broth, or 5
.mu.g/L.sub.broth to 200 mg/L.sub.broth. In some embodiments, the
peak concentration is any of about 10 ng/L.sub.broth, 100
ng/L.sub.broth, 1 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth, 1
mg/L.sub.broth, 30 mg/L.sub.broth, 100 mg/L.sub.broth, or 200
mg/L.sub.broth. In some embodiments, the carbon dioxide evolution
rate is between about any of 1.times.10.sup.-18 mmol/L/hour to
about 1 mol/L/hour, 1 mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour
to 750 mmol/L/hour, 25 mmol/L/hour to 75 mmol/L/hour, 250
mmol/L/hour to 750 mmol/L/hour, or 450 mmol/L/hour to 550
mmol/L/hour. In some embodiments, the carbon dioxide evolution rate
is about any of 50 mmol/L/hour, 100 mmol/L/hour, 150 mmol/L/hour,
200 mmol/L/hour, 250 mmol/L/hour, 300 mmol/L/hour, 350 mmol/L/hour,
400 mmol/L/hour, 450 mmol/L/hour, or 500 mmol/L/hour.
[0550] In addition, methods of producing isoprene are also provided
herein comprising: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein the peak
concentration of the isoprene produced by the cells in culture is
greater than about 10 ng/L.sub.broth and cell viability is reduced
by less than about two-fold. In some embodiments, the peak
concentration of isoprene is any concentration or amount disclosed
in the section entitled "Exemplary Production of Isoprene." In some
embodiments, the peak concentration of isoprene is between about
any of 10 ng/L.sub.broth to 500 ng/L.sub.broth, 500 ng/L.sub.broth
to 1 .mu.g/L.sub.broth, 1 .mu.g/L.sub.broth to 5 .mu.g/L.sub.broth,
5 .mu.g/L.sub.broth to 50 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to
100 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to 250
.mu.g/L.sub.broth, 250 .mu.g/L.sub.broth to 500 .mu.g/L.sub.broth,
500 .mu.g/L.sub.broth to 1 mg/L.sub.broth, 1 mg/L.sub.broth to 50
mg/L.sub.broth, 1 mg/L.sub.broth to 100 mg/L.sub.broth, 1
mg/L.sub.broth to 200 mg/L.sub.broth, 10 ng/L.sub.broth to 200
mg/L.sub.broth, 5 .mu.g/L.sub.broth to 100 mg/L.sub.broth, or 5
.mu.g/L.sub.broth to 200 mg/L.sub.broth. In some embodiments, the
peak concentration is any of about 10 ng/L.sub.broth, 100
ng/L.sub.broth, 1 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth, 1
mg/L.sub.broth, 30 mg/L.sub.broth, 100 mg/L.sub.broth, or 200
mg/L.sub.broth. In some embodiments, cell viability is reduced by
less than about any of 1.75-fold, 1.5-fold, 1.25-fold, 1-fold,
0.75-fold, 0.5-fold, or 0.25-fold. In some embodiments, cell
viability is reduced by about 2-fold.
[0551] Cells in culture are also provided herein comprising a
nucleic acid encoding an isoprene synthase polypeptide, wherein the
cells produce greater than about 400 nmole/g.sub.wcm/hour of
isoprene and carbon dioxide evolution rate of the cells is greater
than about 1.times.10.sup.-18 mmol/L/hour. In some embodiments, the
isoprene produced is any concentration or amount disclosed in the
section entitled "Exemplary Production of Isoprene." In some
embodiments, the amount of isoprene is between about any of 400
nmole/g.sub.wcm/hour to 1 mole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 1 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 40 mmole/g.sub.wcm/hour, 400
nmole/g.sub.wcm/hour to 4 mmole/g.sub.wcm/hour, 1
mmole/g.sub.wcm/hour to 1.5 mmole/g.sub.wcm/hour, 1.5
mmole/g.sub.wcm/hour to 3 mmole/g.sub.wcm/hour, 3
mmole/g.sub.wcm/hour to 5 mmole/g.sub.wcm/hour, 5
mmole/g.sub.wcm/hour to 25 mmole/g.sub.wcm/hour, 25
mmole/g.sub.wcm/hour to 100 mmole/g.sub.wcm/hour, 100
mmole/g.sub.wcm/hour to 500 mmole/g.sub.wcm/hour, or 500
mmole/g.sub.wcm/hour to 1000 mmole/g.sub.wcm/hour. In some
embodiments, the amount of isoprene is about any of 1
mmole/g.sub.wcm/hour, 1.5 mmole/g.sub.wcm/hour, 2
mmole/g.sub.wcm/hour, 3 mmole/g.sub.wcm/hour, 4
mmole/g.sub.wcm/hour, or 5 mmole/g.sub.wcm/hour. In some
embodiments, the carbon dioxide evolution rate is between about any
of 1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1
mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25
mmol/L/hour to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour,
or 450 mmol/L/hour to 550 mmol/L/hour. In some embodiments, the
carbon dioxide evolution rate is about any of 50 mmol/L/hour, 100
mmol/L/hour, 150 mmol/L/hour, 200 mmol/L/hour, 250 mmol/L/hour, 300
mmol/L/hour, 350 mmol/L/hour, 400 mmol/L/hour, 450 mmol/L/hour, or
500 mmol/L/hour.
[0552] Provided herein are also cells in culture comprising a
nucleic acid encoding an isoprene synthase polypeptide, wherein
cumulative total productivity of the isoprene produced by the cells
in culture is greater than about 0.2 mg/L.sub.broth/hour and carbon
dioxide evolution rate of the cells is greater than about
1.times.10.sup.-18 mmol/L/hour. In some embodiments, the cumulative
total productivity of isoprene is any concentration or amount
disclosed in the section entitled "Exemplary Production of
Isoprene." In some embodiments, the cumulative total productivity
of the isoprene is between about any of 0.2 mg/L.sub.broth/hour to
5 g/L.sub.broth/hour, 0.2 mg/L.sub.broth/hour to 1
g/L.sub.broth/hour, 1 g/L.sub.broth/hour to 2.5 g/L.sub.broth/hour,
2.5 g/L.sub.broth/hour to 5 g/L.sub.broth/hour. In some
embodiments, the carbon dioxide evolution rate is between about any
of 1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1
mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25
mmol/L/hour to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour,
or 450 mmol/L/hour to 550 mmol/L/hour. In some embodiments, the
carbon dioxide evolution rate is about any of 50 mmol/L/hour, 100
mmol/L/hour, 150 mmol/L/hour, 200 mmol/L/hour, 250 mmol/L/hour, 300
mmol/L/hour, 350 mmol/L/hour, 400 mmol/L/hour, 450 mmol/L/hour, or
500 mmol/L/hour.
[0553] In addition, provided herein are cells in culture comprising
a nucleic acid encoding an isoprene synthase polypeptide, wherein
peak concentration of the isoprene produced by the cells in culture
is greater than about 10 ng/L.sub.broth and carbon dioxide
evolution rate of the cells is greater than about
1.times.10.sup.-18 mmol/L/hour. In some embodiments, the peak
concentration of isoprene is any concentration or amount disclosed
in the section entitled "Exemplary Production of Isoprene." In some
embodiments, the peak concentration of isoprene is between about
any of 10 ng/L.sub.broth to 500 ng/L.sub.broth, 500 ng/L.sub.broth
to 1 .mu.g/L.sub.broth, 1 .mu.g/L.sub.broth to 5 .mu.g/L.sub.broth,
5 .mu.g/L.sub.broth to 50 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to
100 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth to 250
.mu.g/L.sub.broth, 250 .mu.g/L.sub.broth to 500 .mu.g/L.sub.broth,
500 .mu.g/L.sub.broth to 1 mg/L.sub.broth, 1 mg/L.sub.broth to 50
mg/L.sub.broth, 1 mg/L.sub.broth to 100 mg/L.sub.broth, 1
mg/L.sub.broth to 200 mg/L.sub.broth, 10 ng/L.sub.broth to 200
mg/L.sub.broth, 5 .mu.g/L.sub.broth to 100 mg/L.sub.broth, or 5
.mu.g/L.sub.broth to 200 mg/L.sub.broth. In some embodiments, the
peak concentration is any of about 10 ng/L.sub.broth, 100
ng/L.sub.broth, 1 .mu.g/L.sub.broth, 5 .mu.g/L.sub.broth, 1
mg/L.sub.broth, 30 mg/L.sub.broth, 100 mg/L.sub.broth, or 200
mg/L.sub.broth. In some embodiments, the carbon dioxide evolution
rate is between about any of 1.times.10.sup.-18 mmol/L/hour to
about 1 mol/L/hour, 1 mmol/L/hour to 1 mol/L/hour, 25 mmol/L/hour
to 750 mmol/L/hour, 25 mmol/L/hour to 75 mmol/L/hour, 250
mmol/L/hour to 750 mmol/L/hour, or 450 mmol/L/hour to 550
mmol/L/hour. In some embodiments, the carbon dioxide evolution rate
is about any of 50 mmol/L/hour, 100 mmol/L/hour, 150 mmol/L/hour,
200 mmol/L/hour, 250 mmol/L/hour, 300 mmol/L/hour, 350 mmol/L/hour,
400 mmol/L/hour, 450 mmol/L/hour, or 500 mmol/L/hour.
[0554] In some embodiments of any of the methods and cells
described herein, carbon dioxide evolution rate and/or cell
viability of a cell expressing a MVA pathway and/or DXP pathway RNA
and/or protein from one or more of a heterologous and/or duplicate
copy of a MVA pathway and/or DXP pathway nucleic acid is compared
to a control cell lacking one or more of a heterologous and/or
duplicate copy of a MVA pathway and/or DXP pathway nucleic acid. In
some embodiments, carbon dioxide evolution rate and/or cell
viability of a cell expressing a MVA pathway and/or DXP pathway RNA
and/or protein from one or more of a heterologous and/or duplicate
copy of a MVA pathway and/or DXP pathway nucleic acid under the
control of an inducible promoter, wherein the promotor is induced,
is compared to a control cell containing one or more of a
heterologous and/or duplicate copy of a MVA pathway and/or DXP
pathway nucleic acid under the control of an inducible promoter,
wherein the promotor is not induced (uninduced). In some
embodiments, the inducible promoter is a beta-galactosidase
promoter.
[0555] In some embodiments, the methods of producing isoprene
comprise: a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein cells
produce greater than about 400 nmole/g.sub.wcm/hour of isoprene,
and the carbon dioxide evolution rate of the cells is greater than
about 1.times.10.sup.-18 mmol/L/hour. Further provided herein are
methods of producing isoprene comprising: a) culturing cells under
suitable conditions for production of isoprene; and b) producing
isoprene, wherein the cumulative total productivity of the isoprene
produced by the cells in culture is greater than about 0.2
mg/L.sub.broth/hour and the carbon dioxide evolution rate of the
cells is greater than about 1.times.10.sup.-18 mmol/L/hour. Methods
of producing isoprene are also provided herein comprising: a)
culturing cells under suitable conditions for production of
isoprene; and b) producing isoprene, wherein the peak concentration
of the isoprene produced by the cells in culture is greater than
about 10 ng/L.sub.broth and the carbon dioxide evolution rate of
the cells is greater than about 1.times.10.sup.-18 mmol/L/hour. In
some embodiments of any of these methods, the carbon dioxide
evolution rate is between about any of 1.times.10.sup.-18
mmol/L/hour to about 1 mol/L/hour, 1 mmol/L/hour to 1 mol/L/hour,
25 mmol/L/hour to 750 mmol/L/hour, 25 mmol/L/hour to 75
mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour, or 450 mmol/L/hour
to 550 mmol/L/hour. In some embodiments, the carbon dioxide
evolution rate is about 50 mmol/L/hour or about 500
mmol/L/hour.
[0556] Further provided herein are cells in culture comprising a
nucleic acid encoding an isoprene synthase polypeptide, wherein the
cells produce greater than about 400 nmole/g.sub.wcm/hour of
isoprene and carbon dioxide evolution rate of the cells is greater
than about 1.times.10.sup.-18 mmol/L/hour. Provided herein are also
cells in culture comprising a nucleic acid encoding an isoprene
synthase polypeptide, wherein cumulative total productivity of the
isoprene produced by the cells in culture is greater than about 0.2
mg/L.sub.broth/hour and carbon dioxide evolution rate of the cells
is greater than about 1.times.10.sup.-18 mmol/L/hour. In addition,
provided herein are cells in culture comprising a nucleic acid
encoding an isoprene synthase polypeptide, wherein peak
concentration of the isoprene produced by the cells in culture is
greater than about 10 ng/L.sub.broth and carbon dioxide evolution
rate of the cells is greater than about 1.times.10.sup.-18
mmol/L/hour. In some embodiments of any of these cells in culture,
the carbon dioxide evolution rate is between about any of
1.times.10.sup.-18 mmol/L/hour to about 1 mol/L/hour, 1 mmol/L/hour
to 1 mol/L/hour, 25 mmol/L/hour to 750 mmol/L/hour, 25 mmol/L/hour
to 75 mmol/L/hour, 250 mmol/L/hour to 750 mmol/L/hour, or 450
mmol/L/hour to 550 mmol/L/hour. In some embodiments, the carbon
dioxide evolution rate is about 50 mmol/L/hour or about 500
mmol/L/hour.
[0557] Provided herein are also methods of producing isoprene
comprising a) culturing cells under suitable conditions for
production of isoprene; and b) producing isoprene, wherein the
liquid phase concentration of isoprene is less than about 200 mg/L
and the cells produce greater than about 400 nmole/g.sub.wcm/hour
of isoprene. In some embodiments, the liquid phase concentration of
isoprene in the culture is less than about any of 175 mg/L, 150
mg/L, 125 mg/L, 100 mg/L, 75 mg/L, 50 mg/L, 25 mg/L, 20 mg/L, 15
mg/L, 10 mg/L, 5 mg/L, or 2.5 mg/L. In some embodiments, the liquid
phase concentration of isoprene in culture is between about any of
0.1 mg/L to 200 mg/L, 1 mg/L to 200 mg/L, 1 mg/L to 150 mg/L, 1
mg/L to 100 mg/L, 1 mg/L to 50 mg/L, 1 mg/L to 25 mg/L, 1 mg/L to
20 mg/L, or 10 mg/L to 20 mg/L.
[0558] Also provided herein are methods of producing a compound,
wherein the compound has one or more characteristics selected from
the group consisting of (a) a Henry's law coefficient of less than
about 250 M/atm and (b) a solubility in water of less than about
100 g/L. In some embodiments, the method comprises: a) culturing
cells under suitable conditions for production of the compound,
wherein gas is added (such as the addition of gas to a system such
as a fermentation system) at a gas sparging rate between about 0.01
vvm to about 2 vvm; and b) producing the compound. In some
embodiments, the Henry's law coefficient of the compound is less
than about any of 200 M/atm, 150 M/atm, 100 M/atm, 75 M/atm, 50
M/atm, 25 M/atm, 10 M/atm, 5 M/atm, or 1 M/atm. In some
embodiments, the solubility in water of the compound is less than
about any of 75 g/L, 50 g/L, 25 g/L, 10 g/L, 5 g/L, or 1 g/L. In
some embodiments, the compound is selected from a group consisting
of isoprene, an aldehyde (e.g., acetaldehyde), a ketone (e.g.,
acetone or 2-butanone), an alcohol (e.g., methanol, ethanol,
1-butanol, or C5 alcohols such as 3-methyl-3-buten-1-ol or
3-methyl-2-buten-1-ol), an ester of an alcohol (e.g., ethyl acetate
or acetyl esters of C5 alcohols), a hemiterpene, a monoterpene, a
sesquiterpene, and C1 to C5 hydrocarbons (e.g., methane, ethane,
ethylene, or propylene). In some embodiments, the C1 to C5
hydrocarbons are saturated, unsaturated, or branched. In particular
embodiments, the compound is isoprene. In some embodiments of the
methods of producing any of the compounds described above, the gas
sparging rate is between about any of 0.1 vvm to 1 vvm, 0.2 vvm to
1 vvm, or 0.5 vvm to 1 vvm.
[0559] In one aspect, cells in culture are used to produce
isoprene. In some embodiments, the cells in culture produce greater
than about 400 nmole of isoprene/gram of cells for the wet weight
of the cells/hour (nmole/g.sub.wcm/hr) of isoprene. In some
embodiments, the cells have a heterologous nucleic acid that (i)
encodes an isoprene synthase polypeptide and (ii) is operably
linked to a promoter. In some embodiments, the cells are cultured
in a culture medium that includes a carbon source, such as, but not
limited to, a carbohydrate, glycerol, glycerine, dihydroxyacetone,
one-carbon source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0560] In some embodiments, the cells in culture convert more than
about 0.002% of the carbon in a cell culture medium into isoprene.
In some embodiments, the cells have a heterologous nucleic acid
that (i) encodes an isoprene synthase polypeptide and (ii) is
operably linked to a promoter. In some embodiments, the cells are
cultured in a culture medium that includes a carbon source, such
as, but not limited to, a carbohydrate, glycerol, glycerine,
dihydroxyacetone, one-carbon source, oil, animal fat, animal oil,
fatty acid, lipid, phospholipid, glycerolipid, monoglyceride,
diglyceride, triglyceride, renewable carbon source, polypeptide
(e.g., a microbial or plant protein or peptide), yeast extract,
component from a yeast extract, or any combination of two or more
of the foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0561] In some embodiments, the cells in culture comprise a
heterologous nucleic acid encoding an isoprene synthase
polypeptide. In some embodiments, the cells have a heterologous
nucleic acid that (i) encodes an isoprene synthase polypeptide and
(ii) is operably linked to a promoter. In some embodiments, the
cells are cultured in a culture medium that includes a carbon
source, such as, but not limited to, a carbohydrate, glycerol,
glycerine, dihydroxyacetone, one-carbon source, oil, animal fat,
animal oil, fatty acid, lipid, phospholipid, glycerolipid,
monoglyceride, diglyceride, triglyceride, renewable carbon source,
polypeptide (e.g., a microbial or plant protein or peptide), yeast
extract, component from a yeast extract, or any combination of two
or more of the foregoing. In some embodiments, the cells are
cultured under limited glucose conditions.
[0562] In one aspect, described herein are methods of producing
isoprene, such as methods of using any of the cells described
herein to produce isoprene. In some embodiments, the method
involves culturing cells under conditions sufficient to produce
greater than about 400 nmole/g.sub.wcm/hr of isoprene. In some
embodiments, the method also includes recovering isoprene produced
by the cells. In some embodiments, the method includes purifying
isoprene produced by the cells. In some embodiments, the method
includes polymerizing the isoprene. In some embodiments, the cells
have a heterologous nucleic acid that (i) encodes an isoprene
synthase polypeptide and (ii) is operably linked to a promoter. In
some embodiments, the cells are cultured in a culture medium that
includes a carbon source, such as, but not limited to, a
carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions. In various embodiments, the amount of
isoprene produced (such as the total amount of isoprene produced or
the amount of isoprene produced per liter of broth per hour per
OD.sub.600) during stationary phase is greater than or about 2 or
more times the amount of isoprene produced during the growth phase
for the same length of time. In some embodiments, the gas phase
comprises greater than or about 9.5% (volume) oxygen, and the
concentration of isoprene in the gas phase is less than the lower
flammability limit or greater than the upper flammability limit. In
particular embodiments, (i) the concentration of isoprene in the
gas phase is less than the lower flammability limit or greater than
the upper flammability limit, and (ii) the cells produce greater
than about 400 nmole/g.sub.wcm/hr of isoprene.
[0563] In some embodiments, the method includes culturing cells
under conditions sufficient to convert more than about 0.002% of
the carbon (mol/mol) in a cell culture medium into isoprene. In
some embodiments, the method also includes recovering isoprene
produced by the cells. In some embodiments, the method includes
purifying isoprene produced by the cells. In some embodiments, the
method includes polymerizing the isoprene. In some embodiments, the
cells have a heterologous nucleic acid that (i) encodes an isoprene
synthase polypeptide and (ii) is operably linked to a promoter. In
some embodiments, the cells are cultured in a culture medium that
includes a carbon source, such as, but not limited to, a
carbohydrate, glycerol, glycerine, dihydroxyacetone, one-carbon
source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions.
[0564] In some embodiments, isoprene is only produced in stationary
phase. In some embodiments, isoprene is produced in both the growth
phase and stationary phase. In various embodiments, the amount of
isoprene produced (such as the total amount of isoprene produced or
the amount of isoprene produced per liter of broth per hour per
OD.sub.600) during stationary phase is greater than or about 2, 3,
4, 5, 10, 20, 30, 40, 50, or more times the amount of isoprene
produced during the growth phase for the same length of time.
[0565] In one aspect, described herein are compositions and systems
that comprise isoprene. In some embodiments, the composition
comprises greater than or about 2, 5, 10, 20, 30, 40, 50, 60, 70,
80, 90, 100, 200, 300, 400, 500, 600, 700, 800, 900, or 1000 mg of
isoprene. In some embodiments, the composition comprises greater
than or about 2, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100 g of
isoprene (w/w) of the volatile organic fraction of the composition
is isoprene.
[0566] In some embodiments, the composition comprises greater than
or about 99.90, 99.92, 99.94, 99.96, 99.98, or 100% isoprene by
weight compared to the total weight of all C5 hydrocarbons in the
composition. In some embodiments, the composition comprises less
than or about 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005,
0.001, 0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other
than isoprene (such as 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the composition. In
some embodiments, the composition has less than or about 0.12,
0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001,
0.00005, or 0.00001% for 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-ene-1-yne, or cis-pent-3-ene-1-yne by weight compared to
the total weight of all C5 hydrocarbons in the composition. In
particular embodiments, the composition has greater than about 2 mg
of isoprene and has greater than or about 99.90, 99.92, 99.94,
99.96, 99.98, or 100% isoprene by weight compared to the total
weight of all C5 hydrocarbons in the composition.
[0567] In some embodiments, the composition has less than or about
50, 40, 30, 20, 10, 5, 1, 0.5, 0.1, 0.05, 0.01, or 0.005 .mu.g/L of
a compound that inhibits the polymerization of isoprene for any
compound in the composition that inhibits the polymerization of
isoprene. In particular embodiments, the composition also has
greater than about 2 mg of isoprene.
[0568] In some embodiments, the composition has one or more
compounds selected from the group consisting of ethanol, acetone,
C5 prenyl alcohols, and isoprenoid compounds with 10 or more carbon
atoms. In some embodiments, the composition has greater than or
about 0.005, 0.01, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 60, 80,
100, or 120 .mu.g/L of ethanol, acetone, a C5 prenyl alcohol (such
as 3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or
more of the foregoing. In particular embodiments, the composition
has greater than about 2 mg of isoprene and has one or more
compounds selected from the group consisting of ethanol, acetone,
C5 prenyl alcohols, and isoprenoid compounds with 10 or more carbon
atoms.
[0569] In some embodiments, the composition includes isoprene and
one or more second compounds selected from the group consisting of
2-heptanone, 6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine.
In various embodiments, the amount of one of these second
components relative to the amount of isoprene in units of
percentage by weight (i.e., weight of the component divided by the
weight of isoprene times 100) is at greater than or about 0.01,
0.02, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90,
100, or 110% (w/w).
[0570] In some embodiments, the composition comprises (i) a gas
phase that comprises isoprene and (ii) cells in culture that
produce greater than about 400 nmole/g.sub.wcm/hr of isoprene. In
some embodiments, the composition comprises a closed system, and
the gas phase comprises greater than or about 5. 10, 20, 30, 40,
50, 60, 70, 80, 90, 100 .mu.g/L of isoprene when normalized to 1 mL
of 1 OD.sub.600 cultured for 1 hour. In some embodiments, the
composition comprises an open system, and the gas phase comprises
greater than or about 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100
.mu.g/L of isoprene when sparged at a rate of 1 vvm. In some
embodiments, the volatile organic fraction of the gas phase
comprises greater than or about 99.90, 99.92, 99.94, 99.96, 99.98,
or 100% isoprene by weight compared to the total weight of all C5
hydrocarbons in the volatile organic fraction. In some embodiments,
the volatile organic fraction of the gas phase comprises less than
or about 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001,
0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other than
isoprene (such as 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the volatile organic
fraction. In some embodiments, the volatile organic fraction of the
gas phase has less than or about 0.12, 0.10, 0.08, 0.06, 0.04,
0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001, 0.00005, or 0.00001% for
1,3-cyclopentadiene, cis-1,3-pentadiene, trans-1,3-pentadiene,
1,4-pentadiene, 1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne by weight compared to the total weight of all
C5 hydrocarbons in the volatile organic fraction. In particular
embodiments, the volatile organic fraction of the gas phase has
greater than about 2 mg of isoprene and has greater than or about
99.90, 99.92, 99.94, 99.96, 99.98, or 100% isoprene by weight
compared to the total weight of all C5 hydrocarbons in the volatile
organic fraction.
[0571] In some embodiments, the volatile organic fraction of the
gas phase has less than or about 50, 40, 30, 20, 10, 5, 1, 0.5,
0.1, 0.05, 0.01, or 0.005 .mu.g/L of a compound that inhibits the
polymerization of isoprene for any compound in the volatile organic
fraction of the gas phase that inhibits the polymerization of
isoprene. In particular embodiments, the volatile organic fraction
of the gas phase also has greater than about 2 mg of isoprene.
[0572] In some embodiments, the volatile organic fraction of the
gas phase has one or more compounds selected from the group
consisting of ethanol, acetone, C5 prenyl alcohols, and isoprenoid
compounds with 10 or more carbon atoms. In some embodiments, the
volatile organic fraction of the gas phase has greater than or
about 0.005, 0.01, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 60, 80,
100, or 120 .mu.g/L of ethanol, acetone, a C5 prenyl alcohol (such
as 3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or
more of the foregoing. In particular embodiments, the volatile
organic fraction of the gas phase has greater than about 2 mg of
isoprene and has one or more compounds selected from the group
consisting of ethanol, acetone, C5 prenyl alcohols, and isoprenoid
compounds with 10 or more carbon atoms.
[0573] In some embodiments, the volatile organic fraction of the
gas phase has includes isoprene and one or more second compounds
selected from the group consisting of 2-heptanone,
6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine.
In various embodiments, the amount of one of these second
components relative to amount of isoprene in units of percentage by
weight (i.e., weight of the component divided by the weight of
isoprene times 100) is at greater than or about 0.01, 0.02, 0.05,
0.1, 0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or 110%
(w/w) in the volatile organic fraction of the gas phase.
[0574] In some embodiments of any of the compositions described
herein, at least a portion of the isoprene is in a gas phase. In
some embodiments, at least a portion of the isoprene is in a liquid
phase (such as a condensate). In some embodiments, at least a
portion of the isoprene is in a solid phase. In some embodiments,
at least a portion of the isoprene is adsorbed to a solid support,
such as a support that includes silica and/or activated carbon. In
some embodiments, the composition includes ethanol. In some
embodiments, the composition includes between about 75 to about 90%
by weight of ethanol, such as between about 75 to about 80%, about
80 to about 85%, or about 85 to about 90% by weight of ethanol. In
some embodiments, the composition includes between about 4 to about
15% by weight of isoprene, such as between about 4 to about 8%,
about 8 to about 12%, or about 12 to about 15% by weight of
isoprene.
[0575] In some embodiments, the systems include any of the cells
and/or compositions described herein. In some embodiments, the
system includes a reactor that chamber comprises cells in culture
that produce greater than about 400, 500, 600, 700, 800, 900,
1,000, 1,250, 1,500, 1,750, 2,000, 2,500, 3,000, 4,000, 5,000, or
more nmole/g.sub.wcm/hr isoprene. In some embodiments, the system
is not a closed system. In some embodiments, at least a portion of
the isoprene is removed from the system. In some embodiments, the
system includes a gas phase comprising isoprene. In various
embodiments, the gas phase comprises any of the compositions
described herein.
[0576] In some embodiments of any of the compositions, systems, and
methods described herein, a nonflammable concentration of isoprene
in the gas phase is produced. In some embodiments, the gas phase
comprises less than about 9.5% (volume) oxygen. In some
embodiments, the gas phase comprises greater than or about 9.5%
(volume) oxygen, and the concentration of isoprene in the gas phase
is less than the lower flammability limit or greater than the upper
flammability limit. In some embodiments, the portion of the gas
phase other than isoprene comprises between about 0% to about 100%
(volume) oxygen, such as between about 10% to about 100% (volume)
oxygen. In some embodiments, the portion of the gas phase other
than isoprene comprises between about 0% to about 99% (volume)
nitrogen. In some embodiments, the portion of the gas phase other
than isoprene comprises between about 1% to about 50% (volume)
CO.sub.2.
[0577] In some embodiments of any of the aspects described herein,
the cells in culture produce isoprene at greater than or about 400,
500, 600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000, 2,500,
3,000, 4,000, 5,000, or more nmole/g.sub.wcm/hr isoprene. In some
embodiments of any of the aspects described herein, the cells in
culture convert greater than or about 0.002, 0.005, 0.01, 0.02,
0.05, 0.1, 0.12, 0.14, 0.16, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8,
0.9, 1.0, 1.2, 1.4, 1.6%, or more of the carbon in the cell culture
medium into isoprene. In some embodiments of any of the aspects
described herein, the cells in culture produce isoprene at greater
than or about 1, 10, 25, 50, 100, 150, 200, 250, 300, 400, 500,
600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000, 2,500,
3,000, 4,000, 5,000, 10,000, 100,000, or more ng of isoprene/gram
of cells for the wet weight of the cells/hr (ng/g.sub.wcm/h). In
some embodiments of any of the aspects described herein, the cells
in culture produce a cumulative titer (total amount) of isoprene at
greater than or about 1, 10, 25, 50, 100, 150, 200, 250, 300, 400,
500, 600, 700, 800, 900, 1,000, 1,250, 1,500, 1,750, 2,000, 2,500,
3,000, 4,000, 5,000, 10,000, 50,000, 100,000, or more mg of
isoprene/L of broth (mg/L.sub.broth, wherein the volume of broth
includes the volume of the cells and the cell medium). Other
exemplary rates of isoprene production and total amounts of
isoprene production are disclosed herein.
[0578] In some embodiments of any of the aspects described herein,
the cells further comprise a heterologous nucleic acid encoding an
IDI polypeptide. In some embodiments of any of the aspects
described herein, the cells further comprise an insertion of a copy
of an endogenous nucleic acid encoding an IDI polypeptide. In some
embodiments of any of the aspects described herein, the cells
further comprise a heterologous nucleic acid encoding a DXS
polypeptide. In some embodiments of any of the aspects described
herein, the cells further comprise an insertion of a copy of an
endogenous nucleic acid encoding a DXS polypeptide. In some
embodiments of any of the aspects described herein, the cells
further comprise one or more nucleic acids encoding an IDI
polypeptide and a DXS polypeptide. In some embodiments of any of
the aspects described herein, one nucleic acid encodes the isoprene
synthase polypeptide, IDI polypeptide, and DXS polypeptide. In some
embodiments of any of the aspects described herein, one vector
encodes the isoprene synthase polypeptide, IDI polypeptide, and DXS
polypeptide. In some embodiments, the vector comprises a selective
marker, such as an antibiotic resistance nucleic acid.
[0579] In some embodiments of any of the aspects described herein,
the heterologous isoprene synthase nucleic acid is operably linked
to a T7 promoter, such as a T7 promoter contained in a medium or
high copy plasmid. In some embodiments of any of the aspects
described herein, the heterologous isoprene synthase nucleic acid
is operably linked to a Trc promoter, such as a Trc promoter
contained in a medium or high copy plasmid. In some embodiments of
any of the aspects described herein, the heterologous isoprene
synthase nucleic acid is operably linked to a Lac promoter, such as
a Lac promoter contained in a low copy plasmid. In some embodiments
of any of the aspects described herein, the heterologous isoprene
synthase nucleic acid is operably linked to an endogenous promoter,
such as an endogenous alkaline serine protease promoter. In some
embodiments, the heterologous isoprene synthase nucleic acid
integrates into a chromosome of the cells without a selective
marker.
[0580] In some embodiments, one or more MVA pathway, IDI, DXP, or
isoprene synthase nucleic acids are placed under the control of a
promoter or factor that is more active in stationary phase than in
the growth phase. For example, one or more MVA pathway, IDI, DXP,
or isoprene synthase nucleic acids may be placed under control of a
stationary phase sigma factor, such as RpoS. In some embodiments,
one or more MVA pathway, IDI, DXP, or isoprene synthase nucleic
acids are placed under control of a promoter inducible in
stationary phase, such as a promoter inducible by a response
regulator active in stationary phase.
[0581] In some embodiments of any of the aspects described herein,
at least a portion of the cells maintain the heterologous isoprene
synthase nucleic acid for at least or about 5, 10, 20, 40, 50, 60,
65, or more cell divisions in a continuous culture (such as a
continuous culture without dilution). In some embodiments of any of
the aspects described herein, the nucleic acid comprising the
isoprene synthase, IDI, or DXS nucleic acid also comprises a
selective marker, such as an antibiotic resistance nucleic
acid.
[0582] In some embodiments of any of the aspects described herein,
the cells further comprise a heterologous nucleic acid encoding an
MVA pathway polypeptide (such as an MVA pathway polypeptide from
Saccharomyces cerevisia or Enterococcus faecalis). In some
embodiments of any of the aspects described herein, the cells
further comprise an insertion of a copy of an endogenous nucleic
acid encoding an MVA pathway polypeptide (such as an MVA pathway
polypeptide from Saccharomyces cerevisia or Enterococcus faecalis).
In some embodiments of any of the aspects described herein, the
cells comprise an isoprene synthase, DXS, and MVA pathway nucleic
acid. In some embodiments of any of the aspects described herein,
the cells comprise an isoprene synthase nucleic acid, a DXS nucleic
acid, an IDI nucleic acid, and a MVA pathway nucleic (in addition
to the IDI nucleic acid).
[0583] In some embodiments of any of the aspects described herein,
the isoprene synthase polypeptide is a polypeptide from a plant
such as Pueraria (e.g., Pueraria montana or Pueraria lobata) or
Populus (e.g., Populus tremuloides, Populus alba, Populus nigra,
Populus trichocarpa, or the hybrid, Populus alba.times.Populus
tremula).
[0584] In some embodiments of any of the aspects described herein,
the cells are bacterial cells, such as gram-positive bacterial
cells (e.g., Bacillus cells such as Bacillus subtilis cells or
Streptomyces cells such as Streptomyces lividans, Streptomyces
coelicolor, or Streptomyces griseus cells). In some embodiments of
any of the aspects described herein, the cells are gram-negative
bacterial cells (e.g., Escherichia cells such as Escherichia coli
cells, Rhodopseudomonas sp. such as Rhodopseudomonas palustris
cells, Pseudomonas sp. such as Pseudomonas fluorescens cells or
Pseudomonas putida cells, or Pantoea cells such as Pantoea citrea
cells). In some embodiments of any of the aspects described herein,
the cells are fungal, cells such as filamentous fungal cells (e.g.,
Trichoderma cells such as Trichoderma reesei cells or Aspergillus
cells such as Aspergillus oryzae and Aspergillus niger) or yeast
cells (e.g., Yarrowia cells such as Yarrowia lipolytica cells or
Sacchraomyces cells such as Saccaromyces cerevisiae).
[0585] In some embodiments of any of the aspects described herein,
the microbial polypeptide carbon source includes one or more
polypeptides from yeast or bacteria. In some embodiments of any of
the aspects described herein, the plant polypeptide carbon source
includes one or more polypeptides from soy, corn, canola, jatropha,
palm, peanut, sunflower, coconut, mustard, rapeseed, cottonseed,
palm kernel, olive, safflower, sesame, or linseed.
Production of Isoprene in Anaerobic Microorganisms Using Synthesis
Gas as an Energy Source
[0586] In some embodiments, the bioisoprene composition is produced
in anaerobic microorganisms using synthesis gas as an energy source
as described in U.S. Provisional Patent Application Nos. 61/289,347
and 61/289,355, filed on Dec. 22, 2009, the disclosures of which
are incorporated herein by reference in their entireties.
[0587] Production of isoprene from syngas by anaerobic organisms
may provide a number of advantages over production of isoprene from
sugars by aerobic organisms. First, the maximum theoretical mass
yield of isoprene can be greater for the aerobic organisms, as
discussed further below. Second, the anaerobic organisms do not
have excess reducing power in the form of NAD(P)H that must be
turned over via cell growth, formation of byproducts (such as
glycerol, lactic acid, or ethanol) or oxidation using molecular
oxygen. Without this NAD(P)H turnover requirement, anaerobic
organisms can have higher energy yield, lower oxygen demand, lower
heat of fermentation, and lower utility costs to run the process.
Third, due to the lack of oxygen in the system, anaerobic organisms
can have greater isoprene concentration in the offgas, lower
probability of creating a flammable isoprene-oxygen mixture, easier
recovery, and higher isoprene quality. Fourth, the anaerobic
organisms can be more easily grown by using existing
infrastructure, such as existing plants designed for production of
bioethanol.
[0588] Anaerobic organisms useful for isoprene production can
include obligate anaerobes, facultatitive anaerobes, and
aerotolerant anaerobes. The obligate anaerobes can be any one or
combination selected from the group consisting of Clostridium
ljungdahlii, Clostridium autoethanogenum, Eurobacterium limosum,
Clostridium carboxydivorans, Peptostreptococcus productus, and
Butyribacterium methylotrophicum. Syngas useful as energy source
for production of isoprene can be derived from a feedstock by a
variety of processes, including methane reforming, coal
liquefaction, co-firing, fermentative reactions, enzymatic
reactions, and biomass gasification.
Exemplary Purification Methods
[0589] In some embodiments, any of the methods described herein
further include recovering the co-produced compounds. In some
embodiments, any of the methods described herein further include
recovering the isoprene. In some embodiments, any of the methods
described herein further include recovering the hydrogen by
cryogenic membrane, adsorption matrix-based separation methods.
[0590] The isoprene and hydrogen produced using the compositions
and methods described herein can be recovered using standard
techniques. such as gas stripping, membrane enhanced separation,
fractionation, adsorption/desorption, pervaporation, thermal or
vacuum desorption of isoprene from a solid phase, or extraction of
isoprene immobilized or absorbed to a solid phase with a solvent
(see, for example, U.S. Pat. Nos. 4,703,007, 4,570,029, and
4,740,222 ("Recovery and Purification of Hydrogen from Refinery and
Petrochemical Off-gas Streams") which are each hereby incorporated
by reference in their entireties, particularly with respect to
isoprene recovery and purification methods ('007 and '029 patents)
and with respect to hydrogen recovery and purification methods
('222 patent)). In particular embodiments, extractive distillation
with an alcohol (such as ethanol, methanol, propanol, or a
combination thereof) is used to recover the isoprene. In some
embodiments, the recovery of isoprene involves the isolation of
isoprene in a liquid form (such as a neat solution of isoprene or a
solution of isoprene in a solvent). Gas stripping involves the
removal of isoprene vapor from the fermentation off-gas stream in a
continuous manner. Such removal can be achieved in several
different ways including, but not limited to, adsorption to a solid
phase, partition into a liquid phase, or direct condensation (such
as condensation due to exposure to a condensation coil or do to an
increase in pressure). In some embodiments, membrane enrichment of
a dilute isoprene vapor stream above the dew point of the vapor
resulting in the condensation of liquid isoprene. In some
embodiments, the isoprene is compressed and condensed.
[0591] The recovery of isoprene may involve one step or multiple
steps. In some embodiments, the removal of isoprene vapor from the
fermentation off-gas and the conversion of isoprene to a liquid
phase are performed simultaneously. For example, isoprene can be
directly condensed from the off-gas stream to form a liquid. In
some embodiments, the removal of isoprene vapor from the
fermentation off-gas and the conversion of isoprene to a liquid
phase are performed sequentially. For example, isoprene may be
adsorbed to a solid phase and then extracted from the solid phase
with a solvent.
[0592] The recovery of hydrogen may involve one step or multiple
steps. In some embodiments, the removal of hydrogen gas from the
fermentation off-gas and the conversion of hydrogen to a liquid
phase are performed simultaneously. In some embodiments, the
removal of hydrogen gas from the fermentation off-gas and the
conversion of hydrogen to a liquid phase are performed
sequentially. For example, hydrogen may be adsorbed to a solid
phase and then desorbed from the solid phase by a pressure swing.
In some embodiments, recovered hydrogen gas is concentrated and
compressed.
[0593] In some embodiments, any of the methods described herein
further include purifying the isoprene. For example, the isoprene
produced using the compositions and methods described herein can be
purified using standard techniques. Purification refers to a
process through which isoprene is separated from one or more
components that are present when the isoprene is produced. In some
embodiments, the isoprene is obtained as a substantially pure
liquid. Examples of purification methods include (i) distillation
from a solution in a liquid extractant and (ii) chromatography. As
used herein, "purified isoprene" means isoprene that has been
separated from one or more components that are present when the
isoprene is produced. In some embodiments, the isoprene is at least
about 20%, by weight, free from other components that are present
when the isoprene is produced. In various embodiments, the isoprene
is at least or about 25%, 30%, 40%, 50%, 60%, 70%, 75%, 80%, 90%,
95%, or 99%, by weight, pure. Purity can be assayed by any
appropriate method, e.g., by column chromatography, HPLC analysis,
or GC-MS analysis.
[0594] In some embodiments, any of the methods described herein
further include purifying the hydrogen. For example, the hydrogen
produced using the compositions and methods described herein can be
purified using standard techniques. Purification refers to a
process through which hydrogen is separated from one or more
components that are present when the hydrogen is produced. In some
embodiments, the hydrogen is obtained as a substantially pure gas.
In some embodiments, the hydrogen is obtained as a substantially
pure liquid. Examples of purification methods include (i) cryogenic
condensation and (ii) solid matrix adsorption. As used herein,
"purified hydrogen" means hydrogen that has been separated from one
or more components that are present when the hydrogen is produced.
In some embodiments, the hydrogen is at least about 20%, by weight,
free from other components that are present when the hydrogen is
produced. In various embodiments, the hydrogen is at least or about
25%, 30%, 40%, 50%, 60%, 70%, 75%, 80%, 90%, 95%, or 99%, by
weight, pure. Purity can be assayed by any appropriate method,
e.g., by column chromatography or GC-MS analysis.
[0595] In some embodiments, at least a portion of the gas phase
remaining after one or more recovery steps for the removal of
isoprene is recycled by introducing the gas phase into a cell
culture system (such as a fermentor) for the production of
isoprene.
[0596] Methods and apparatus for the purification of a bioisoprene
composition from fermentor off-gas is described in U.S. Provisional
Patent Application No. 61/88,142, filed Dec. 18, 2009, which is
incorporated herein by reference in its entirety.
[0597] A bioisoprene composition from a fermentor off-gas may
contain bioisoprene with volatile impurities and bio-byproduct
impurities. In some embodiments, a bioisoprene composition from a
fermentor off-gas is purified using a method comprising: (a)
contacting the fermentor off-gas with a solvent in a first column
to form: an isoprene-rich solution comprising the solvent, a major
portion of the isoprene and a major portion of the bio-byproduct
impurity; and a vapor comprising a major portion of the volatile
impurity; (b) transferring the isoprene-rich solution from the
first column to a second column; and (c) stripping isoprene from
the isoprene-rich solution in the second column to form: an
isoprene-lean solution comprising a major portion of the
bio-byproduct impurity; and a purified isoprene composition.
[0598] FIG. 169 illustrates an exemplary method of purifying
isoprene and an exemplary apparatus. Fermentor off-gas comprising
isoprene may be generated from renewable resources (e.g., carbon
sources) by any method in the art for example, as described in U.S.
provisional patent application Nos. 61/187,944, the content of
which is hereby incorporated by reference, particularly with
respect to the methods of generating fermentor off-gas comprising
isoprene. The fermentor off-gas generated from one or more
individual fermentors 12 (e.g., 1, 2, 3, 4, 5, 6, 7, 8, or more
fermentors connected in series and/or in parallel) may be directed
to a first column 14. As described below, the fermentor off-gas may
be directed through an isolation unit 16 and/or compressed by a
compression means, such as compression system 18. Additionally, the
temperature of the fermentor off-gas may optionally be reduced at
any point, for example, to form a condensate or partial condensate
prior to contact with the solvent (which may aid in solubilization
of one or more off-gas components, such as isoprene). The fermentor
off-gas may be contacted (e.g., absorbed) at column 14 with a
solvent (e.g., any solvent described herein, such as a non-polar
high boiling-point solvent). The volatile impurities having less
propensity for absorption in the solvent (particularly with
non-polar high boiling-point solvents) are separated from the
remaining solvent/fermentor off-gas mixture, resulting in a vapor
comprising a major portion of the volatile impurity (e.g., exiting
at port 20), and an isoprene-rich solution having a major portion
of the isoprene and a major portion of the bio-byproduct impurity
(e.g., at port 22). The solvent may optionally be heated by any
suitable means (e.g., by steam) prior to, simultaneously, and/or
after contact with the fermentor off-gas, which may aid in
separation of the volatile impurity from the remaining solution.
Steam may be directed through the column (at any suitable location,
such as near entry of the off-gas and/or the opposite end of the
volatile impurity exit as shown in FIG. 169) to provide a sweeping
vapor phase which may aid in the removal of the volatile
impurity.
[0599] The isoprene-rich solution having a major portion of the
isoprene and a major portion of the bio-byproduct impurity (e.g.,
at port 22) may be directed to a second column 24. The second
column may be isolated from the first column 14 (as shown in FIG.
169) or may be part of a single column comprising both the first
and second columns (e.g., a tandem column wherein the solvent
enters the first column at or near one end, and exits the second
column at or near an opposite end). The isoprene may be stripped
from the isoprene-rich solution in the second column to generate a
purified isoprene composition (e.g., at port 26) and an
isoprene-lean solution comprising a major portion of the
bio-byproduct impurity (e.g., at port 28). The isoprene-rich
solution may be heated by any suitable means (e.g., by steam),
which may aid in stripping of the isoprene from the remaining
solution. Steam may be directed through the column (at any suitable
location, such as the opposite end of the entry point of the
isoprene-rich solution and/or the near the end of the isoprene-lean
solution exit as shown in FIG. 169).
[0600] As described herein, the columns may be conventional and of
any suitable size. Exemplary types of columns are commercially
available from manufacturers including Koch Modular Process Systems
(Paramus, N.J.), Fluor Corporation (Irving, Tex.), Kuhni USA (Mount
Holly, N.C.). In general, columns are designed to maximize
vapor/liquid contact in order to achieve the desired efficiency.
This is achieved by filling the column with either a packing
material, or trays spaced at regular intervals along the column.
Suitable packing materials include both random and structured types
based on metal, glass, polymer and ceramic materials. Exemplary
random packing types include Raschig rings, Pall rings, A-PAK
rings, Saddle rings, Pro-Pak, Heli-Pak, Ceramic saddles and
FLEXIRINGS.RTM.. Structured packings include wire mesh and
perforated metal plate type materials. Manufacturers specializing
in column packings include ACS Separations & Mass-Transfer
Products (Houston, Tex.), Johnson Bros. Metal Forming Co.
(Berkeley, Ill.) and Koch Glitsch, Inc. Knight Div. (East Canton,
Ohio). The efficiency of a gas stripping column is expressed in
terms of the theoretical plate height and the total number of
plates in the column. In general, the greater the number of
theoretical plates present, the greater the efficiency of the
column. Laboratory scale columns can be purchased from Ace Glass
(Vineland, N.J.), Sigma-Aldrich (St. Louis, Mo.) and Chemglass
(Vineland, N.J.). Suitable types of glass column include Vigreux,
Snyder, Hemple and Perforated-plate type columns. Columns can
include packing materials, or contain features designed to maximize
vapor/liquid contact. A laboratory scale gas scrubber unit (part
#CG-1830-10) is available from Chemglass and consists of a packed
glass column, solvent reservoir and solvent recirculation pump.
[0601] The purified isoprene composition from the second column 24
(e.g., exiting at port 26) may be further purified by any suitable
means (e.g., by using a reflux condenser 34 and/or an adsorption
system 36, such as a silica adsorption system). The reflux reduces
the solvent composition in the isoprene product. The isoprene-lean
solution may be recycled back to the first column for reuse (e.g.,
as shown in FIG. 169 at port 30). The isoprene-lean solution may be
purified by any suitable means (e.g., by liquid-liquid extraction
and/or an adsorption system 32, such as a silica adsorption system)
prior to recycling to the first column 14 to reduce to amount of
bio-byproduct. Additionally, the temperature of the isoprene-lean
solution may be reduced by any suitable means prior to recycling to
the first column 14 (e.g., prior to, simultaneously, and/or after
optionally purifying the isoprene solution). FIG. 169 shows an
example of reducing the temperature of the isoprene-lean solution
at port 40 prior to purification of the isoprene-lean solution (in
this case, using coolant for temperature reduction).
[0602] The vapor comprising a major portion of the volatile
impurity (e.g., the vapor exiting at port 20 in FIG. 169) may
comprise a minor portion of isoprene (e.g., residual isoprene not
remaining in the isoprene-rich solution). The residual isoprene may
be recollected for use from the vapor comprising a major portion of
the volatile impurity by any suitable means (e.g., an adsorption
system 38, such as an activated carbon adsorption system) and in
some cases, as shown in FIG. 169, may be combined with the purified
isoprene composition (e.g., prior to, during, or after additional
purification, such as an adsorption system similar to system 36).
FIG. 169 also shows an optional capture device 42 (e.g., a thermal
oxidizer and/or CO.sub.2 capture system) capable of reducing the
amount of undesirable components released into the atmosphere
(e.g., CO.sub.2) from the vapor.
Exemplary Chemical Transformations of Isoprene
[0603] Although current industrial use of isoprene is predominantly
in the production of synthetic rubber, isoprene is a reactive
conjugated diene and undergoes a varieties of chemical
transformations to form oxygenates and higher molecular weight
hydrocarbons. For example, Palladium(0) complexes
(Pd(acac).sub.2-Ph.sub.3P and Pd(OAc).sub.2-Ph.sub.3P) catalyze
dimerization and telomerization of isoprene in alcohol solvents to
give linear isoprene dimers (e.g. 2,7-dimethyl-1,3,7-octatriene)
and methoxydimethyloctadienes (Zakharkin, L. I. and Babich, S. A.
Russ. Chem. Bull. (1976), pp 1967-1968.) Adams, J. M. and Clapp, T.
V. (Clay and Clay Minerals (1986), 34(3), 287-294) reported
reactions of isoprene over divalent and trivalent transition
metal-exchanged montmorillonites (e.g. Cr.sup.3+-montmorillonite)
to give isoprene dimers and adducts with methanol. The linear
dimerization of isoprene catalyzed by Ni(0)-aminophosphinite
systems resulted in regioselective tail-to-tail linear dimers,
accompanied by a competitive cyclodimerization reaction (Denis,
Philippe; Croizy, Jean Francois; Mortreux, Andre; Petit, Francis,
Journal of Molecular Catalysis (1991), 68(2), 159-75. Denis,
Philippe; Jean, Andre; Croizy, Jean Francois; Mortreux, Andre;
Petit, Francis, Journal of the American Chemical Society (1990),
112(3), 1292-4.) New chiral aminophosphinite ligands, e.g.,
(+)-MeCH.sub.2CHMeCH(NH.sub.2)CH.sub.2OPPh.sub.2 was investigated
as homogeneous catalysts in the linear dimerization of isoprene,
leading to a conversion rate above 50% (Masotti, Henriette;
Peiffer, Gilbert; Siv, Chhan; Courbis, Pierre; Sergent, Michelle;
Phan Tan Luu, Roger, Bulletin des Societes Chimiques Belges (1991),
100(1), 63-77.)
[0604] Thermal dimerization of isoprene at 110-250.degree. in
presence of dinitrocresol as polymerization inhibitor gives high
yields of dimers and little polymer (U.S. Pat. No. 4,973,787.)
Ni-catalyzed dimerization of isoprene yields a
dimethyl-1,5-cyclooctadiene mixture consisting of 80%
1,5-dimethyl-1,5-cyclooctadiene and 20%
1,6-dimethyl-1,5-cyclooctadiene (Doppelt, Pascal; Baum, Thomas H.;
Ricard, Louis, Inorganic Chemistry (1996), 35(5), 1286-91.)
Isoprene is converted to dimethylcyclooctadienes with a catalytic
amt. of Cp*Ru(.eta.4-isoprene)C1 and AgOTf (Itoh, Kenji; Masuda,
Katsuyuki; Fukahori, Takahiko; Nakano, Katsumasa; Aoki, Katsuyuki;
Nagashima, Hideo, Organometallics (1994), 13(3), 1020-9.)
JP59065026A (1984) reported preparation of
1,6-dimethyl-1,5-cyclooctadiene by cyclic dimerization of isoprene
in the presence of catalysts comprising Fe carboxylates or
.beta.-diketone compounds, organo-Al or Mg compounds, and
2,2'-dipyridyl derivatives having electron-donating groups.
Dimethylcyclooctadiene was prepared by cyclodimerization of
isoprene over 3-component catalysts containing Ni carboxylates or
.beta.-ketones, organoaluminum or organomagnesium compounds and
substituted triphenylphosphite (JP58055434A, 1983.)
1,5-Dimethyl-1,5-cyclooctadiene was prepared by cyclodimerization
of isoprene at 100-300.degree. in an inert organic solvent in the
presence of a homogeneous catalyst containing Fe(3) salt,
organoaluminum compound and an activator (SU615056A1, 1978), in the
presence of a homogeneous catalyst containing Ni acetylacetonate, a
triarylphosphite and perhydroalumophenolene (SU493455A1, 1975), in
the presence of a catalyst containing a mixture of a Ni carboxylate
or carboxylate or chelate compounds of Ni and 1-hydroxy-3-carbonyl
compounds, trialkylaluminum, dialkylmagnesium or active organo-Mg
compounds obtained from conjugated dienes and Mg, triaryl
phosphites and tertiary amines (JP48064049A, 1973), or in the
presence of a catalyst composed of Ni naphthenate, Et.sub.3Al, and
tri-o-cresyl phosphate (Suga, K.; Watanabe, S.; Fujita, T.;
Shimada, T., Israel Journal of Chemistry (1972), 10(1), 15-18.)
U.S. Pat. No. 3,954,665 disclosed dimerization of isoprene in the
presence of reaction products of [(.eta.3-C6H5)NiBr].sub.2 or
[M(NO).sub.2X].sub.2 (M=Fe, Co; X.dbd.Cl, I, Br) with Fe, Co, or Ni
carbonyls. European Patent No. 2411 (1981) disclosed
cyclodimerization of isoprene over a
Fe(NO).sub.2C1-bis(1,5-cyclooctadiene)nickel catalyst at from
-5.degree. to +20.degree. to give 1-methyl- and
2-methyl-4-isopropenyl-1-cyclohexene and 1,4- and
2,4-dimethyl-4-vinyl-1-cyclohexene. U.S. Pat. No. 4,189,403
disclosed preparation of 1,5-dimethyl-1,5-cyclooctadiene and
1,4-dimethyl-4-vinyl-1-cyclohexene by contacting isoprene with a
mixed catalyst of a tris(substituted hydrocarbyl)phosphite,
arsenite, or antimonite and a Group VIII metal(0) compound (e.g. Ni
acetylacetonate). Jackstell, R.; Grotevendt, A.; Michalik, D.; El
Firdoussi, L.; Beller, M. J. Organometallic Chem. (2007) 692(21),
4737-4744 cites the use of palladium/carbene catalysts for isoprene
dimerization. Bowen, L.; Charernsuk, M.; Wass, D. F. Chem. Commun.
(2007) 2835-2837 describes the use of a chromium
N,N-bis(diarylphosphino)amine catalyst for the production of linear
and cyclic trimers of isoprene.
[0605] Isoprene was reportedly dimerized in the presence of a Ni
catalyst to yield cis-2-isopropenyl-1-methylvinylcyclobutane
(Billups, W. E.; Cross, J. H.; Smith, C. V., Journal of the
American Chemical Society (1973), 95(10), 3438-9.) The
oligomerization of isoprene [78-79-5] catalyzed by nickel
naphthenate and isoprenemagnesium in the presence of various
phosphites as electron donors gave cyclic dimers containing
dimethylcyclooctadiene [39881-79-3]; in particular
1,1,1-tris(hydroxymethyl)propane phosphite [39865-19-5] gave
trimethylcyclododecatriene [39881-80-6] selectively (Suga, Kyoichi;
Watanabe, Shoji; Fujita, Tsutomu; Shimada, Takashi, Journal of
Applied Chemistry & Biotechnology (1973), 23(2), 131-8.)
WO2006/051011 discloses preparation of trimethylcyclododecatriene,
useful in perfumes and fragrances, by the trimerization of isoprene
in the presence of a catalyst system comprising Ni and/or Ti, one
or more organometallic compound, and a Group VA compound, and that
the reaction is conducted in a hydroxyl group-containing solvent.
Ligabue, R. A.; Dupont, J.; de Souza, R. F., Alegre, R. S. J. Mol.
Cat. A: Chem. (2001), 169(1-2), 11-17, describes the selective
dimerization of isoprene to six-membered dimers using an iron
nitrosyl catalyst in an ionic liquid. Huchette, D.; Nicole, J.;
Petit, F., Tetrahedron Letters (1979), (12), 1035-8, describes the
electrochemical generation of an iron nitrosyl catalyst and
subsequent use for the dimerization of isoprene to cyclohexene
dimers. Zakharkin, L. I.; Zhigareva, G. G.; Pryanishnikov, A. P.
Zhurnal Obshchei Khimii (1987), 57(11), 2551-6, describes the
cyclooligomerization of isoprene on complex nickel and iron
catalysts.
[0606] The highly pure isoprene starting compositions described
herein are chemically transformed using each catalyst systems and
reaction conditions disclosed in the references cited. Other
catalysts and reaction conditions known in the art such as
catalysts and reaction conditions applied to chemical
transformations of 1,3-butadiene can be adapted to the isoprene
starting compositions by one skilled in the art.
Dimerization and Trimerization
[0607] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes catalytic chemical
transformation to give dimers and trimers. Catalyst systems are
identified using methods known in the art. Preferred catalysts
include those known to convert isoprene to dimers and trimers with
high efficiency. Examples include those based upon Palladium,
Nickel, Cobalt, Iron and Chromium.
[0608] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes thermal or
catalytic dimerization. The isoprene starting composition is
converted to a mixture of dimers that includes unsaturated 6 and
8-membered rings by heating the starting composition under
pressure. In some embodiments, the starting isoprene composition is
heated to over or about 100, 125, 150, 175, 200, 225 or 250.degree.
C. under pressure. In some embodiments, the starting isoprene
composition is heated in the presence of an antioxidant (e.g.
2,6-di-tert-butyl-4-methylphenol) to prevent radical-mediated
polymerization. In some embodiments, the reaction is accelerated by
one or more catalysts selected from catalysts known in the art for
catalyzing cyclic dimerization of isoprene, e.g., iron nitrosyl
halide catalysts described in U.S. Pat. Nos. 4,144,278, 4,181,707,
5,545,789 and European patent EP0397266A2. The use of iron nitrosyl
catalysts in ionic liquids is described by Ligabue et al. (2001) J.
Mol. Catalysis A: Chemical, 169 (2), 11-17. Examples of catalysts
include but are not limited to Fe(NO).sub.2Cl.sub.2 and
Cr.sup.3+-montmorillonite. In another example, an isoprene starting
composition is converted to C10 cyclic dimers (e.g. a mixture of
dimethyl-cyclooctadienes) using a ruthenium catalyst (Itoh, Kenji;
Masuda, Katsuyuki; Fukahori, Takahiko; Nakano, Katsumasa; Aoki,
Katsuyuki; Nagashima, Hideo, Organometallics (1994), 13(3),
1020-9.)
[0609] In a specific embodiment, a isoprene starting composition in
a liquid state is heated to over 100.degree. C. under pressure and
in the presence of an antioxidant to produce a mixture of dimers
that includes 6 and 8-membered rings, for examples, limonene
(1-methyl-4-(prop-1-en-2-yl)cyclohex-1-ene),
1-methyl-5-(prop-1-en-2-yl)cyclohex-1-ene,
1,4-dimethyl-4-vinylcyclohexene, 2,4-dimethyl-4-vinylcyclohexene,
1,5-dimethylcycloocta-1,5-diene, 1,6-dimethylcycloocta-1,5-diene,
2,6-dimethyl-1,3-cyclooctadiene, 2,6-dimethyl-1,4-cyclooctadiene,
3,7-dimethyl-1,5-cyclooctadiene, 3,7-dimethyl-1,3-cyclooctadiene,
3,6-dimethyl-1,3-cyclooctadiene and other 8-membered ring isoprene
dimers as described in Organometallics (1994), 13(3), 1020-9. All
stereoisomers of these compounds are contemplated. Conversion of
isoprene to dimers is best performed in the absence of oxygen so as
to avoid the production of undesirable reaction products.
[0610] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes photo-dimerization
to give 4-membered ring dimers. The isoprene starting composition
is converted by light irradiation to a mixture comprising one or
more of 1,2-di(prop-1-en-2-yl)cyclobutane,
1,3-di(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-3-(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-2-(prop-1-en-2-yl)cyclobutane,
1,3-dimethyl-1,3-divinylcyclobutane,
1,2-dimethyl-1,2-divinylcyclobutane and stereoisomers thereof. In
some embodiments, the highly pure isoprene starting material is
dimerized in the presence of a catalyst (e.g. a nickel catalyst) or
a photosensitizer (e.g. benzophenone) to yield 4-membered ring
dimers, e.g. cis-2-isopropenyl-1-methylvinylcyclobutane, in
addition to 6- and 8-membered rings [See: Hammond, J. S.; Turro, N.
J.; Liu, R. S. H. (1963) "Mechanisms of Photochemical Reactions in
Solution. XVI. Photosensitized Dimerization of Conjugated Dienes.
J. Org. Chem., 28, 3297-3303.]
[0611] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material is converted to a cyclic
trimer in the presence of a catalyst system. In some embodiments,
the cyclic trimer is trimethylcyclododecatriene. In some
embodiments, the catalyst system comprises a nickel catalyst. In
some embodiments, the catalyst system comprises a titanium
compound. In some embodiments, the catalyst system comprises a
nickel catalyst and a titanium compound. In some embodiments, the
catalyst system comprises one or more organometallic compound and a
Group VA compound. In some embodiments, the catalytic
transformation is conducted in a hydroxyl group-containing solvent.
In a particular embodiment, a starting isoprene composition is
converted to trimethylcyclododecatriene in the presence of a
catalyst system comprising Ni and/or Ti, one or more organometallic
compound, and a Group VA compound, and that the reaction is
conducted in a hydroxyl group-containing solvent.
[0612] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes thermal or
catalytic conversion to hydrocarbons in the C7 to C14 range by
treatment with a C2 to C5 unsaturated hydrocarbon. The C2 to C5
hydrocarbon can be an alkene, a diene or an alkyne. For example, in
some embodiments, isoprene is contacted with ethylene and an
appropriate catalyst to produce C7 compounds. In another
embodiment, isoprene is contacted with 1,3-butadiene to form cyclic
C9 hydrocarbons. Hydrogenation of these C7 to C14 hydrocarbons
results in compositions suitable for use as jet fuels and other
aviation fuels. In yet another embodiment, unsaturated C7 to C14
hydrocarbons derived from isoprene and one or more unsaturated
hydrocarbons undergo dehydrogenation to form aromatic derivatives
suitable for use as jet fuels and other aviation fuels, or as
blendstocks for such fuels.
[0613] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material is converted to a mixture of
linear dimers and trimers using a catalyst system in alcohol
solvents. This reaction also produces alkoxy derivatives when
performed in methanol or ethanol. In some embodiments, the catalyst
system is a palladium-based catalyst system, e.g., a palladium
acetylacetonate-triphenylphosphine system or a palladium
acetate-triphenylphosphine system. In some embodiments, the alcohol
solvent is methanol, ethanol or isopropyl alcohol. The nature of
the products depends on the catalyst and the solvent used. For
example, when a palladium-based catalyst system, e.g.,
Pd(acac).sub.2-Ph.sub.3P or Pd(OAc).sub.2-Ph.sub.3P, is used in
isopropyl alcohol solvent, linear dimers of isoprene is formed,
e.g. 2,7-dimethyl-1,3,7-octatriene and
2,7-dimethyl-2,4,6-octatriene. When this reaction is performed in
methanol, methoxydimethyloctadienes (e.g.,
1-methoxy-2,7-dimethyl-2,7-octadiene and
3-methoxy-2,7-dimethyl-1,7-octadiene) are formed in addition to
linear isoprene dimers such as dimethyloctatrienes. Some reactions
produce linear trimers of isoprene, such as .alpha.-farnesene
(3,7,11-trimethyl-1,3,6,10-dodecatetraene), .beta.-farnesene
(7,11-dimethyl-3-methylene-1,6,10-dodecatriene) and other
positional isomers (e.g. from tail to tail and head to head
addition of isoprene units). In another example, isoprene is
converted to linear and cyclic C15 trimers using a chromium
N,N-bis(diarylphosphino)amine catalyst (Bowen, L.; Charernsuk, M.;
Wass, D. F. Chem. Commun. (2007) 2835-2837.)
Conversion to Oxygenates
[0614] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material is converted to fuel
oxygenates by reaction with ethanol and other alcohols in the
presence of an acid catalyst. In one embodiment, the acid catalyst
is sulfuric acid. In another embodiment, the acid catalyst is a
solid phase sulfuric acid (e.g., Dowex Marathon.RTM.). Other
catalysts include both liquid and solid-phase fluorosulfonic acids,
for example, trifluoromethanesulfonic acid and Nafion-H (DuPont).
Zeolite catalysts can also been used, for example beta-zeolite,
under conditions similar to those described by Hensel et al.
[Hensen, K.; Mahaim, C.; Holderich, W. F., Applied Catalysis A:
General (1997) 140(2), 311-329.] for the methoxylation of limonene
and related monoterpenes. In some embodiments, a highly pure
isoprene starting material is converted to alcohols and esters by a
hydroxylation/esterification process or other known reaction of
alkenes in the art, for example peroxidation to epoxides with
peracids such as peracetic acid and 3-chloroperbenzoic acid; and
hydration to give alcohols and diols with i) water and acid
catalysts and ii) hydroboration methods. Such reactions are
described in, for example, Michael B. Smith and Jerry March,
Advanced Organic Chemistry: Reactions, Mechanisms, and Structure,
Sixth Edition, John Wiley & Sons, 2007. FIGS. 3 and 4 show
examples of alcohols and oxygenates that can be produced from the
starting isoprene compositions.
Partial Hydrogenation
[0615] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material is partially hydrogenated to
a mono-olefin (e.g. 2-methylbut-1-ene, 3-methyl-but-1-ene and
2-methylbut-2-ene). In some embodiments, the mono-olefin undergoes
dimerization or reaction with other olefins using traditional
hydrocarbon cationic catalysis, such as that used to covert
isobutylene to isooctane. See, for example, H. M. Lybarger.
Isoprene in Kirk-Othmer Encyclopedia of Chemical Technology, 4th
ed., Wiley, New York (1995), 14, 934-952. In some preferred
embodiments, the highly pure isoprene starting material is a
bioisoprene composition.
[0616] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes partial
hydrogenation to form mono-olefins (e.g. 2-methylbut-1-ene,
3-methyl-but-1-ene and 2-methylbut-2-ene). In some preferred
embodiments, the highly pure isoprene starting material is a
bioisoprene composition. In some embodiments, partial hydrogenation
of the isoprene starting material produces high yields of
mono-olefins with minimal conversion to isopentane and low residual
isoprene levels. In some embodiments, a mixture of mono-olefin and
isopentane is produced, with low levels of residual isoprene. In
some embodiments, the partial hydrogenation is selective
hydrogenation where a particular mono-olefin such as
2-methylbut-2-ene, 2-methylbut-1-ene, or 3-methylbut-1-ene is
preferentially produced. Preferred hydrogenation catalysts give
high catalytic activity, maintain catalytic activity over time, and
are highly selective for the conversion of isoprene to
mono-olefins.
[0617] Suitable catalysts for partial hydrogenation of the isoprene
starting composition may contain a platinum-group metal such as
platinum, palladium, rhodium, or ruthenium, or a transition metal
such as nickel, cobalt, copper, iron, molybdenum, or a noble metal
such as silver or gold in elemental form, or a salt or complex with
organic and inorganic ligands. Alloys of these metals can also be
used in some circumstances. These metals and their derivatives can
be pure or mixed with other active and inert materials. Catalysts
may be adsorbed to a support material (such as activated carbon,
alumina, or silica) in order to maximize the effective surface
area. The physical morphology of hydrogenation catalysts is known
to have a considerable influence on their performance. Preferred
hydrogenation catalysts include heterogeneous palladium catalysts
such as palladium on carbon (Pd/C), palladium on alumina
(Pd/Al.sub.2O.sub.3), or palladium on silica (Pd/SiO.sub.2) in
grades ranging from 0.1% Pd to 20% Pd (w/w) relative to the support
material. An example of a suitable selective hydrogenation catalyst
is LD 2773, a sulfur tolerant promoted Pd on alumina (Axens,
Rueil-Malmaison Cedex, France). Partial hydrogenation catalysts
that allow the conversion of isoprene into isoamylenes with minimal
conversion to isopentane include the Lindlar catalyst
(Pd/BaSO.sub.4 treated with quinoline), Pd/C treated with the
triphenyl derivative of a group 15 element (N, P, As), Pd/C treated
with a sulfur-containing compound, molybdenum sulfide, and Pd/Fe
alloys. One preferred catalyst comprises palladium adsorbed to
egg-shell alumina (.delta.-Al.sub.2O.sub.3). Catalysts used in the
refining industry for the removal of diolefins and alkynes from
pyrolysis gasoline are particularly preferred, for example
Ni/Al.sub.2O.sub.3 and Pd/Al.sub.2O.sub.3 based catalysts. Another
suitable class of catalyst for the conversion of isoprene to
isoamylenes are those used in industry for the hydrotreating of
pyrolysis gasoline. See for example U.S. Pat. Nos. 7,014,750 and
6,9949,686, and references cited therein. In general, the catalysts
used in pyrolysis gas hydrotreament allow for selective conversion
of acetylyenes and diolefins (e.g. isoprene and piperylenes) into
monoolefins.
[0618] The hydrogen source can be hydrogen gas or a hydrogen source
including, but not limited to, hydrogen gas (H.sub.2), formic acid,
hydrazine, or isopropanol. The hydrogen source can be either
chemically or biologically derived. In some embodiments the
hydrogen used for hydrogenation is co-produced with isoprene during
fermentation. The hydrogenation can be performed at hydrogen
pressures ranging from 0.5 atm to 200 atm, or higher. The
temperature can range from 0.degree. C. to 200.degree. C.
[0619] Products from partial hydrogenation of a bioisoprene
composition are expected to contain certain impurities originally
present in the starting isoprene composition and/or hydrogenated
derivatives of the impurities such as acetone, ethanol, amyl
alcohol, ethyl acetate, isoamyl acetate, methyl ethyl ketone and
other saturated polar impurities.
[0620] In some embodiments, the isoprene starting composition
undergoes partial hydrogenation or selective hydrogenation in the
presence of a palladium catalyst. For example, palladium catalysts,
such as Pd/CaCO.sub.3, Pd/BaSO.sub.4, Pd/C, Pd black, Pd/SiO3,
Pd/Al.sub.2O.sub.3, or Pd/SiO.sub.2, were shown to convert isoprene
to mono-olefins with a selectivity of greater than 95% over fully
reduced C5 alkanes. Use of these palladium catalysts gave a mixture
of mono-olefin products, with 5% Pd/CaCO3 having the greatest
selectivity for 3-methylbut-1-ene and 5% Pd/SiO.sub.2 having the
greatest selectivity for 2-methylbut-2-ene. (See G. C. Bond and A.
F. Rawle. J. Mol. Catalysis. A: Chemical 109 (1996) 261-271.) Bond
and Rawle have also shown that palladium-gold and palladium-silver
catalysts (e.g., Pd--Au/SiO.sub.2 and Pd--Ag/SiO.sub.2) have high
selectivity for reducing isoprene to mono-olefins over fully
reduced C5 alkanes. In some embodiments, silica-supported
polyamidoamine (PAMAM) dendrimer-palladium complexes have been used
to selectively catalyze the reduction of cyclic and acyclic dienes
to a mixture of mono-olefin isomers. Selectivity for the various
mono-olefin isomers was dependent on the precise PAMAM ligand used
in the catalyst. (See P. P. Zweni and H. Alper. Adv. Synth. Catal.
348 (2006) 725-731.) In some embodiments, reduction of isoprene to
mono-olefins can be carried out using a Group VIB metal on an
inorganic support (e.g., a metal zeolite) as a catalyst. For
example, a Mo/Al.sub.2O.sub.3 catalyst was used to selectively
reduce 1,3-butadiene to the respective mono-olefins. (See U.S. Pat.
No. 6,235,954 B1.) In some embodiment, isoprene can be reduced to
mono-olefins using a Group VIII metal catalyst promoted by a metal
from Group IB, VIIB, VIIB, or zinc to reduce poisoning of the
catalyst. (See U.S. Pat. No. 6,949,686 B2). In some embodiments,
isoprene can be reduced to mono-olefins using a monolithic catalyst
bed, which may be in a honeycomb configuration. Catalyst support
materials for the monolithic catalyst bed may include metals such
as nickel, platinum, palladium, rhodium, ruthenium, silver, iron,
copper, cobalt, chromium, iridium, tin, and alloys or mixtures
thereof. (See U.S. Pat. No. 7,014,750 B2). In some embodiments,
isoprene can be reduced to mono-olefins using an eggshell
Pd/.delta.-Al.sub.2O.sub.3 catalyst, particularly if the reaction
is free of water. The eggshell Pd/.delta.-Al.sub.2O.sub.3 catalyst
is selective for mono-olefins over fully reduced alkanes and
2-methylbut-2-ene is the thermodynamically favorable isomer. (See
J.-R. Chang and C.-H. Cheng. Ind. Eng. Chem. Res. 36 (1997)
4094-4099.)
[0621] Light olefins (C3-C6) can be readily dimerized using acid
catalysts to give higher olefins (C6-C12) also known as dimate. For
example, the conversion of isobutylene (2-methylpropene) to
isooctene is well described in the art using a variety of acid
catalysts including sulfuric, phosphoric and other mineral acids,
sulfonic acids, fluorosulfonic acids, zeolites and acidic
clays.
[0622] In some embodiments, the isoprene starting composition
undergoes partial hydrogenation or selective hydrogenation to form
a mono-olefin, and the mono-olefin undergoes dimerization or
reaction with other olefins using traditional hydrocarbon cationic
catalysis, such as that used to covert isobutylene to isooctane,
e.g. sulfuric, phosphoric and other mineral acids, sulfonic acids,
fluorosulfonic acids, zeolites and acidic clays. See, for example,
H. M. Lybarger. Isoprene in Kirk-Othmer Encyclopedia of Chemical
Technology, 4th ed., Wiley, New York (1995), 14, 934-952. In some
preferred embodiments, the highly pure isoprene starting material
is a bioisoprene composition. Acid catalyst in both liquid and
solid forms can be used. Acid resins are preferred and include
Amberlyst 15, 35, XE586, XN1010 (Rohm and Haas) and similar acidic
ion-exchange resins. Acidic molecular sieves are also preferred
catalysts including a medium-pore acid molecular sieve such as
ZSM-5, ferrierite, ZSM-22 and ZSM-23.
[0623] In some embodiments, the isoprene starting composition
undergoes partial hydrogenation or selective hydrogenation to form
isoamylenes. In some embodiments, the isoamylenes are dimerized to
give C10 dimates such as isodecenes. In some embodiments, the
isoamylenes are dimerized with an olefin such as propylene, butane
or isobutene to give C8-C10 dimates. In some embodiments, the
mono-olefin undergoes dimerization using a resin catalyst (e.g.,
Amberlyst, Amberlyst 35, Amberlyst 15, Amberlyst XN1010, Amberlyst
XE586) to produce diisoamylenes. Use of such resin catalysts has
been shown to minimize cracking and further oligomerization
reactions, and under optimal conditions the resin catalysts provide
selectivity for dimers of greater than 92%, with trimer formation
of less than 8%. See, for example, M. Marchionna et al. Catalysis
Today 65 (2001) 397-403. In some embodiments, the mono-olefin
undergoes dimerization using a catalytic material containing an
acidic mesoporous molecular sieve, such as a mesoporous sieve
embedded in a zeolite structure, ZSM-5, ferrierite, ZSM-22, or
ZSM-23. In a particular embodiment, the catalytic material is
thermally stable at high temperatures (e.g., at least 900.degree.
C.). In another particular embodiment, the mono-olefin is
substantially free of multi-unsaturated hydrocarbons, such as
isoprene. Use of a catalytic material containing an acidic
mesoporous molecular sieve for dimerization can lead to selectivity
for dimers in excess of 80%. See, for example, US 2007/0191662 A1.
In some embodiments, the mono-olefin undergoes dimerization using a
solid acidic catalyst (e.g., a solid phosphoric acid catalyst,
acidic ion exchange resins). Selectivity for dimers using a solid
phosphoric acid catalyst can be at least 75%, at least 85% or at
least 90%. See, for example, US 2009/0099400 A1 and U.S. Pat. No.
6,660,898 B1.
[0624] Efficient dimerization can sometimes require the presence of
a polar component(s) such as water and oxygenated compound in the
feed stream. Examples include alcohols such as methanol, ethanol
and t-butanol, ethers such as methyl t-butyl ether (MTBE) and
methyl t-amyl ether (TAME) or an ester such as C1 to C5 acetates.
In some embodiments, isoamylenes can be converted to ethers such as
TAME by treatment with alcohols in the presence of an acid
catalyst.
[0625] In some embodiments, the C10 dimers of mono-olefins produced
by any of the methods described herein can be reduced to fully
saturated C10 alkylates (e.g., by hydrogenation). In a particular
embodiment, isoprene or a mono-olefin can be reduced to an alkylate
using a catalyst containing an acid component, such as sulfuric
acid, a fluorosulfonic acid, a perhaloalkylsulfonic acid, an ionic
liquid, or a mixture of Bronsted acids and Lewis acids, mixed with
a polymer component, such as a polyacrylate. (See US 2010/0094072
A1).
[0626] In some embodiments, a commercially beneficial amount of
highly pure isoprene starting material undergoes oligomerization in
the presence of an acid catalysts to produce dimers, trimers,
higher oligomers, aromatic products, and/or polymeric products.
Kinetic control of the reaction can favor certain products, for
example lower oligomers, although gum formation and coking are
known issues leading to catalyst deactivation.
Exemplary Unsaturated Isoprene Derivatives
[0627] In some embodiments, the compositions and systems for
producing a fuel constituent from isoprene further comprise an
unsaturated hydrocarbon or oxygenate intermediate for chemical
transformation of an isoprene starting composition to a fuel
constituent. In some embodiment, the unsaturated hydrocarbon
intermediate comprise one or more unsaturated dimers of isoprene
selected from the group consisting of
1,2-di(prop-1-en-2-yl)cyclobutane,
1,3-di(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-3-(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-2-(prop-1-en-2-yl)cyclobutane,
1,3-dimethyl-1,3-divinylcyclobutane,
1,2-dimethyl-1,2-divinylcyclobutane,
1-methyl-4-(prop-1-en-2-yl)cyclohex-1-ene),
1-methyl-5-(prop-1-en-2-yl)cyclohex-1-ene,
1,4-dimethyl-4-vinylcyclohexene, 2,4-dimethyl-4-vinylcyclohexene,
1,5-dimethylcycloocta-1,5-diene, 1,6-dimethylcycloocta-1,5-diene,
1,4-dimethyl-4-vinyl-1-cyclohexene,
2,4-dimethyl-4-vinyl-1-cyclohexene, 2,7-dimethyl-1,3,7-octatriene,
2,7-dimethyl-2,4,6-octatriene, 2,6-dimethyl-1,3-cyclooctadiene,
2,6-dimethyl-1,4-cyclooctadiene, 3,7-dimethyl-1,5-cyclooctadiene,
3,7-dimethyl-1,3-cyclooctadiene and
3,6-dimethyl-1,3-cyclooctadiene. In some embodiments, the
unsaturated hydrocarbon intermediate comprises one or more
unsaturated trimers such as .alpha.-farnesene, .beta.-farnesene,
trimethylcyclododecatrienes (e.g.
1,5,9-trimethyl-(1E,5E,9E)-cyclododecatriene and positional and
geometric isomers thereof) and trimethyldodecatetraenes and the
like. In some embodiments, the unsaturated oxygenate intermediate
comprise one or more unsaturated methyl ethers such as
1-methoxy-2,7-dimethyl-2,7-octadiene and
3-methoxy-2,7-dimethyl-1,7-octadiene and the like. In some
embodiments, the unsaturated oxygenate intermediate comprise one or
more unsaturated ethyl ethers such as ethyl 3-methyl-3-butenyl
ether, ethyl 1,1-dimethyl-2-propenyl ether, ethyl
1,2-dimethyl-2-propenyl ether, ethyl 2-methyl-3-butenyl ether and
the like. In some embodiments, the unsaturated oxygenate
intermediate comprise one or more unsaturated alcohols such as
3-methyl-3-buten-1-ol, 2-methyl-3-buten-2-ol,
3-methyl-3-buten-2-ol, 2-methyl-3-buten-1-ol and the like. In some
embodiments, the unsaturated oxygenate intermediate comprise one or
more unsaturated esters such as 3-methyl-3-buten-1-yl acetate,
2-methyl-3-buten-2-yl acetate, 3-methyl-3-buten-2-yl acetate,
2-methyl-3-buten-1-yl acetate and esters of other C.sub.3-C.sub.18
aliphatic carboxylic acids. In some embodiment, the unsaturated
hydrocarbon intermediate comprise one or more isoamylenes, e.g.
2-methylbut-1-ene, 3-methyl-but-1-ene and 2-methylbut-2-ene. In
some embodiments, the unsaturated hydrocarbon intermediate comprise
on or more diisoamylenes derived from dimerization of
isoamylenes.
##STR00001##
##STR00002##
##STR00003##
##STR00004##
##STR00005##
##STR00006##
Exemplary Hydrogenation of Unsaturated Intermediates
[0628] The unsaturated isoprene derivatives are subject
hydrogenation in the presence of a hydrogenation catalyst to
produce saturated compounds. The saturated compounds are
characterized and their values as fuels are assessed. In some
embodiments, the hydrogen source for hydrogenation is hydrogen gas.
In some embodiments, the hydrogen gas is co-produced with the
bioisoprene as described in U.S. provisional patent application No.
61/141,652, filed on Dec. 30, 2008 and US 2009/0203102 A1. In some
embodiments, the hydrogenation catalyst is a palladium based
catalyst such as Pd/C (e.g. 5% (wt.) Pd/C). In some embodiments,
the hydrogenation catalyst is a Raney Nickel catalyst. In some
embodiments, the hydrogenation catalyst is a homogenous catalyst
such as ruthenium or rhodium based homogenous hydrogenation
catalysts. In some embodiments, unsaturated isoprene dimers and
trimers are hydrogenated to produce saturated C10 and C15
hydrocarbons suitable for making fuels. In some embodiments,
unsaturated cyclic dimers are hydrogenated to produce saturated
cyclic C10 hydrocarbons such as 1,2-bis(isopropyl)cyclobutane,
1,2-bis(isopropyl)cyclobutane, 1-methyl-4-isopropylcyclohexane,
1-methyl-3-isopropylcyclohexane, 1-ethyl-1,4-dimethylcyclohexane,
1-ethyl-1,3-dimethylcyclohexane, 1,5-dimethylcyclooctane and
1,4-dimethylcyclooctane. In some embodiments, unsaturated cyclic
trimers are hydrogenated to produce saturated cyclic C15
hydrocarbons such as 1,5,9-trimethylcyclododecane and
1,5,10-trimethylcyclododecane (see Scheme VII). In some
embodiments, unsaturated linear dimers are hydrogenated to produce
saturated aliphatic C10 hydrocarbons such as 2,6-dimethyloctane,
2,7-dimethyloctane and 3,6-dimethyloctane. In some embodiments,
unsaturated linear trimers are hydrogenated to produce saturated
aliphatic C15 hydrocarbons such as 2,6,10-trimethyldodecane,
2,7,10-trimethyldodecane and 3,7,10-trimethyldodecane (see Scheme
VIII). In some embodiments, the product of the dimerization of
isoamylenes (diamylenes or C10 dimates) are fully hydrogenated to
isoparaffins (e.g. 2,3,4,4-tetramethylhexane,
2,2,3,4-tetramethylhexane, 2,3,3,4-tetramethylhexane and
3,3,5-trimethylheptane) (see Scheme VIIIa). In some embodiments, a
commercially beneficial amount of highly pure isoprene starting
composition is hydrogenated to produce a product comprising
2-methylbutane. In some embodiments, the unsaturated isoprene
hydroxylates are hydrogenated to produce saturated hydroxylates
such as C5 alcohols and diols (e.g. 3-methyl-butan-1-ol,
2-methyl-butan-1-ol and 2-methyl-butan-2-ol,
3-methyl-butan-1,3-diol and 2-methyl-butan-2,3-diol), C-10 alcohols
and diols (e.g. 3,7-dimethyloctan-1-ol, 2,7-dimethyloctan-1-ol,
2,7-dimethyloctan-2-ol and 2,7-dimethyloctan-2,7-diol) and cyclic
C-10 alcohols (e.g. 2-(4-methylcyclohexyl)propan-2-ol,
2-(4-methylcyclohexyl)propan-1-ol,
2-(1,4-dimethylcyclohexyl)ethanol and
4-ethyl-1,4-dimethylcyclohexanol) (see Scheme IX). In some
embodiments, the unsaturated isoprene oxygenates are hydrogenated
to produce saturated ethers such as 1,3-diethoxy-3-methylbutane,
1-ethoxy-3-methylbutane, 1-methoxy-2,7-dimethyloctane and
3-methoxy-2,7-dimethyloctane (see Scheme X). It is understood that
when an alkene moiety is hydrogenated, one or more stereo isomers
are produced. The relative ratios between the stereo isomers depend
on the reaction conditions and the catalysts used. When applicable,
each and every stereo isomer is intended for the saturated
hydrocarbons and oxygenates described herein.
##STR00007##
##STR00008##
##STR00009##
##STR00010##
##STR00011##
[0629] In some embodiment, the fuel constituent produced by
chemical transformation of a commercially beneficial amount of
highly pure isoprene starting composition comprises saturated
isoprene derivatives. In some embodiments, the fuel constituent
comprises saturated C10 and C15 hydrocarbons derived from isoprene.
In some embodiments, the fuel constituent comprises one or more
saturated cyclic C10 hydrocarbons selected from the group
consisting of 1,2-bis(isopropyl)cyclobutane,
1,2-bis(isopropyl)cyclobutane, 1-methyl-4-isopropylcyclohexane,
1-methyl-3-isopropylcyclohexane, 1-ethyl-1,4-dimethylcyclohexane,
1-ethyl-1,3-dimethylcyclohexane, 1,5-dimethylcyclooctane and
1,4-dimethylcyclooctane. In some embodiments, the fuel constituent
comprises one or more saturated cyclic C15 hydrocarbons selected
from the group consisting of 1,5,9-trimethylcyclododecane and
1,5,10-trimethylcyclododecane. In some embodiments, the fuel
constituent comprises one or more saturated aliphatic C10
hydrocarbons selected from the group consisting of
2,6-dimethyloctane, 2,7-dimethyloctane and 3,6-dimethyloctane. In
some embodiments, the fuel constituent comprises one or more
saturated aliphatic C15 hydrocarbons selected from the group
consisting of 2,6,10-trimethyldodecane, 2,7,10-trimethyldodecane
and 3,7,10-trimethyldodecane. In some embodiments, the fuel
constituent comprises 2-methylbutane. In some embodiments, the fuel
constituent comprises one or more isoparaffins selected from the
group consisting of 2,3,4,4-tetramethylhexane,
2,2,3,4-tetramethylhexane, 2,3,3,4-tetramethylhexane and
3,3,5-trimethylheptane. In some embodiments, the fuel constituent
comprises one or more saturated hydroxylates selected from the
group consisting of 3-methyl-butan-1-ol, 2-methyl-butan-1-ol and
2-methyl-butan-2-ol, 3-methyl-butan-1,3-diol,
2-methyl-butan-2,3-diol, 3,7-dimethyloctan-1-ol,
2,7-dimethyloctan-1-ol, 2,7-dimethyloctan-2-ol,
2,7-dimethyloctan-2,7-diol, 2-(4-methylcyclohexyl)propan-2-ol,
2-(4-methylcyclohexyl)propan-1-ol,
2-(1,4-dimethylcyclohexyl)ethanol and
4-ethyl-1,4-dimethylcyclohexanol. In some embodiments, the fuel
constituent comprises one or more saturated ethers selected from
the group consisting of 1,3-diethoxy-3-methylbutane,
1-ethoxy-3-methylbutane, 1-methoxy-2,7-dimethyloctane and
3-methoxy-2,7-dimethyloctane. In some embodiments, the fuel
constituent comprises one or more oxygenates of isoprene selected
from the group consisting of 3-methyltetrahydrofuran,
3-methyl-2-butanone and isopentyl acetate.
[0630] In some embodiments, the compositions and systems for
producing a fuel constituent from isoprene further comprise
catalysts for catalyzing the chemical transformation of an isoprene
starting composition to a fuel constituent or an intermediate for
making a fuel constituent. In some embodiments, the compositions
and systems for producing a fuel constituent from isoprene further
comprise catalysts for catalyzing hydrogenation of an unsaturated
intermediate to produce a saturated fuel constituent. In some
embodiments, the catalyst is any catalyst described or a
combination of one or more of the catalyst described herein.
Method and/or Processes for Producing Fuels
[0631] The invention provides methods and/or processes for
producing a fuel constituent from isoprene comprising: (a)
obtaining a commercially beneficial amount of highly pure isoprene;
and (b) chemically transforming at least a portion of the
commercially beneficial amount of highly pure isoprene to a fuel
constituent. In one embodiment, a highly pure isoprene composition
is transformed to a fuel component in a continuous chemical
process. In another embodiment, a highly pure isoprene is further
purified before chemical transformation to a fuel composition. In
yet another embodiment, a highly pure isoprene is chemically
transformed to an intermediate composition; the intermediate
composition undergoes further chemical transformations to produce a
fuel or a fuel component. In a further embodiment, the fuel
component produced is mixed with a petroleum distillate and other
optional additives to make a fuel. In some preferred embodiments,
the highly pure isoprene is a bioisoprene composition.
[0632] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the highly pure isoprene composition useful in the
invention comprises greater than or about 2, 5, 10, 20, 30, 40, 50,
60, 70, 80, 90, 100, 200, 300, 400, 500, 600, 700, 800, 900, or
1000 mg of isoprene. In some embodiments, the highly pure isoprene
composition comprises greater than or about 2, 5, 10, 20, 30, 40,
50, 60, 70, 80, 90, 100 g of isoprene. In some embodiments, the
starting isoprene composition comprises greater than or about 0.2,
0.5, 1, 2, 5, 10, 20, 50, 100, 200, 500, 1000 kg of isoprene.
[0633] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the highly pure isoprene starting composition
comprises greater than or about 98.0, 98.5, 99.0, 99.5, or 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the starting composition. In some embodiments, the
highly pure isoprene composition useful in the invention comprises
greater than or about 99.90, 99.92, 99.94, 99.96, 99.98, or 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the composition. In some embodiments, the highly
pure isoprene composition comprises less than or about 2.0, 1.5,
1.0, 0.5, 0.2, 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005,
0.001, 0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other
than isoprene (such 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the composition. In
some embodiments, the highly pure isoprene composition has less
than or about 2.0, 1.5, 1.0, 0.5, 0.2, 0.12, 0.10, 0.08, 0.06,
0.04, 0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001, 0.00005, or
0.00001% for 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne by weight compared
to the total weight of all C5 hydrocarbons in the composition. In
particular embodiments, the highly pure isoprene composition has
greater than about 2 mg of isoprene and has greater than or about
98.0, 98.5, 99.0, 99.5, 99.90, 99.92, 99.94, 99.96, 99.98, or 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the composition.
[0634] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the highly pure isoprene composition useful in the
invention has less than or about 50, 40, 30, 20, 10, 5, 1, 0.5,
0.1, 0.05, 0.01, or 0.005 .mu.g/L of a compound that inhibits the
polymerization of isoprene for any compound in the composition that
inhibits the polymerization of isoprene. In particular embodiments,
the composition also has greater than about 2 mg of isoprene.
[0635] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the highly pure isoprene composition useful in the
invention has one or more compounds selected from the group
consisting of ethanol, acetone, C5 prenyl alcohols, and isoprenoid
compounds with 10 or more carbon atoms. In some embodiments, the
highly pure isoprene composition has greater than or about 0.005,
0.01, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 60, 80, 100, or 120
.mu.g/L of ethanol, acetone, a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or more
of the foregoing. In particular embodiments, the highly pure
isoprene composition has greater than about 2 mg of isoprene and
has one or more compounds selected from the group consisting of
ethanol, acetone, C5 prenyl alcohols, and isoprenoid compounds with
10 or more carbon atoms.
[0636] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the highly pure isoprene composition useful in the
invention includes isoprene and one or more second compounds
selected from the group consisting of 2-heptanone,
6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine.
In various embodiments, the amount of one of these second
components relative to the amount of isoprene in units of
percentage by weight (i.e., weight of the component divided by the
weight of isoprene times 100) is at greater than or about 0.01,
0.02, 0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90,
100, or 110% (w/w). In some embodiments, the amount of methanethiol
relative to the amount of isoprene in units of percentage by weight
is at less than 0.01% (w/w).
[0637] In some embodiments, the method for producing a fuel
constituent from isoprene comprises obtaining a commercially
beneficial amount of highly pure isoprene composition. In some
embodiments, the method comprises obtaining a commercially
beneficial amount of highly pure isoprene composition from a
biological process comprising: (a) culturing cells comprising a
heterologous nucleic acid encoding an isoprene synthase polypeptide
under suitable culture conditions for the production of isoprene,
wherein the cells (i) produce greater than about 400
nmole/g.sub.wcm/hr of isoprene, (ii) convert more than about 0.002
molar percent of the carbon that the cells consume from a cell
culture medium into isoprene, or (iii) have an average volumetric
productivity of isoprene greater than about 0.1 mg/L.sub.broth/hr
of isoprene, and (b) producing isoprene. In some embodiments, the
cells have a heterologous nucleic acid that (i) encodes an isoprene
synthase polypeptide, e.g. a naturally-occurring polypeptide from a
plant such as Pueraria, and (ii) is operably linked to a promoter,
e.g. a T7 promoter. In some embodiments, the cells are cultured in
a culture medium that includes a carbon source, such as, but not
limited to, a carbohydrate, glycerol, glycerine, dihydroxyacetone,
one-carbon source, oil, animal fat, animal oil, fatty acid, lipid,
phospholipid, glycerolipid, monoglyceride, diglyceride,
triglyceride, renewable carbon source, polypeptide (e.g., a
microbial or plant protein or peptide), yeast extract, component
from a yeast extract, or any combination of two or more of the
foregoing. In some embodiments, the cells are cultured under
limited glucose conditions. In some embodiment, the cells further
comprise a heterologous nucleic acid encoding an IDI polypeptide.
In some embodiments, the cells further comprise a heterologous
nucleic acid encoding an MDV pathway polypeptide. In some
embodiment, the method comprises producing isoprene using the
methods described in U.S. provisional patent application Nos.
61/134,094, filed on Jul. 2, 2008, WO 2010/003007, and U.S. patent
application Ser. No. 12/335,071, filed Dec. 15, 2008 (US
2009/0203102 A1), which are incorporated by reference in their
entireties.
[0638] In some embodiment, the method comprises obtaining a gas
phase (off-gas) produced by cells in culture that produces
isoprene. In some embodiments, the cells in culturing produce
greater than about 400 nmole/g.sub.wcm/hr of isoprene. In some
embodiments, the gas phase comprises greater than or about 5, 10,
20, 30, 40, 50, 60, 70, 80, 90, 100 .mu.g/L of isoprene when
sparged at a rate of 1 vvm. In some embodiments, the volatile
organic fraction of the gas phase comprises greater than or about
99.90, 99.92, 99.94, 99.96, 99.98, or 100% isoprene by weight
compared to the total weight of all C5 hydrocarbons in the volatile
organic fraction. In some embodiments, the volatile organic
fraction of the gas phase comprises less than or about 2.0, 1.5,
1.0, 0.5, 0.2, 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005,
0.001, 0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other
than isoprene (such 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the volatile organic
fraction. In some embodiments, the volatile organic fraction of the
gas phase has less than or about 2.0, 1.5, 1.0, 0.5, 0.2, 0.12,
0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001, 0.0005, 0.0001,
0.00005, or 0.00001% for 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne by weight compared
to the total weight of all C5 hydrocarbons in the volatile organic
fraction. In particular embodiments, the volatile organic fraction
of the gas phase has greater than about 2 mg of isoprene and has
greater than or about 99.90, 99.92, 99.94, 99.96, 99.98, or 100%
isoprene by weight compared to the total weight of all C5
hydrocarbons in the volatile organic fraction.
[0639] In some embodiment, the method comprises obtaining a gas
phase (off-gas) produced by cells in culture that produces
isoprene. In some embodiments, the volatile organic fraction of the
gas phase has less than or about 50, 40, 30, 20, 10, 5, 1, 0.5,
0.1, 0.05, 0.01, or 0.005 .mu.g/L of a compound that inhibits the
polymerization of isoprene for any compound in the volatile organic
fraction of the gas phase that inhibits the polymerization of
isoprene. In particular embodiments, the volatile organic fraction
of the gas phase also has greater than about 2 mg of isoprene. In
some embodiments, the volatile organic fraction of the gas phase
has one or more compounds selected from the group consisting of
ethanol, acetone, C5 prenyl alcohols, and isoprenoid compounds with
10 or more carbon atoms. In some embodiments, the volatile organic
fraction of the gas phase has greater than or about 0.005, 0.01,
0.05, 0.1, 0.5, 1, 5, 10, 20, 30, 40, 60, 80, 100, or 120 .mu.g/L
of ethanol, acetone, a C5 prenyl alcohol (such as
3-methyl-3-buten-1-ol or 3-methyl-2-buten-1-ol), or any two or more
of the foregoing. In particular embodiments, the volatile organic
fraction of the gas phase has greater than about 2 mg of isoprene
and has one or more compounds selected from the group consisting of
ethanol, acetone, C5 prenyl alcohols, and isoprenoid compounds with
10 or more carbon atoms. In some embodiments, the volatile organic
fraction of the gas phase has includes isoprene and one or more
second compounds selected from the group consisting of 2-heptanone,
6-methyl-5-hepten-2-one, 2,4,5-trimethylpyridine,
2,3,5-trimethylpyrazine, citronellal, acetaldehyde, methanethiol,
methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine.
In various embodiments, the amount of one of these second
components relative to amount of isoprene in units of percentage by
weight (i.e., weight of the component divided by the weight of
isoprene times 100) is at greater than or about 0.01, 0.02, 0.05,
0.1, 0.5, 1, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or 110%
(w/w) in the volatile organic fraction of the gas phase. In some
embodiments, the method further includes recovering the isoprene
from the gas phase. For example, the isoprene in the gas phase
comprising isoprene can be recovered using standard techniques,
such as gas stripping, membrane enhanced separation, fractionation,
adsorption/desorption, pervaporation, thermal or vacuum desorption
of isoprene from a solid phase, or extraction of isoprene
immobilized or absorbed to a solid phase with a solvent (see, for
example, U.S. Pat. Nos. 4,703,007 and 4,570,029, which are each
hereby incorporated by reference in their entireties, particularly
with respect to isoprene recovery and purification methods). In
some particular embodiments, extractive distillation with an
alcohol (such as ethanol, methanol, propanol, or a combination
thereof) is used to recover the isoprene. In some embodiments, the
recovery of isoprene involves the isolation of isoprene in a liquid
form (such as a neat solution of isoprene or a solution of isoprene
in a solvent). Gas stripping involves the removal of isoprene vapor
from the fermentation off-gas stream in a continuous manner. Such
removal can be achieved in several different ways including, but
not limited to, adsorption to a solid phase, partition into a
liquid phase, or direct condensation (such as condensation due to
exposure to a condensation coil or do to an increase in pressure).
In some embodiments, membrane enrichment of a dilute isoprene vapor
stream above the dew point of the vapor resulting in the
condensation of liquid isoprene. In some embodiments, the recovered
isoprene is compressed and condensed.
[0640] The recovery of isoprene may involve one step or multiple
steps. In some embodiments, the removal of isoprene vapor from a
fermentation off-gas and the conversion of isoprene to a liquid
phase are performed simultaneously. For example, isoprene can be
directly condensed from the off-gas stream to form a liquid. In
some embodiments, the removal of isoprene vapor from the
fermentation off-gas and the conversion of isoprene to a liquid
phase are performed sequentially. For example, isoprene may be
adsorbed to a solid phase and then extracted from the solid phase
with a solvent.
[0641] In some embodiments, a method is provided for producing a
cyclic dimer of isoprene comprising heating neat bioisoprene. The
cyclic dimers of isoprene produced may be 6-membered ring dimers
(e.g. a [2+4] electrocyclization product such as limonene) or
8-membered ring dimers or a mixture thereof. Examples of 6-membered
ring dimers include but not limited to
1-methyl-4-(prop-1-en-2-yl)cyclohex-1-ene,
1-methyl-5-(prop-1-en-2-yl)cyclohex-1-ene,
1,4-dimethyl-4-vinylcyclohexene, 2,4-dimethyl-4-vinylcyclohexene
and the like. Examples of 8-membered ring dimers include but not
limited to 1,5-dimethylcycloocta-1,5-diene,
1,6-dimethylcycloocta-1,5-diene and the like. In one embodiment,
neat biologically produced isoprene is dimerized by heating to a
temperature of about 100.degree. C. to about 300.degree. C.,
preferably about 150.degree. C. to about 250.degree. C. The
pressure is maintained at about 2 to 3 atm. In another embodiment,
a catalyst suitable for catalyzing dimerization of conjugated
dienes may be used. The proportions of various dimers in the
product mixture may be controlled by the catalyst and other
reactions conditions. For example, a nickel catalyst can promote
formation of 8-membered ring dimers.
[0642] In some embodiments, a method is provided for producing a
cyclic dimer of isoprene comprising photo-dimerization of
bioisoprene. The cyclic dimer of isoprene produced may be one or
more 4-membered ring dimer or a mixture thereof. Examples of
Examples of 4-membered ring dimers include but not limited to
1,2-di(prop-1-en-2-yl)cyclobutane,
1,3-di(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-3-(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-2-(prop-1-en-2-yl)cyclobutane,
1,3-dimethyl-1,3-divinylcyclobutane,
1,2-dimethyl-1,2-divinylcyclobutane and the like. In one
embodiment, neat biologically produced isoprene is dimerized by
irradiating with UV light, preferably in presence of a
photosensitizer such as benzophenone.
[0643] Isoprene dimers can be hydrogenated to form saturated
C.sub.10 hydrocarbons that can serve as fuels or blended into
fuels. In one embodiment, the unsaturated isoprene dimers are
subjected to catalytic hydrogenation to produce partially
hydrogenated and/or fully hydrogenated products. Examples of fully
hydrogenated products include but not limited to
1-methyl-4-isopropylcyclohexane and
1-methyl-5-isopropylcyclohexane, 1,4-dimethyl-4-ethylcyclohexane,
2,4-dimethyl-4-ethylcyclohexane, 1,2-diisopropylcyclobutane and
1,3-diisopropylcyclobutane,
1-methyl-1-vinyl-3-(prop-1-en-2-yl)cyclobutane,
1-methyl-1-ethyl-2-(prop-2-yl)cyclobutane,
1,3-dimethyl-1,3-ethylcyclobutane,
1,2-dimethyl-1,2-diethylcyclobutane, 1,5-dimethylcyclooctane,
1,6-dimethylcyclooctane and the like.
[0644] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) chemically transforming at least
a portion of the highly pure isoprene starting composition to a
fuel constituent comprising: (i) heating the highly pure isoprene
composition to over or about 100.degree. C. under pressure; (ii)
converting at least a portion of the starting isoprene composition
to unsaturated cyclic isoprene dimers; and (iii) hydrogenating the
unsaturated cyclic isoprene dimers to produce saturated cyclic
isoprene dimers. In some embodiments, the starting isoprene
composition is heated to over or about 100, 125, 150, 175, 200, 225
or 250.degree. C. under pressure. In some embodiments, the starting
isoprene composition is heated in the presence of an antioxidant
(e.g. 2,6-di-tert-butyl-4-methylphenol) to prevent radical-mediated
polymerization. In one embodiment, the thermal dimerization of
isoprene is performed in presence of dinitrocresol as
polymerization inhibitor. Suitable antioxidants may be used as
polymerization inhibitors. In some embodiments, at least a portion
of the starting isoprene composition to a mixture of unsaturated
dimers that includes 6 and 8-membered rings, for examples, limonene
(1-methyl-4-(prop-1-en-2-yl)cyclohex-1-ene),
1-methyl-5-(prop-1-en-2-yl)cyclohex-1-ene,
1,4-dimethyl-4-vinylcyclohexene, 2,4-dimethyl-4-vinylcyclohexene,
1,5-dimethylcycloocta-1,5-diene, 1,6-dimethylcycloocta-1,5-diene,
2,6-dimethyl-1,3-cyclooctadiene, 2,6-dimethyl-1,4-cyclooctadiene,
3,7-dimethyl-1,5-cyclooctadiene, 3,7-dimethyl-1,3-cyclooctadiene
and 3,6-dimethyl-1,3-cyclooctadiene. In some embodiments, greater
than or about 20, 30, 40, 50, 60, 70, 75, 80, 85, 90, 95, 98, 99 or
100% of isoprene in starting isoprene composition is converted to
unsaturated cyclic isoprene dimers. In some embodiments,
hydrogenation of the unsaturated cyclic isoprene dimers is
catalyzed by a hydrogenation catalyst such as a palladium based
catalyst (e.g. Pd/C, e.g. 5% (wt.) Pd/C.) In some embodiments, the
saturated cyclic isoprene dimers comprise one or more C.sub.10
hydrocarbons selected from the group consisting of
1-methyl-4-isopropylcyclohexane, 1-methyl-3-isopropylcyclohexane,
1,5-dimethylcyclooctane and 1,4-dimethylcyclooctane. In some
preferred embodiments, the starting isoprene composition is a
bioisoprene composition.
[0645] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) chemically transforming at least
a portion of the highly pure isoprene starting composition to a
fuel constituent comprising: (i) contacting the highly pure
isoprene composition with a catalyst system; (ii) converting at
least a portion of the starting isoprene composition to unsaturated
isoprene dimers and/or trimers; and (iii) hydrogenating the
unsaturated dimers and/or trimers to produce saturated C10 and/or
C15 hydrocarbons. In some embodiments, greater than or about 20,
30, 40, 50, 60, 70, 75, 80, 85, 90, 95, 98, 99 or 100% of isoprene
in starting isoprene composition is converted to unsaturated dimers
and/or trimers of isoprene. In some embodiments, the starting
isoprene composition is contacted with appropriate catalyst systems
known in the art to yield one or more of unsaturated cyclic
isoprene dimers selected from the group consisting of
1,2-di(prop-1-en-2-yl)cyclobutane,
1,3-di(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-3-(prop-1-en-2-yl)cyclobutane,
1-methyl-1-vinyl-2-(prop-1-en-2-yl)cyclobutane,
1,3-dimethyl-1,3-divinylcyclobutane,
1,2-dimethyl-1,2-divinylcyclobutane,
1-methyl-4-(prop-1-en-2-yl)cyclohex-1-ene),
1-methyl-5-(prop-1-en-2-yl)cyclohex-1-ene,
1,4-dimethyl-4-vinylcyclohexene, 2,4-dimethyl-4-vinylcyclohexene,
1,5-dimethylcycloocta-1,5-diene, 1,6-dimethylcycloocta-1,5-diene,
1,4-dimethyl-4-vinyl-1-cyclohexene,
2,4-dimethyl-4-vinyl-1-cyclohexene, 2,7-dimethyl-1,3,7-octatriene,
2,7-dimethyl-2,4,6-octatriene, 2,6-dimethyl-1,3-cyclooctadiene,
2,6-dimethyl-1,4-cyclooctadiene, 3,7-dimethyl-1,5-cyclooctadiene,
3,7-dimethyl-1,3-cyclooctadiene and
3,6-dimethyl-1,3-cyclooctadiene. In some embodiments, the starting
isoprene composition is contacted with appropriate catalyst systems
known in the art to yield one or more of unsaturated cyclic
isoprene trimers such as trimethylcyclododecatrienes and
trimethyldodecatetraenes and the like. In some embodiments, the
starting isoprene composition is contacted with appropriate
catalyst systems known in the art to yield one or more of
unsaturated linear dimers and/or trimers of isoprene such as
dimethyloctatrienes (e.g. 2,7-dimethyl-1,3,7-octatriene and
2,7-dimethyl-2,4,6-octatriene) and trimethyldodecatetraenes (e.g.
2,6,10-trimethyl-1,5,9,11-dodecatetraene, .alpha.-farnesene and
.beta.-farnesene) and the like. In some preferred embodiments, the
starting isoprene composition is a bioisoprene composition.
[0646] In some embodiments, the method for producing a fuel
constituent from isoprene comprises contacting the highly pure
isoprene composition with a catalyst system to convert at least a
portion of the starting isoprene composition to unsaturated
isoprene dimers and/or trimers. In some embodiments, the catalyst
system comprise a Ni, Fe or Co catalyst and the isoprene in the
starting composition is converted an 8-membered ring isoprene dimer
comprising dimethylcyclooctadienes such as
1,5-dimethylcycloocta-1,5-diene and
1,6-dimethylcycloocta-1,5-diene. In some embodiments, the catalyst
system comprises a nickel compound. Ni-catalyzed dimerization of
isoprene yields a dimethyl-1,5-cyclooctadiene mixture consisting of
about 90 to 10, 80 to 20, 70 to 30, 60 to 40, 50 to 50, 40 to 60,
30 to 70, 20 to 80 and 10 to 90 ratio of
1,5-dimethyl-1,5-cyclooctadiene to 1,6-dimethyl-1,5-cyclooctadiene.
In one embodiment, the catalyst system comprises a 3-component
catalyst containing Ni carboxylates or .beta.-ketones,
organoaluminum or organomagnesium compounds and substituted
triphenylphosphite. For example, a degassed solution of a highly
pure isoprene starting composition in anhydrous toluene is mixed
with Ni(acac).sub.2, Et.sub.3Al, and
tris(3,4-bis(dimethylamino)phenyl)phosphite under nitrogen
atmosphere and the mixture is heated at 95.degree. C. to give
dimethylcyclooctadiene. In another embodiment, the catalyst system
comprises Fe carboxylates or .beta.-diketone compounds, organo-Al
or Mg compounds, and 2,2'-dipyridyl derivatives having
electron-donating groups. For example, a starting isoprene
composition is heated with a mixture of Fe acetylacetonate,
4,4'-dimethyl-2,2'-dipyridyl, and Et.sub.3Al in toluene to gave
1,6-dimethyl-1,5-cyclooctadiene in good yields. In some preferred
embodiments, the starting isoprene composition is a bioisoprene
composition.
[0647] In some embodiments, the method for producing a fuel
constituent from isoprene comprises contacting the highly pure
isoprene composition with a catalyst system to convert at least a
portion of the starting isoprene composition to unsaturated
isoprene dimers and/or trimers. In some embodiments, the catalyst
system comprises a Ru, Fe, Ni or Pd catalyst or a combination
thereof and the isoprene in the starting composition is converted
to a mixture comprising 6-membered ring isoprene dimers. In one
embodiment, the catalyst system is a
Fe(NO).sub.2Cl-bis(1,5-cyclooctadiene)nickel catalyst system and
the isoprene in the starting composition is cyclodimerized at low
temperatures (e.g. from -5 to +20.degree. C.) to give 1-methyl- and
2-methyl-4-isopropenyl-1-cyclohexene and 1,4- and
2,4-dimethyl-4-vinyl-1-cyclohexene. In another embodiment,
contacting with a mixed catalyst of a tris(substituted
hydrocarbyl)phosphite, arsenite, or antimonite and a Group VIII
metal(0) compound (e.g. Ni acetylacetonate) converts the isoprene
in the starting composition to 1,4-dimethyl-4-vinyl-1-cyclohexene
and 1,5-dimethyl-1,5-cyclooctadiene. In another embodiment,
contacting an isoprene starting composition with a ruthenium
catalyst (e.g. see Itoh, Kenji; Masuda, Katsuyuki; Fukahori,
Takahiko; Nakano, Katsumasa; Aoki, Katsuyuki; Nagashima, Hideo,
Organometallics (1994), 13(3), 1020-9) converts isoprene to C10
cyclic dimers (e.g. a mixture of dimethyl-cyclooctadienes). The
ruthenium catalyst can be synthesized in two steps from RuCl.sub.3
and pentamethylcyclopentadiene (C.sub.5Me.sub.5H). The process may
be performed in batch mode and the catalyst recovered and recycled.
In some preferred embodiments, the starting isoprene composition is
a bioisoprene composition. One embodiment of the method is
illustrated in Scheme XI.
[0648] In some embodiments, the method for producing a fuel
constituent from isoprene comprises contacting the highly pure
isoprene composition with a catalyst system to convert at least a
portion of the starting isoprene composition to unsaturated
isoprene dimers and/or trimers. In some embodiments, the catalyst
system comprises a Ni, Ti, Al, or Mg catalyst or a mixture thereof
and the isoprene in the starting composition is converted to a
mixture comprising cyclic isoprene trimers such as
trimethylcyclododecatrienes. In one embodiment, the catalyst system
for the trimerization of isoprene comprising Ni and/or Ti, one or
more organometallic compound, and a Group VA compound. The reaction
may be conducted in a hydroxyl group-containing solvent. In another
embodiment, oligomerization of isoprene catalyzed by nickel
naphthenate and isoprenemagnesium in the presence of various
phosphites as electron donors give cyclic dimers containing
dimethylcyclooctadiene, in particular
1,1,1-tris(hydroxymethyl)propane phosphite gives
trimethylcyclododecatriene selectively.
##STR00012##
[0649] In some embodiments, the method for producing a fuel
constituent from isoprene comprises contacting the highly pure
isoprene composition with a catalyst system to convert at least a
portion of the starting isoprene composition to unsaturated
isoprene dimers and/or trimers. In some embodiments, the catalyst
system comprises a Ni, Pd or Cr catalyst or a mixture thereof and
the isoprene in the starting composition is converted telomers or
linear dimers and/or trimers. In one embodiment, a catalyst system
comprising Pd(0) complexes (e.g. Pd(acac).sub.2-Ph.sub.3P and
Pd(OAc).sub.2-Ph.sub.3P) catalyzes dimerization and telomerization
of isoprene to give linear isoprene dimers (e.g.
2,7-dimethyl-1,3,7-octatriene). In one variation, the reaction is
performed in methanol as a solvent and methyl ethers such as
methoxydimethyloctadienes (e.g.
1-methoxy-2,7-dimethyl-2,7-octadiene and
3-methoxy-2,7-dimethyl-1,7-octadiene) are produced. In another
embodiment, the catalyst system comprises divalent and trivalent
transition metal-exchanged montmorillonites (e.g.
Cr.sup.3+-montmorillonite). In another embodiment, the catalyst
system comprises a Ni(0)-aminophosphinite catalyst and the isoprene
in the starting composition is converted to regioselective
tail-to-tail linear dimers. In some variations, the linear dimer
formation is accompanied by a competitive cyclodimerization
reaction. In another embodiment, the catalyst system comprises a
chromium N,N-bis(diarylphosphino)amine catalyst (e.g. see Bowen,
L.; Charernsuk, M.; Wass, D. F. Chem. Commun. (2007) 2835-2837) and
the isoprene is converted to linear and cyclic C15 trimers. In one
variation, the chromium catalyst is made in situ from
CrCl.sub.3(THF).sub.3 and a PNP phosphine ligand.
[0650] In some embodiments, the method for producing a fuel
constituent from a bioisoprene composition comprises chemically
transforming a substantial portion of the isoprene in the
bioisoprene composition by (i) contacting the bioisoprene
composition with a catalyst for catalyzing trimerization of
isoprene to produce an unsaturated isoprene trimer and (ii)
hydrogenating the isoprene trimer to produce a fuel constituent. In
some embodiments, at least about 95% of isoprene in the bioisoprene
composition is converted to non-isoprene compounds during the
chemical transformation.
[0651] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) converting at least a portion of
the starting isoprene composition to unsaturated isoprene
derivatives; and (c) hydrogenating the unsaturated isoprene
derivatives to produce saturated compounds. In some embodiments,
hydrogenation of unsaturated isoprene derivatives to saturated
compounds is performed in batch mode. In some embodiments,
hydrogenation of unsaturated isoprene derivatives to saturated
compounds is performed in continuous mode. One embodiment of the
method is illustrated in Scheme XII.
##STR00013##
[0652] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) converting at least a portion of
the starting isoprene composition to oxygenated isoprene
derivatives; and optionally (c) hydrogenating any unsaturated
oxygenated isoprene derivatives to produce saturated oxygenates. In
some embodiments, the isoprene starting composition is contacted
with a catalyst in the presence of alcohols (e.g. methanol or
ethanol or mixtures thereof) to form oxygenated isoprene
derivatives comprise one or more unsaturated or saturated ethers
(e.g. methyl ethers or ethyl ethers or mixtures thereof). In some
embodiments, the catalyst is an acid catalyst such as sulfuric
acid, solid phase sulfuric acid (e.g., Dowex Marathon.RTM.), liquid
and solid-phase fluorosulfonic acids (e.g. trifluoromethanesulfonic
acid and Nafion-H (DuPont)). Zeolite catalysts can also been used,
for example beta-zeolite, under conditions similar to those
described by Hensel et al. [Hensen, K.; Mahaim, C.; Holderich, W.
F., Applied Catalysis A: General (1997) 140(2), 311-329.] for the
methoxylation of limonene and related monoterpenes. In some
embodiments, the isoprene starting compositions or the unsaturated
isoprene dimers or trimers undergo oxidation/hydrogenation to form
the hydroxylated isoprene derivatives comprise one or more alcohols
such as C5, C10 and C15 alcohols and diols. In some embodiments,
the isoprene starting composition undergoes
hydroxylation/esterification to form alcohols and esters. For
example, bioisoprene or an unsaturated intermediate undergoes
peroxidation to epoxides with peracids such as peracetic and
3-chloroperbenzoic acid; and hydration to give alcohols and diols
with i) water and acid catalysts and ii) hydroboration methods.
Such reactions are described in, for example, Michael B. Smith and
Jerry March, Advanced Organic Chemistry: Reactions, Mechanisms, and
Structure, Sixth Edition, John Wiley & Sons, 2007. In some
preferred embodiments, the starting isoprene composition is a
bioisoprene composition.
[0653] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) partially hydrogenating the
starting isoprene composition to mono-olefins (e.g.
2-methylbut-1-ene, 3-methyl-but-1-ene and 2-methylbut-2-ene); and
(c) producing the fuel constituent from the mono-olefins. In one
embodiment, the mono-olefin undergoes dimerization. In another
embodiment, the mono-olefin is reacted with other olefins using
traditional hydrocarbon cationic catalysis, such as that used to
covert isobutylene to isooctane. The product of dimerization or
reaction with other olefins are then undergoes hydrogenation to
give saturated fuel constituents. In some preferred embodiments,
the highly pure isoprene is a bioisoprene composition. In some
embodiment, the starting isoprene composition partially
hydrogenated using a palladium catalyst, such as Pd/CaCO.sub.3,
Pd/BaSO.sub.4, Pd/C, Pd black, Pd/SiO.sub.3, Pd/Al.sub.2O.sub.3, or
Pd/SiO.sub.2. In some embodiment, the starting isoprene composition
partially hydrogenated using a silica-supported polyamidoamine
(PAMAM) dendrimer-palladium complex. In some embodiment, the
starting isoprene composition partially hydrogenated using a
palladium-gold and palladium-silver catalysts (e.g.,
Pd--Au/SiO.sub.2 and Pd--Ag/SiO.sub.2) have high selectivity for
reducing isoprene to mono-olefins over fully reduced C5 alkanes. In
some embodiment, the starting isoprene composition partially
hydrogenated using a Group VIB metal on an inorganic support (e.g.,
a metal zeolite) as a catalyst, e.g. a Mo/Al.sub.2O.sub.3 catalyst.
In some embodiment, the starting isoprene composition partially
hydrogenated using a monolithic catalyst bed, which may be in a
honeycomb configuration. Catalyst support materials for the
monolithic catalyst bed may include metals such as nickel,
platinum, palladium, rhodium, ruthenium, silver, iron, copper,
cobalt, chromium, iridium, tin, and alloys or mixtures thereof. In
some embodiment, the starting isoprene composition partially
hydrogenated using an eggshell Pd/.delta.-Al.sub.2O.sub.3 catalyst,
particularly if the reaction is free of water. In some embodiment,
the starting isoprene composition partially hydrogenated using a
Group VIII metal catalyst promoted by a metal from Group IB, VIIB,
VIIB, or zinc to reduce poisoning of the catalyst. Methods for
converting isoprene into isoamylenes (mono-olefins) can be
performed in continuous or batch mode using both homogeneous or
heterogeneous catalysts. One embodiment of the method is
illustrated in Scheme XIII.
[0654] In some embodiments, isoamylenes produce from partial
hydrogenatin of isoprene undergos trimerization in liquid phase
over ion exchange resins and zeolites. See, GranGranollers, Ind.
Eng. Chem. Res., 49 (8), pp 3561-3570 (2001).
##STR00014##
[0655] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) partially hydrogenating the
starting isoprene composition to a mono-olefin (e.g.
2-methylbut-1-ene, 3-methyl-but-1-ene and 2-methylbut-2-ene); (c)
contacting the mono-olefin with a catalyst for dimerization of
mono-olefins to form a dimate with another mono-olefin; and (d)
hydrogenating the product of dimerization (dimate) to produce
saturated hydrocarbon fuel constituents. In some preferred
embodiments, the highly pure isoprene is a bioisoprene composition.
In some embodiments, the other mono-olefin is an isoamylene derived
from the highly pure isoprene starting composition. In some
embodiments, the other mono-olefin is an olefin from another source
such as propylene, butane or isobutene. In some embodiments, the
catalyst for dimerization is a resin catalyst (e.g., Amberlyst,
Amberlyst 35, Amberlyst 15, Amberlyst XN1010, Amberlyst XE586). In
some embodiments, the catalyst for dimerization is a catalytic
material containing an acidic mesoporous molecular sieve, such as a
mesoporous sieve embedded in a zeolite structure, ZSM-5,
ferrierite, ZSM-22, or ZSM-23. In some embodiments, the catalyst
for dimerization is the catalytic material is thermally stable at
high temperatures (e.g., at least 900.degree. C.). In some
embodiments, the catalyst for dimerization is a catalytic material
containing an acidic mesoporous molecular sieve. In some
embodiments, the catalyst for dimerization is a solid acidic
catalyst (e.g., a solid phosphoric acid catalyst, acidic ion
exchange resins). One embodiment of the method is illustrated in
Scheme XIV.
##STR00015##
[0656] In some embodiments, the method for producing a fuel
constituent from isoprene comprises: (a) obtaining a commercially
beneficial amount of any of the highly pure isoprene starting
composition described herein; (b) partially hydrogenating the
starting isoprene composition to an isoamylene (e.g.
2-methylbut-1-ene, 3-methyl-but-1-ene and 2-methylbut-2-ene); (c)
contacting the isoamylene with an alcohol and a catalyst to form an
oxygenate; and (c) producing producing the fuel constituent from
the isoamylene oxygenate. In some preferred embodiments, the highly
pure isoprene is a bioisoprene composition. In some embodiments,
the isoamylene is contacted with ethanol and the fuel oxygenate
formed is an ether such as TAME.
[0657] In some embodiments, any of the methods described herein
further include purifying the starting isoprene composition before
the chemical transformation. For example, the isoprene produced
using the compositions and methods of the invention can be purified
using standard techniques. Purification refers to a process through
which isoprene is separated from one or more components that are
present when the isoprene is produced. In some embodiments, the
isoprene is obtained as a substantially pure liquid. Examples of
purification methods include (i) distillation from a solution in a
liquid extractant and (ii) chromatography. As used herein,
"purified isoprene" means isoprene that has been separated from one
or more components that are present when the isoprene is produced.
In some embodiments, the isoprene is at least about 20%, by weight,
free from other components that are present when the isoprene is
produced. In various embodiments, the isoprene is at least or about
25%, 30%, 40%, 50%, 60%, 70%, 75%, 80%, 90%, 95%, or 99%, by
weight, pure. Purity can be assayed by any appropriate method,
e.g., by column chromatography, HPLC analysis, or GC-MS analysis.
In some embodiments, bioisoprene is recovered from fermentation
off-gas by initial adsorption to activated carbon, followed by
desorption and condensation to give a liquid isoprene composition
for chemical transformation to a fuel constituent.
Continuous Process for Producing Fuels
[0658] The invention also provides a continuous process for
producing a fuel constituent from isoprene comprising: (a)
continuously producing a commercially beneficial amount of highly
pure isoprene; and (b) continuously transforming chemically at
least a portion of the commercially beneficial amount of highly
pure isoprene to a fuel constituent. In a continuous process
according to the invention, a stream of highly pure isoprene is
produced continuously, for example, by a biological process (e.g.
culturing cells producing isoprene) and is passed to a reactor for
chemical transformation. In some embodiments, the isoprene from a
fermentation off-gas is separated from water and other permanent
gases (e.g., O.sub.2, N.sub.2 and CO.sub.2) using extractive
distillation, condensation, adsorption or membranes in a continuous
purification unit, where the oxygen level is lowered to ppm range
and other impurities of concern are removed; the isoprene vapor is
catalytically converted to dimers (C10) and trimers (C15) using a
heterogeneous catalyst; the desired product is separated and the
unreacted isoprene is returned to the reactor for further
conversion. In some embodiments, the catalytic dimerization is
monitored by measuring the levels of desirable C10 hydrocarbons in
the gas phase.
[0659] In some embodiments, a stream of biologically produced
isoprene is passed through a chemical reactor (e.g., a reaction
tube) maintained at a temperature of about 100.degree. C. to about
300.degree. C., where the biologically produced isoprene undergoes
dimerization reactions. In one variation, the isoprene dimers are
separated from the product stream and at least a portion of the
unreacted isoprene is recycled back into the chemical reactor. In
one embodiment, the unsaturated isoprene dimers produced is
contacted with a hydrogenation catalyst and a hydrogen source in a
second chemical reactor producing partially hydrogenated and/or
fully hydrogenated products. The process can further comprise a
step of recovering isoprene from the off-gas of a bio-reactor
producing isoprene.
[0660] In some embodiments, a stream of bioisoprene containing
co-produced hydrogen is first separated from the hydrogen gas, the
bioisoprene stream is passed through a chemical reactor (e.g., a
reaction tube) maintained at a temperature of about 100.degree. C.
to about 300.degree. C., where the biologically produced isoprene
undergoes dimerization reactions. In one variation, the isoprene
dimers are separated from the product stream and at least a portion
of the unreacted isoprene is recycled back into the chemical
reactor. In one embodiment, the unsaturated isoprene dimers
produced is contacted with a hydrogenation catalyst and a hydrogen
source in a second chemical reactor producing partially
hydrogenated and/or fully hydrogenated products. In one variation,
the hydrogen stream isolated from the isoprene-hydrogen
co-production is used in the hydrogenation step. The process can
further comprise a step of recovering isoprene from the off-gas of
a bio-reactor producing isoprene. The process can further comprise
a step of purifying the hydrogen stream isolated from the
isoprene-hydrogen co-production using purification methods known in
the art such as cryogenic condensation and solid matrix
adsorption.
Removal of Dienes and Polymers from Fuel Products
[0661] Fuel compositions often contain unsaturated compounds
(olefins, diolefins and polyolefins) that can form gums, resins,
polymers and other undesirable byproducts over time (for example,
see Pereira and Pasa (2006) Fuel, 85, 1860-1865 and references
therein). In general, as the degree of unsaturation increases of a
given compound, the more likely that compound is to form such
byproducts. Isoprene is a 1,3-diene that readily forms undesirable
polymeric byproducts when present in fuel compositions. While there
exist fuel additives (anti-oxidants, radical quenchers etc.) that
can reduce the extent of byproduct formation, such byproducts can
still form over time. Olefins can also contribute to the formation
of ground-level ozone when released into the atmosphere upon
evaporation from fuels, or as the result of incomplete combustion
of olefin-containing fuels.
[0662] Accordingly, fuel compositions derived wholly or in part
from isoprene should contain little to no free isoprene. A range of
methods can be used to either remove isoprene from fuel
compositions such as purification by distillation, reaction with
alcohols to form ethers, or hydrogenation to convert isoprene to
saturated derivatives. Alternately, isoprene can be treated with a
dienophile such as malic anhydride producing inert adducts that do
not contribute to the formation of undesirable byproducts.
[0663] Provided are fuel compositions comprising isoprene
derivatives that are substantially free of isoprene. In some
embodiments, the fuel composition contains less than 0.01%, 0.1%,
1%, 2%, 3%, 4%, 5%, 10% or 15% isoprene. Also provided are methods
for chemically transforming a bioisoprene composition to fuel
compositions comprising isoprene derivatives that are substantially
free of isoprene. In some embodiments, a substantial portion of the
isoprene from the bioisoprene composition is converted to fuel
constituents. In some embodiments, a substantial portion of the
isoprene from the bioisoprene composition is converted to
intermediates that can be further converted to produce fuel
constituents. In some embodiments, a substantial portion of the
isoprene from the bioisoprene composition is converted to compounds
other than isoprene. A "substantial portion" is 99.99%, 99.9%, 99%,
98%, 97%, 96%, 95%, 90%, 85% or 80%.
[0664] In some instances, isoprene and other conjugated dienes can
form polymeric products with gum-like consistencies that can reduce
the yields of desired products and/or deactivate catalysts. (See,
e.g., R. C. C. Pereira and V. M. D. Pasa. Fuel 85 (2006)
1860-1865.) In some embodiments, methods are provided for
determining the amount of conjugated diene present in a product
mixture. D. F. Andrade et al. describe various methods for
determining the amount of conjugated diene present (Fuel (2010),
doi:10.106/j.fuel/2010.01.003), including the following: 1) UOP-326
method (maleic anhydride method), a semi-quantitative method in
which the amount of maleic anhydride consumed via Diels-Alder
reaction with the diene is measured; 2) polarography; 3) gas
chromatography, in which the diene may be reacted with a
derivatization agent, such as 4-methyl-1,2,4-triazoline-3,5-dione
(MTAD) or 4-phenyl-1,2,4-triazoline-3,5-dione (PTAD); 4) HPLC; 5)
supercritical fluid chromatography; 6) NMR; 7) UV and near IR
spectroscopy; and 8) other spectroscopic methods, which may include
first derivatizing the diene with p-nitrobenezenediazonium
fluoroborate.
[0665] Method are provided herein for minimizing gum-formation
and/or reducing the amount of gum that has been produced. In some
embodiments, an anti-oxidant is used to minimize gum-formation. In
other embodiments, polymeric by-products are recycled back to the
process stream. In some embodiments, depolymerization of polymeric
by-products is carried out via olefin metathesis. Olefin metathesis
can be carried out using a molybdenum or tungsten catalyst, such as
2,6-diisopropylphenylimido neophylidene molybdenum
bis(2-tertbutylphenoxide). (See U.S. Pat. No. 5,446,102.)
[0666] In some embodiments, any of the methods described herein
further include characterizing the products of these reactions and
assessing the potential fuel value. For example, the products are
characterized by standard methods known in the art, e.g. GC/MS,
NMR, UV-Vis and IR spectroscopies, boiling temperature, density and
other physical properties. The products can be further
characterized by dual carbon-isotopic fingerprinting (see, U.S.
Pat. No. 7,169,588). The potential fuel value of the products are
assessed by parameters measuring fuel properties such as the energy
density, heating value, water solubility, octane/cetane number,
density, viscosity, surface tension, enthalpy of vaporization,
vapor diffusivity, flash point, autoignition point, flammability
limits, cloud point and chemical stability.
[0667] As with commercial petroleum fuels, BioIsoFuel.TM. products
can be tested for their acidity, density, trace mineral content,
benzene, total aromatics content, water content, and corrosivity.
To assure that minor impurities in BioIsoFuel.TM. products are not
adversely affecting their material properties, samples can also be
tested for their corrosivity and compatibility with fuel systems by
standard ASTM tests such as Karl Fischer for water and copper strip
for corrosivity.
Fuel Compositions
[0668] The invention provides a fuel composition comprising a fuel
constituent produced by any of the methods and processes described
herein. In some embodiments, the fuel constituent comprises one or
more of the hydrocarbons selected from the group consisting of
saturated C10 and C15 hydrocarbons derived from isoprene and
oxygenated derivatives of isoprene. The hydrocarbon BioIsoFuel.TM.
products are expected to be completely compatible with petroleum
gasoline and diesel. Blends of BioIsoFuel.TM. with commercial
petroleum fuels are expected to have more desirable properties, as
they do not contain acids, sulfur, aromatics, or other undesirable
impurities.
[0669] In some preferred embodiments, the fuel constituent
comprises derivatives of bioisoprene. It is anticipated that there
will be a significant demand for fuels derived from bioisoprene
which is made from renewable, non-petrochemical based resources. It
is believed that industrial customers and consumers would prefer to
purchase fuel components derived from such environmentally friendly
sources to those that are made with isoprene derived from a
petrochemical process. It is further believed that customers would
be willing to pay premium prices for such environmentally friendly
products that are made with renewable resources. Fuel components
derived from bioisoprene compositions described herein offer the
benefit of being verifiable as to be derived from non-petrochemical
based resources.
[0670] In some embodiments, the fuel constituent comprises one or
more of the saturated cyclic C10 hydrocarbons such as
1,2-bis(isopropyl)cyclobutane, 1,2-bis(isopropyl)cyclobutane,
1-methyl-4-isopropylcyclohexane, 1-methyl-3-isopropylcyclohexane,
1-ethyl-1,4-dimethylcyclohexane, 1-ethyl-1,3-dimethylcyclohexane,
1,5-dimethylcyclooctane and 1,4-dimethylcyclooctane. In some
embodiments, the fuel constituent comprises one or more of the
saturated cyclic C15 hydrocarbons such as
1,5,9-trimethylcyclododecane and 1,5,10-trimethylcyclododecane. In
some embodiments, the fuel constituent comprises one or more of the
saturated aliphatic C10 hydrocarbons such as 2,6-dimethyloctane,
2,7-dimethyloctane and 3,6-dimethyloctane. In some embodiments, the
fuel constituent comprises one or more of the saturated aliphatic
C15 hydrocarbons such as 2,6,10-trimethyldodecane,
2,7,10-trimethyldodecane and 3,7,10-trimethyldodecane. In some
embodiments, the fuel constituent comprises 2-methylbutane. In some
embodiments, the fuel constituent comprises one or more of the
hydrocarbons selected from the group consisting of
1,2-bis(isopropyl)cyclobutane, 1,2-bis(isopropyl)cyclobutane,
1-methyl-4-isopropylcyclohexane, 1-methyl-3-isopropylcyclohexane,
1-ethyl-1,4-dimethylcyclohexane, 1-ethyl-1,3-dimethylcyclohexane,
1,5-dimethylcyclooctane, 1,4-dimethylcyclooctane,
1,5,9-trimethylcyclododecane, 1,5,10-trimethylcyclododecane,
2,6-dimethyloctane, 2,7-dimethyloctane, 3,6-dimethyloctane,
2,6,10-trimethyldodecane, 2,7,10-trimethyldodecane,
3,7,10-trimethyldodecane and 2-methylbutane.
[0671] In some embodiments, the fuel constituent comprises one or
more of the saturated hydroxylates such as C5 alcohols and diols
(e.g. 3-methyl-butan-1-ol, 2-methyl-butan-1-ol and
2-methyl-butan-2-ol, 3-methyl-butan-1,3-diol and
2-methyl-butan-2,3-diol), C-10 alcohols and diols (e.g.
3,7-dimethyloctan-1-ol, 2,7-dimethyloctan-1-ol,
2,7-dimethyloctan-2-ol and 2,7-dimethyloctan-2,7-diol) and cyclic
C-10 alcohols (e.g. 2-(4-methylcyclohexyl)propan-2-ol,
2-(4-methylcyclohexyl)propan-1-ol,
2-(1,4-dimethylcyclohexyl)ethanol and
4-ethyl-1,4-dimethylcyclohexanol). In some embodiments, the fuel
constituent comprises one or more of the saturated ethers such as
1,3-diethoxy-3-methylbutane, 1-ethoxy-3-methylbutane,
1-methoxy-2,7-dimethyloctane and 3-methoxy-2,7-dimethyloctane. In
some embodiments, the fuel constituent comprises one or more of the
isoprene derived oxygenates selected from the group consisting of
3-methyl-butan-1-ol, 2-methyl-butan-1-ol, 2-methyl-butan-2-ol,
3-methyl-butan-1,3-diol, 2-methyl-butan-2,3-diol,
3,7-dimethyloctan-1-ol, 2,7-dimethyloctan-1-ol,
2,7-dimethyloctan-2-ol, 2,7-dimethyloctan-2,7-diol,
2-(4-methylcyclohexyl)propan-2-ol,
2-(4-methylcyclohexyl)propan-1-ol,
2-(1,4-dimethylcyclohexyl)ethanol,
4-ethyl-1,4-dimethylcyclohexanol, 1,3-diethoxy-3-methylbutane,
1-ethoxy-3-methylbutane, 1-methoxy-2,7-dimethyloctane and
3-methoxy-2,7-dimethyloctane.
[0672] In some embodiments, the fuel constituent comprises less
than or about 0.5 .mu.g/L a product from a C5 hydrocarbon other
than isoprene after undergoing the steps according to any of the
methods and processes described herein. In one embodiment, the fuel
constituent is substantially free of a product from a C5
hydrocarbon other than isoprene after undergoing the steps
according to any of the methods and processes described herein. In
some embodiments, the fuel constituent comprises less than or about
0.2, 0.12, 0.10, 0.08, 0.06, 0.04, 0.02, 0.01, 0.005, 0.001,
0.0005, 0.0001, 0.00005, or 0.00001% C5 hydrocarbons other than
isoprene (such 1,3-cyclopentadiene, cis-1,3-pentadiene,
trans-1,3-pentadiene, 1,4-pentadiene, 1-pentyne, 2-pentyne,
1-pentene, 2-methyl-1-butene, 3-methyl-1-butyne, pent-4-ene-1-yne,
trans-pent-3-ene-1-yne, or cis-pent-3-ene-1-yne) by weight compared
to the total weight of all C5 hydrocarbons in the starting
composition. In some embodiments, the fuel constituent comprises C5
hydrocarbons other than isoprene (such 1,3-cyclopentadiene,
trans-1,3-pentadiene, cis-1,3-pentadiene, 1,4-pentadiene,
1-pentyne, 2-pentyne, 1-pentene, 2-methyl-1-butene,
3-methyl-1-butyne, pent-4-ene-1-yne, trans-pent-3-ene-1-yne, or
cis-pent-3-ene-1-yne) at a concentration of less than 100, 10, 1,
0.1 or 0.01 ppm.
[0673] It is understood that components other than isoprene in the
bioisoprene compositions described herein will be converted to
different products after undergoing various processes described
herein. The sensitivities of metal-based catalysts used in the
methods/processes to the components other than isoprene are
different depending on the nature and levels of these components.
For the thermal dimerization process, a far wider range of
compounds will be tolerated. In some cases, a component other than
isoprene will react with isoprene to produce adducts, for example
the Diels-Alder reactions of methacrolein and methyl vinyl ketone
with isoprene to give 6-membered products. The unsaturated adducts
can be further hydrogenated to saturated derivatives which are
present in the fuel constituents and compositions, e.g.
1,4-dimethyl-1-(hydroxymethyl)cyclohexane and
1-(1-hydroxyethyl)-4-methylcyclohexane (see Scheme XV).
##STR00016##
[0674] In some embodiments, the fuel constituent comprises a
product from a compound selected from the group consisting of
ethanol, acetone, C5 prenyl alcohols, and isoprenoid compounds with
10 or more carbon atoms after undergoing the steps according to any
of the methods and processes described herein. In some embodiments,
the fuel constituent comprises one or more products from one or
more compounds selected from the group consisting of ethanol,
acetone, methanol, acetaldehyde, methacrolein, methyl vinyl ketone,
2-methyl-2-vinyloxirane, cis- and trans-3-methyl-1,3-pentadiene, a
C5 prenyl alcohol (such as 3-methyl-3-buten-1-ol or
3-methyl-2-buten-1-ol), 2-heptanone, 6-methyl-5-hepten-2-one,
2,4,5-trimethylpyridine, 2,3,5-trimethylpyrazine, citronellal,
methanethiol, methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine
after undergoing the steps according to any of the methods and
processes described herein. In some embodiments, the fuel
constituent comprises one or more compounds selected from the group
consisting of 1,4-dimethyl-1-(hydroxymethyl)cyclohexane,
1-(1-hydroxyethyl)-4-methylcyclohexane, 2-methylbutane,
3-methylpentane, 2-propanol, 2-methyl-1-propanol, 2-butanol,
3-methyl-1-butanol, ethyl acetate and 3-methyl-1-butyl acetate. In
some embodiments, the fuel constituent comprises one or more
compounds selected from the group consisting of
1,4-dimethyl-1-(hydroxymethyl)cyclohexane,
1-(1-hydroxyethyl)-4-methylcyclohexane, 2-methylbutane,
3-methylpentane, 2-propanol, 2-methyl-1-propanol, 2-butanol,
3-methyl-1-butanol, ethyl acetate and 3-methyl-1-butyl acetate at
levels greater than or about 10 ppm, 1 ppm, 100 ppb, 10 ppb or 1
ppb.
[0675] In some embodiments, the fuel constituent comprises one or
more compounds selected from the group consisting of ethanol,
acetone, methanol, acetaldehyde, methacrolein, methyl vinyl ketone,
2-methyl-2-vinyloxirane, cis- and trans-3-methyl-1,3-pentadiene, a
C5 prenyl alcohol (such as 3-methyl-3-buten-1-ol or
3-methyl-2-buten-1-ol), 2-heptanone, 6-methyl-5-hepten-2-one,
2,4,5-trimethylpyridine, 2,3,5-trimethylpyrazine, citronellal,
methanethiol, methyl acetate, 1-propanol, diacetyl, 2-butanone,
2-methyl-3-buten-2-ol, ethyl acetate, 2-methyl-1-propanol,
3-methyl-1-butanal, 3-methyl-2-butanone, 1-butanol, 2-pentanone,
3-methyl-1-butanol, ethyl isobutyrate, 3-methyl-2-butenal, butyl
acetate, 3-methylbutyl acetate, 3-methyl-3-buten-1-yl acetate,
3-methyl-2-buten-1-yl acetate, 3-hexen-1-ol, 3-hexen-1-yl acetate,
limonene, geraniol (trans-3,7-dimethyl-2,6-octadien-1-ol),
citronellol (3,7-dimethyl-6-octen-1-ol),
(E)-3,7-dimethyl-1,3,6-octatriene,
(Z)-3,7-dimethyl-1,3,6-octatriene, and 2,3-cycloheptenolpyridine at
levels greater than or about 10 ppm, 1 ppm, 100 ppb, 10 ppb or 1
ppb.
Carbon Fingerprinting
[0676] BioIsoFuels derived from bioisoprene can be distinguished
from fuels derived form petrochemical carbon on the basis of dual
carbon-isotopic fingerprinting. Additionally, the specific source
of biosourced carbon (e.g. glucose vs. glycerol) can be determined
by dual carbon-isotopic fingerprinting (see, U.S. Pat. No.
7,169,588, which is herein incorporated by reference).
[0677] This method usefully distinguishes chemically-identical
materials, and apportions carbon in products by source (and
possibly year) of growth of the biospheric (plant) component. The
isotopes, .sup.14C and .sup.13C, bring complementary information to
this problem. The radiocarbon dating isotope (.sup.14C), with its
nuclear half life of 5730 years, clearly allows one to apportion
specimen carbon between fossil ("dead") and biospheric ("alive")
feedstocks [Currie, L. A. "Source Apportionment of Atmospheric
Particles," Characterization of Environmental Particles, J. Buffle
and H. P. van Leeuwen, Eds., 1 of Vol. I of the IUPAC Environmental
Analytical Chemistry Series (Lewis Publishers, Inc) (1992) 3 74].
The basic assumption in radiocarbon dating is that the constancy of
.sup.14C concentration in the atmosphere leads to the constancy of
.sup.14C in living organisms. When dealing with an isolated sample,
the age of a sample can be deduced approximately by the
relationship t=(-5730/0.693)ln(A/A.sub.O) (Equation 14) where
t=age, 5730 years is the half-life of radiocarbon, and A and
A.sub.O are the specific .sup.14C activity of the sample and of the
modem standard, respectively [Hsieh, Y., Soil Sci. Soc. Am J., 56,
460, (1992)]. However, because of atmospheric nuclear testing since
1950 and the burning of fossil fuel since 1850, .sup.14C has
acquired a second, geochemical time characteristic. Its
concentration in atmospheric CO.sub.2--and hence in the living
biosphere--approximately doubled at the peak of nuclear testing, in
the mid-1960s. It has since been gradually returning to the
steady-state cosmogenic (atmospheric) baseline isotope rate
(.sup.14C/.sup.12C) of ca. 1.2.times.10.sup.-12, with an
approximate relaxation "half-life" of 7-10 years. (This latter
half-life must not be taken literally; rather, one must use the
detailed atmospheric nuclear input/decay function to trace the
variation of atmospheric and biospheric .sup.14C since the onset of
the nuclear age.) It is this latter biospheric .sup.14C time
characteristic that holds out the promise of annual dating of
recent biospheric carbon. .sup.14C can be measured by accelerator
mass spectrometry (AMS), with results given in units of "fraction
of modem carbon" (f.sub.M). f.sub.M is defined by National
Institute of Standards and Technology (NIST) Standard Reference
Materials (SRMs) 4990B and 4990C, known as oxalic acids standards
HOxI and HOxII, respectively. The fundamental definition relates to
0.95 times the .sup.14C/.sup.12C isotope ratio HOxI (referenced to
AD 1950). This is roughly equivalent to decay-corrected
pre-Industrial Revolution wood. For the current living biosphere
(plant material), f.sub.M.apprxeq.1.1
[0678] The stable carbon isotope ratio (.sup.13C/.sup.12C) provides
a complementary route to source discrimination and apportionment.
The .sup.13C/.sup.12C ratio in a given biosourced material is a
consequence of the .sup.13C/.sup.12C ratio in atmospheric carbon
dioxide at the time the carbon dioxide is fixed and also reflects
the precise metabolic pathway. Regional variations also occur.
Petroleum, C.sub.3 plants (the broadleaf), C.sub.4 plants (the
grasses), and marine carbonates all show significant differences in
.sup.13C/.sup.12C and the corresponding .delta..sup.13C values.
Furthermore, lipid matter of C.sub.3 and C.sub.4 plants analyze
differently than materials derived from the carbohydrate components
of the same plants as a consequence of the metabolic pathway.
Within the precision of measurement, .sup.13C shows large
variations due to isotopic fractionation effects, the most
significant of which for the instant invention is the
photosynthetic mechanism. The major cause of differences in the
carbon isotope ratio in plants is closely associated with
differences in the pathway of photosynthetic carbon metabolism in
the plants, particularly the reaction occurring during the primary
carboxylation, i.e., the initial fixation of atmospheric CO.sub.2.
Two large classes of vegetation are those that incorporate the
"C.sub.3" (or Calvin-Benson) photosynthetic cycle and those that
incorporate the "C.sub.4" (or Hatch-Slack) photosynthetic cycle.
C.sub.3 plants, such as hardwoods and conifers, are dominant in the
temperate climate zones. In C.sub.3 plants, the primary CO.sub.2
fixation or carboxylation reaction involves the enzyme
ribulose-1,5-diphosphate carboxylase and the first stable product
is a 3-carbon compound. C.sub.4 plants, on the other hand, include
such plants as tropical grasses, corn and sugar cane. In C.sub.4
plants, an additional carboxylation reaction involving another
enzyme, phosphoenol-pyruvate carboxylase, is the primary
carboxylation reaction. The first stable carbon compound is a
4-carbon acid which is subsequently decarboxylated. The CO.sub.2
thus released is refixed by the C.sub.3 cycle.
[0679] Both C.sub.4 and C.sub.3 plants exhibit a range of
.sup.13C/.sup.12C isotopic ratios, but typical values are ca. -10
to -14 per mil (C.sub.4) and -21 to -26 per mil (C.sub.3) [Weber et
al., J. Agric. Food Chem., 45, 2942 (1997)]. Coal and petroleum
fall generally in this latter range. The .sup.13C measurement scale
was originally defined by a zero set by pee dee belemnite (PDB)
limestone, where values are given in parts per thousand deviations
from this material. The ".delta..sup.13C", values are in parts per
thousand (per mil), abbreviated .Salinity., and are calculated as
follows (Equation 15):
.delta. 13 C .ident. ( 13 C / 12 C ) sample - ( 13 C / 12 C )
standard ( 13 C / 12 C ) standard .times. 100 % ( Equation 15 )
##EQU00001##
Since the PDB reference material (RM) has been exhausted, a series
of alternative RMs have been developed in cooperation with the
IAEA, USGS, NIST, and other selected international isotope
laboratories. Notations for the per mil deviations from PDB is
.delta..sup.13C. Measurements are made on CO.sub.2 by high
precision stable ratio mass spectrometry (IRMS) on molecular ions
of masses 44, 45 and 46.
[0680] For isoprene derived from extractive distillation of C.sub.5
streams from petroleum refineries, .delta..sup.13C is about
-22.Salinity. to about -24.Salinity.. This range is typical for
light, unsaturated hydrocarbons derived from petroleum, and
products derived from petroleum-based isoprene typically contain
isoprenic units with the same .delta..sup.13C. Bioisoprene produced
by fermentation of corn-derived glucose (.delta..sup.13C
-10.73.Salinity.) with minimal amounts of other carbon-containing
nutrients (e.g., yeast extract) produces isoprene which can be
polymerized into polyisoprene with .delta..sup.13C -14.66.Salinity.
to -14.85.Salinity.. Products produced from such bioisoprene are
expected to have .delta..sup.13C values that are less negative than
those derived from petroleum-based isoprene. For isoprene derived
from the reaction of isobutylene with formaldehyde, .delta..sup.13C
values can be about -34.4.Salinity. because formaldehyde is often
derived from feedstocks with much more negative .delta..sup.13C
values.
[0681] The fuels and fuel constituents of this invention which are
made with isoprene from the cell cultures that utilize
bio-renewable carbon sources can be identified as such by virtue of
their .delta..sup.13C value and other fuel characteristics. In some
embodiments, the fuel constituent derived from bioisoprene has
.delta..sup.13C values of greater (less negative) than
-22.Salinity.. In some embodiments, the fuel constituent derived
from bioisoprene has .delta..sup.13C values of greater than -20,
-18, -16, -14, -12, or -10.Salinity.. In some embodiments, the fuel
constituent derived from bioisoprene has a .delta..sup.13C value
which is within the range of -22 to -10, -21 to -12, or -20 to
-14.Salinity.. In some embodiments, the fuel constituent derived
from bioisoprene has a .delta..sup.13C value which is within the
range of -34 to -24, -34 to -25, -33 to -25, -32 to -24, -32 to
-25, -31 to -25, -30 to -29, -30.0 to -29.5, -29.5 to -28.5, or
-29.0 to -28.5.Salinity..
[0682] In some embodiments, the fuel constituent derived from
bioisoprene comprises radioactive carbon-14. In some embodiments,
the .sup.14C/.sup.12C ratio is greater than or about
1.0.times.10.sup.-12, 1.05.times.10.sup.-12, 1.1.times.10.sup.-12,
1.15.times.10.sup.-12, or 1.2.times.10.sup.-12. In some
embodiments, the fuel constituent derived from bioisoprene has an
f.sub.M value of greater than or about 0.9, 0.95, 1.0, 1.05 or 1.1.
In some embodiments, the fuel constituent derived from bioisoprene
has an f.sub.M value of greater than or about 0.9, 0.95, 1.0, 1.05
or 1.1 and .delta..sup.13C values of greater (less negative) than
-22.Salinity.. In some embodiments, the fuel constituent derived
from bioisoprene has an f.sub.M value of greater than or about 0.9,
0.95, 1.0, 1.05 or 1.1 and a .delta..sup.13C value which is within
the range of -22 to -10, -21 to -12, or -20 to -14.Salinity.. In
some embodiments, the fuel constituent derived from bioisoprene has
an f.sub.M value of greater than or about 0.9, 0.95, 1.0, 1.05 or
1.1 and a .delta..sup.13C value which is within the range of -34 to
-24, -34 to -25, -33 to -25, -32 to -24, -32 to -25, -31 to -25,
-30 to -29, -30.0 to -29.5, -29.5 to -28.5, or -29.0 to
-28.5.Salinity..
[0683] The bioisoprene derivatives and the associated BioIsoFuels,
intermediates, and mixtures may be completely distinguished from
their petrochemical derived counterparts on the basis of .sup.14C
(f.sub.M) and dual carbon-isotopic fingerprinting, indicating new
compositions of matter.
[0684] In some embodiments, the fuel constituent of the invention
has an energy density higher than that of ethanol. In some
embodiments, the fuel constituent boosts the cetane number of a
fuel, e.g., a petroleum-based fuel. In some embodiments, the fuel
constituent reduces emission of petroleum based fuels. In some
embodiments, the fuel composition has an octane number in the range
between about 80 to about 120. In some embodiments, the fuel
composition has a cetane number in the range between about 30 to
about 130.
[0685] In some embodiments, a fuel composition of the invention
comprises one or more dimethylcyclooctane compounds. In some
embodiments, a fuel composition of the invention comprises one or
more C10 hydrocarbons such as substituted cyclohexanes. In some
embodiments, a fuel composition of the invention comprises one or
more isoprene derived oxygenates described herein. In some
embodiments, any of the fuel compositions described herein further
comprises a petroleum based fuel in the amount of from about 1% to
about 95% by weight or volume, based on the total weight or volume
of the total fuel composition.
[0686] The invention further provides methods for making a fuel
composition comprising obtaining a petroleum distillate and adding
a fuel constituent of the invention.
[0687] The invention can be further understood by reference to the
following examples, which are provided by way of illustration and
are not meant to be limiting.
EXAMPLES
Example 1
Production of Isoprene in E. coli Expressing Recombinant Kudzu
Isoprene Synthase
[0688] I. Construction of Vectors for Expression of the Kudzu
Isoprene Synthase in E. coli
[0689] The protein sequence for the kudzu (Pueraria montana)
isoprene synthase gene (IspS) was obtained from GenBank (AAQ84170).
A kudzu isoprene synthase gene, optimized for E. coli codon usage,
was purchased from DNA2.0 (SEQ ID NO:1). The isoprene synthase gene
was removed from the supplied plasmid by restriction endonuclease
digestion with BspLU11I/PstI, gel-purified, and ligated into
pTrcHis2B (Invitrogen) that had been digested with NcoI/PstI. The
construct was designed such that the stop codon in the isoprene
synthase gene 5' to the PstI site. As a result, when the construct
was expressed the His-Tag is not attached to the isoprene synthase
protein. The resulting plasmid, pTrcKudzu, was verified by
sequencing (FIGS. 2 and 3; SEQ ID NO:2).
[0690] The isoprene synthase gene was also cloned into pET16b
(Novagen). In this case, the isoprene synthase gene was inserted
into pET16b such that the recombinant isoprene synthase protein
contained the N-terminal His tag. The isoprene synthase gene was
amplified from pTrcKudzu by PCR using the primer set
pET-His-Kudzu-2F: 5'-CGTGAGATCATATGTGTGCGACCTCTTCTCAATTTAC (SEQ ID
NO:49) and pET-His-Kudzu-R:
5'-CGGTCGACGGATCCCTGCAGTTAGACATACATCAGCTG (SEQ ID NO:50). These
primers added an NdeI site at the 5'-end and a BamH1 site at the 3'
end of the gene respectively. The plasmid pTrcKudzu, described
above, was used as template DNA, Herculase polymerase (Stratagene)
was used according to manufacture's directions, and primers were
added at a concentration of 10 pMols. The PCR was carried out in a
total volume of 25 .mu.l. The PCR product was digested with
NdeI/BamH1 and cloned into pET16b digested with the same enzymes.
The ligation mix was transformed into E. coli Top10 (Invitrogen)
and the correct clone selected by sequencing. The resulting
plasmid, in which the kudzu isoprene synthase gene was expressed
from the T7 promoter, was designated pETNHisKudzu (FIGS. 4 and 5;
SEQ ID NO:3).
[0691] The kudzu isoprene synthase gene was also cloned into the
low copy number plasmid pCL1920. Primers were used to amplify the
kudzu isoprene synthase gene from pTrcKudzu described above. The
forward primer added a HindIII site and an E. coli consensus RBS to
the 5' end. The PstI cloning site was already present in pTrcKudzu
just 3' of the stop codon so the reverse primer was constructed
such that the final PCR product includes the PstI site. The
sequences of the primers were: HindIII-rbs-Kudzu F:
5'-CATATGAAAGCTTGTATCGATTAAATAAGGAGGAATAAACC (SEQ ID NO:51) and
BamH1-Kudzu R:
[0692] 5'-CGGTCGACGGATCCCTGCAGTTAGACATACATCAGCTG (SEQ ID NO:50).
The PCR product was amplified using Herculase polymerase with
primers at a concentration of 10 pmol and with 1 ng of template DNA
(pTrcKudzu). The amplification protocol included 30 cycles of
(95.degree. C. for 1 minute, 60.degree. C. for 1 minute, 72.degree.
C. for 2 minutes). The product was digested with HindIII and PstI
and ligated into pCL1920 which had also been digested with HindIII
and PstI. The ligation mix was transformed into E. coli Top10.
Several transformants were checked by sequencing. The resulting
plasmid was designated pCL-lac-Kudzu (FIGS. 6 and 7; SEQ ID
NO:4).
II. Determination of Isoprene Production
[0693] For the shake flask cultures, one ml of a culture was
transferred from shake flasks to 20 ml CTC headspace vials (Agilent
vial cat#5188 2753; cap cat#5188 2759). The cap was screwed on
tightly and the vials incubated at the equivalent temperature with
shaking at 250 rpm. After 30 minutes the vials were removed from
the incubator and analyzed as described below (see Table 1 for some
experimental values from this assay).
[0694] In cases where isoprene production in fermentors was
determined, samples were taken from the off-gas of the fermentor
and analyzed directly as described below (see Table 2 for some
experimental values from this assay).
[0695] The analysis was performed using an Agilent 6890 GC/MS
system interfaced with a CTC Analytics (Switzerland) CombiPAL
autosampler operating in headspace mode. An Agilent HP-5MS GC/MS
column (30 m.times.0.25 mm; 0.25 .mu.m film thickness) was used for
separation of analytes. The sampler was set up to inject 500 .mu.L
of headspace gas. The GC/MS method utilized helium as the carrier
gas at a flow of 1 ml/min. The injection port was held at
250.degree. C. with a split ratio of 50:1. The oven temperature was
held at 37.degree. C. for the 2 minute duration of the analysis.
The Agilent 5793N mass selective detector was run in single ion
monitoring (SIM) mode on m/z 67. The detector was switched off from
1.4 to 1.7 minutes to allow the elution of permanent gases. Under
these conditions isoprene (2-methyl-1,3-butadiene) was observed to
elute at 1.78 minutes. A calibration table was used to quantify the
absolute amount of isoprene and was found to be linear from 1
.mu.g/L to 70,000 .mu.g/L. The limit of detection was estimated to
be 50 to 100 ng/L using this method.
III. Production of Isoprene in Shake Flasks Containing E. coli
Cells Expressing Recombinant Isoprene Synthase
[0696] The vectors described above were introduced to E. coli
strain BL21 (Novagen) to produce strains BL21/ptrcKudzu,
BL21/pCL-lac-Kudzu and BL21/pETHisKudzu. The strains were spread
for isolation onto LA (Luria agar)+carbenicillin (50 .mu.g/ml) and
incubated overnight at 37.degree. C. Single colonies were
inoculated into 250 ml baffled shake flasks containing 20 ml Luria
Bertani broth (LB) and carbenicillin (100 .mu.g/ml). Cultures were
grown overnight at 20.degree. C. with shaking at 200 rpm. The
OD.sub.600 of the overnight cultures were measured and the cultures
were diluted into a 250 ml baffled shake flask containing 30 ml
MagicMedia (Invitrogen)+carbenicillin (100 .mu.g/ml) to an
OD.sub.600 .about.0.05. The culture was incubated at 30.degree. C.
with shaking at 200 rpm. When the OD.sub.600 .about.0.5-0.8, 400
.mu.M IPTG was added and the cells were incubated for a further 6
hours at 30.degree. C. with shaking at 200 rpm. At 0, 2, 4 and 6
hours after induction with IPTG, 1 ml aliquots of the cultures were
collected, the OD.sub.600 was determined and the amount of isoprene
produced was measured as described above. Results are shown in FIG.
8.
IV. Production of Isoprene from BL21/ptrcKudzu in 14 Liter
Fermentation
[0697] Large scale production of isoprene from E. coli containing
the recombinant kudzu isoprene synthase gene was determined from a
fed-batch culture. The recipe for the fermentation media (TM2) per
liter of fermentation medium was as follows: K.sub.2HPO.sub.4 13.6
g, KH.sub.2PO.sub.4 13.6 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid
monohydrate 2 g, ferric ammonium citrate 0.3 g,
(NH.sub.4).sub.2SO.sub.4 3.2 g, yeast extract 5 g, 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. The pH was adjusted to
6.8 with potassium hydroxide (KOH) and q.s. to volume. The final
product was filter sterilized with 0.22.mu. filter (only, do not
autoclave). The recipe for 1000.times. Modified Trace Metal
Solution was as follows: Citric Acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in diH.sub.2O, pH to 3.0 with
HCl/NaOH, then q.s. to volume and filter sterilized with a 0.22.mu.
filter.
[0698] This experiment was carried out in 14 L bioreactor to
monitor isoprene formation from glucose at the desired
fermentation, pH 6.7 and temperature 34.degree. C. An inoculum of
E. coli strain BL21/ptrcKudzu taken from a frozen vial was prepared
in soytone-yeast extract-glucose medium. After the inoculum grew to
OD.sub.550=0.6, two 600 ml flasks were centrifuged and the contents
resuspended in 70 ml supernatant to transfer the cell pellet (70 ml
of OD 3.1 material) to the bioreactor. At various times after
inoculation, samples were removed and the amount of isoprene
produced was determined as described above. Results are shown in
FIG. 9.
Example 2
Production of Isoprene in E. coli Expressing Recombinant Poplar
Isoprene Synthase
[0699] The protein sequence for the poplar (Populus
alba.times.Populus tremula) isoprene synthase (Schnitzler, J-P, et
al. (2005) Planta 222:777-786) was obtained from GenBank
(CAC35696). A gene, codon optimized for E. coli, was purchased from
DNA2.0 (p9796-poplar, FIGS. 30 and 31; SEQ ID NO:14). The isoprene
synthase gene was removed from the supplied plasmid by restriction
endonuclease digestion with BspLU11I/PstI, gel-purified, and
ligated into pTrcHis2B that had been digested with NcoI/PstI. The
construct is cloned such that the stop codon in the insert is
before the PstI site, which results in a construct in which the
His-Tag is not attached to the isoprene synthase protein. The
resulting plasmid pTrcPoplar (FIGS. 32 and 33; SEQ ID NO:15), was
verified by sequencing.
Example 2B
Demonstration of Isoprene Synthase Activity from Several Populus
Isoprene Synthases
[0700] The following isoprene synthases were examined; Populus alba
(Accession number BAD98243; FIGS. 137A and B; SEQ ID NO:30),
Populus nigra (Accession number CAL69918; FIGS. 137C and D; SEQ ID
NO:31), Populus tremuloides (Accession number AAQ16588; FIG. 137 E,
F, and G; SEQ ID NOs:32-33), Populus trichocarpa (Accession number
ACD70404; FIGS. 137H and I; SEQ ID NO:34), Populus
alba.times.Populus tremula (Accession number CAJ29303; FIGS. 137J
and K; SEQ ID NO:35), and MCM112-Kudzu.
[0701] pET24Kudzu (also referred to as MCM112) was constructed as
follows: the kudzu isoprene synthase gene was subcloned into the
pET24d vector (Novagen) from the pCR2.1 vector (Invitrogen). The
kudzu IspS gene was amplified from pTrcKudzu template DNA using
primers MCM50 5'-GATCATGCAT TCGCCCTTAG
GAGGTAAAAAAACATGTGTGCGACCTCTTCTCAATTTACT (SEQ ID NO:52); and MCM53
5'-CGGTCGACGGATCCCTGCAGTTAGACATAC ATCAGCTG (SEQ ID NO:50). PCR
reactions were carried out using Taq DNA Polymerase (Invitrogen),
and the resulting PCR product was cloned into pCR2.1-TOPO TA
cloning vector (Invitrogen), and transformed into E. coli Top10
chemically competent cells (Invitrogen). Transformants were plated
on L-agar containing carbenicillin (50 .mu.g/ml) and incubated
overnight at 37.degree. C. Five ml Luria Broth cultures containing
carbenicillin 50 .mu.g/ml were inoculated with single transformants
and grown overnight at 37.degree. C. Five colonies were screened
for the correct insert by sequencing of plasmid DNA isolated from 1
ml of liquid culture (Luria Broth) and purified using the QIAprep
Spin Mini-prep Kit (Qiagen). The resulting plasmid, designated
MCM93, contains the kudzu IspS coding sequence in a pCR2.1 backbone
(FIG. 137L). The sequence of MCM93 (SEQ ID NO:36) is shown in FIGS.
137M and N.
[0702] The kudzu coding sequence was removed by restriction
endonuclease digestion with PciI and BamH1 (Roche) and gel purified
using the QIAquick Gel Extraction kit (Qiagen). The pET24d vector
DNA was digested with NcoI and BamHI (Roche), treated with shrimp
alkaline phosphatase (Roche), and purified using the QIAprep Spin
Mini-prep Kit (Qiagen). The kudzu IspS fragment was ligated to the
NcoI/BamH1 digested pET24d using the Rapid DNA Ligation Kit (Roche)
at a 5:1 fragment to vector ratio in a total volume of 20 .mu.l. A
portion of the ligation mixture (5 .mu.l) was transformed into E.
coli Top 10 chemically competent cells and plated on L agar
containing kanamycin (50 .mu.g/ml). The correct transformant was
confirmed by sequencing and transformed into chemically competent
BL21(.lamda.DE3)pLysS cells (Novagen). A single colony was selected
after overnight growth at 37.degree. C. on L agar containing
kanamycin (50 .mu.g/ml). A map of the resulting plasmid designated
as pET24D-Kudzu is shown in FIG. 137O. The sequence of pET24D-Kudzu
(SEQ ID NO:37) is shown in FIGS. 137P and Q.
[0703] Escherichia coli optimized isoprene synthase genes cloned
into the pET24a expression vector (Novagen) were purchased from
DNA2.0 (Menlo Park, Calif.) for Populus tremuloides, Populus alba,
Populus nigra and Populus trichocarpa. Genes were synthesized with
the chloroplast transit peptide sequence removed, resulting in
expression of mature proteins.
[0704] The construct for the Kudzu isoprene synthase was used as
control in this example. The plasmids were transformed into the E.
coli expression host BL21(DE3)plysS and transformants were grown in
0.6 ml TM3 medium. The recipe for TM3 medium is as follows:
K.sub.2HPO.sub.4 (13.6 g/l) KH.sub.2PO.sub.4 (13.6 g/l),
MgSO.sub.4*7H.sub.2O (2 g/L) Citric Acid Monohydrate (2 g/L) Ferric
Ammonium Citrate (0.3 g/L) (NH.sub.4).sub.2SO.sub.4 (3.2 g/L) yeast
extract (0.2 g/L) 1 ml of 1000.times. Trace Elements solution, pH
adjusted to 6.8 with ammonium hydroxide qs to volume with sterile
DI H.sub.2O and filter sterilized with a 0.22 micron filter. The
recipe for 1000.times. Trace Elements solution is as follows:
Citric Acids*H.sub.2O (40 g/L), MnSO.sub.4*H.sub.2O (30 g/L), NaCl
(10 g/L), FeSO.sub.4*7H.sub.2O (1 g/L), CoCl.sub.2*6H.sub.2O (1
g/L), ZnSO.sub.4*7H.sub.2O (1 g/L), CuSO.sub.4*5H.sub.2O (100
mg/L), H.sub.3BO.sub.3 (100 mg/L), NaMoO.sub.4*2H.sub.2O (100
mg/L). Each component was dissolved one at a time in DI H.sub.2O,
pH adjusted to 3.0 with HCl/NaOH, qs to volume and filter
sterilized with a 0.22 micron filter.
[0705] The cultures were induced with 400 .mu.M IPTG and growth was
continued to OD.sub.600 of about 5. Aliquots of culture were
transferred to a deep well glass plate and wells were sealed with
aluminum plate sealer. The plate was incubated at 25.degree. C. for
30 minutes with shaking at 450 rpm. The reactions were heat
inactivated by raising the temperature to 70.degree. C. for 5
minutes. Whole cell head space was measured by the GCMS method as
described in Example 1, Part II.
[0706] K.sub.m values were obtained from cultures grown in similar
manner but cells were harvested and lysed by a freeze/thaw lysozyme
protocol. A volume of 400 .mu.L of culture was transferred into a
new 96-well plate (Perkin Elmer, Catalog No. 6008290) and cells
were harvested by centrifugation in a Beckman Coulter Allegra 6R
centrifuge at 2500.times.g. The pellet was resuspended in 200 mL of
hypotonic buffer (5 mM MgCL.sub.2, 5 mM Tris HCl, 5 mM DTT pH 8.0)
and the plate was frozen at -80.degree. C. for a minimum time of 60
minutes. Cell lysate was prepared by thawing the plate and adding
32 mL of isoprene synthase DMAPP assay buffer (57 mM Tris HCl, 19
mM MgCl.sub.2, 74 mg/mL DNase I (Sigma Catalog No. DN-25),
2.63.times.10.sup.5 U/mL of ReadyLyse lysozyme solution (Epicentre
Catalog No. R1802M), and 5 mg/mL of molecular biology grade BSA.
The plate was incubated with shaking at 25.degree. C. for 30
minutes and then placed on ice. DMAPP and lysate were added at
desired concentration in a sealed deep well glass block for the
whole cell head space assay described above. The reactions were
allowed to proceed for 1 hour and then terminated by the heat step
described above and head space activity was measured also as
described.
[0707] In an alternate approach, the activity of the enzymes was
measured from cells cultured in 25 mL volume and induced similarly
as described above. Cells were harvested by centrifugation and the
pellets were lysed by French pressing in buffer consisting of 50%
glycerol mixed 1:1 with 20 mM Tris/HCl pH 7.4, 20 mM MgCl.sub.2,
200 mM KCl, 1 mM DTT. A lysate volume of 25 .mu.L was assayed for
isoprene synthase activity in 2 mL screw cap vials containing 75
.mu.L of assay buffer (66.6 mM Tris/HCl pH 8, 6.66 mM DMAPP, 43 mM,
MgCl.sub.2). The reaction was incubated for 15 minutes at
30.degree. C. and was quenched by the addition of 100 .mu.L of 250
mM EDTA through the septum of the vial. Isoprene was measured by
GC/MS as described in Example 1, Part II.
[0708] All methods for the determination of activity showed that
the poplar enzyme derived from the pure bred poplars were
several-fold higher than the Populus [alba.times.tremula]. FIGS.
138 and 139 showed these results for the whole cell head space
assay and the DMAPP assay, respectively, and surprisingly indicate
that enzymes from P. nigra, P. tremuloides, P. trichocarpa, and P.
alba all had significantly higher activity than hybrid [P.
alba.times.P. tremula].
[0709] The DMAPP assay was performed as follows: a volume of 400
.mu.L of culture was transferred into a new 96-well plate (Perkin
Elmer, Catalog No. 6008290) and cells were harvested by
centrifugation in a Beckman Coulter Allegra 6R centrifuge at
2500.times.g. The pellet was resuspended in 200 mL of hypotonic
buffer (5 mM MgCL.sub.2, 5 mM Tris HCl, 5 mM DTT pH 8.0) and the
plate was frozen at -80.degree. C. for a minimum time of 60
minutes. Cell lysate was prepared by thawing the plate and adding
32 mL of isoprene synthase DMAPP assay buffer (57 mM Tris HCl, 19
mM MgCl.sub.2, 74 mg/mL DNase I (Sigma Catalog No. DN-25),
2.63.times.10.sup.5 U/mL of ReadyLyse lysozyme solution (Epicentre
Catalog No. R1802M), and 5 mg/mL of molecular biology grade BSA.
The plate was incubated with shaking at 25.degree. C. for 30
minutes and then placed on ice. For isoprene production an 80 mL
aliquot of lysate was transferred to a 96-deep well glass plate
(Zinsser Catalog No. 3600600) and 20 mL of a 10 mM DMAPP solution
in 100 mM KHPO.sub.4, pH 8.2 (Cayman Chemical Catalog No. 63180)
was added. The plate was sealed with an aluminum plate seal
(Beckman Coultor Catalog No. 538619) and incubated with shaking at
30.degree. C. for 60 minutes. The enzymatic reactions were
terminated by heating the glass block (70.degree. C. for 5
minutes). The cell head space of each well was quantitatively
analyzed as described in Example 1, Part II.
[0710] Notably, P. alba, P. tremuloides, P. trichocarpa had higher
activity than the isoprene synthase from Kudzu. The enzyme from P.
alba was expressed with the greatest activity of all enzymes
tested. The higher activities observed with the cell lysate
compared to the whole cell head space assay was likely due to
limitations in DMAPP, the substrate for these enzymes, delivered by
the endogenous deoxyxylulose 5-phosphate (DXP) pathway of the
cell.
[0711] K.sub.m kinetic parameter was measured to be about 2 to 3 mM
for all enzymes for which the value was determined.
Example 3
Production of Isoprene in Panteoa citrea Expressing Recombinant
Kudzu Isoprene Synthase
[0712] The pTrcKudzu and pCL-lac Kudzu plasmids described in
Example 1 were electroporated into P. citrea (U.S. Pat. No.
7,241,587). Transformants were selected on LA containing
carbenicillin (200 .mu.g/ml) or spectinomycin (50 .mu.g/ml)
respectively. Production of isoprene from shake flasks and
determination of the amount of isoprene produced was performed as
described in Example 1 for E. coli strains expressing recombinant
kudzu isoprene synthase. Results are shown in FIG. 10.
Example 4
Production of Isoprene in Bacillus subtilis Expressing Recombinant
Kudzu Isoprene Synthase
[0713] I. Construction of a B. subtilis Replicating Plasmid for the
Expression of Kudzu Isoprene Synthase
[0714] The kudzu isoprene synthase gene was expressed in Bacillus
subtilis aprEnprE Pxyl-comK strain (BG3594comK) using a replicating
plasmid (pBS19 with a chloramphenicol resistance cassette) under
control of the aprE promoter. The isoprene synthase gene, the aprE
promoter and the transcription terminator were amplified separately
and fused using PCR. The construct was then cloned into pBS19 and
transformed into B. subtilis.
a) Amplification of the aprE Promoter
[0715] The aprE promoter was amplified from chromosomal DNA from
Bacillus subtilis using the following primers:
TABLE-US-00003 CF 797 (+) Start aprE promoter MfeI (SEQ ID NO: 53)
5'- GACATCAATTGCTCCATTTTCTTCTGCTATC CF 07-43 (-) Fuse aprE promoter
to Kudzu ispS (SEQ ID NO: 54) 5'-
ATTGAGAAGAGGTCGCACACACTCTTTACCCTCTCCTTTTA
b) Amplification of the Isoprene Synthase Gene
[0716] The kudzu isoprene synthase gene was amplified from plasmid
pTrcKudzu (SEQ ID NO:2). The gene had been codon optimized for E.
coli and synthesized by DNA 2.0. The following primers were
used:
TABLE-US-00004 CF 07-42 (+) Fuse the aprE promoter to kudzu
isoprene synthase gene (GTG start codon) (SEQ ID NO: 55) 5'-
TAAAAGGAGAGGGTAAAGAGTGTGTGCGACCTCTTCTCAAT CF 07-45 (-) Fuse the 3'
end of kudzu isoprene synthase gene to the terminator (SEQ ID NO:
56) 5'- CCAAGGCCGGTTTTTTTTAGACATACATCAGCTGGTTAATC
c) Amplification of the Transcription Terminator
[0717] The terminator from the alkaline serine protease of Bacillus
amyliquefaciens was amplified from a previously sequenced plasmid
pJHPms382 using the following primers:
TABLE-US-00005 CF 07-44 (+) Fuse the 3' end of kudzu isoprene
synthase to the terminator (SEQ ID NO: 57) 5'-
GATTAACCAGCTGATGTATGTCTAAAAAAAACCGGCCTTGG CF 07-46 (-) End of B.
amyliquefaciens terminator (BamHI) (SEQ ID NO: 58) 5'-
GACATGACGGATCCGATTACGAATGCCGTCTC
[0718] The kudzu fragment was fused to the terminator fragment
using PCR with the following primers:
TABLE-US-00006 CF 07-42 (+) Fuse the aprE promoter to kudzu
isoprene synthase gene (GTG start codon) (SEQ ID NO: 55) 5'-
TAAAAGGAGAGGGTAAAGAGTGTGTGCGACCTCTTCTCAAT CF 07-46 (-) End of B.
amyliquefaciens terminator (BamHI) (SEQ ID NO: 58) 5'-
GACATGACGGATCCGATTACGAATGCCGTCTC
[0719] The kudzu-terminator fragment was fused to the promoter
fragment using PCR with the following primers:
TABLE-US-00007 CF 797 (+) Start aprE promoter MfeI (SEQ ID NO: 53)
5'- GACATCAATTGCTCCATTTTCTTCTGCTATC CF 07-46 (-) End of B.
amyliquefaciens terminator (BamHI) (SEQ ID NO: 58) 5'-
GACATGACGGATCCGATTACGAATGCCGTCTC
[0720] The fusion PCR fragment was purified using a Qiagen kit and
digested with the restriction enzymes MfeI and BamHI. This digested
DNA fragment was gel purified using a Qiagen kit and ligated to a
vector known as pBS19, which had been digested with EcoRI and BamHI
and gel purified.
[0721] The ligation mix was transformed into E. coli Top 10 cells
and colonies were selected on LA+50 carbenicillin plates. A total
of six colonies were chosen and grown overnight in LB+50
carbenicillin and then plasmids were isolated using a Qiagen kit.
The plasmids were digested with EcoRI and BamHI to check for
inserts and three of the correct plasmids were sent in for
sequencing with the following primers:
TABLE-US-00008 CF 149 (+) EcoRI start of aprE promoter (SEQ ID NO:
59) 5' - GACATGAATTCCTCCATTTTCTTCTGC CF 847 (+) Sequence in pXX 049
(end of aprE promoter) (SEQ ID NO: 60) 5' - AGGAGAGGGTAAAGAGTGAG CF
07-45 (-) Fuse the 3' end of kudzu isoprene synthase to the
terminator (SEQ ID NO: 56) 5' -
CCAAGGCCGGTTTTTTTTAGACATACATCAGCTGGTTAATC CF 07-48 (+) Sequencing
primer for kudzu isoprene synthase (SEQ ID NO: 61) 5' -
CTTTTCCATCACCCACCTGAAG CF 07-49 (+) Sequencing in kudzu isoprene
synthase (SEQ ID NO: 62) 5' - GGCGAAATGGTCCAACAACAAAATTATC
[0722] The plasmid designated pBS Kudzu #2 (FIGS. 52 and 12; SEQ ID
NO:5) was correct by sequencing and was transformed into BG 3594
comK, a Bacillus subtilis host strain. Selection was done on LA+5
chloramphenicol plates. A transformant was chosen and struck to
single colonies on LA+5 chloramphenicol, then grown in LB+5
chloramphenicol until it reached an OD.sub.600 of 1.5. It was
stored frozen in a vial at -80.degree. C. in the presence of
glycerol. The resulting strain was designated CF 443.
II. Production of Isoprene in Shake Flasks Containing B. subtilis
Cells Expressing Recombinant Isoprene Synthase
[0723] Overnight cultures were inoculated with a single colony of
CF 443 from a LA+Chloramphenicol (Cm, 25 .mu.g/ml). Cultures were
grown in LB+Cm at 37.degree. C. with shaking at 200 rpm. These
overnight cultures (1 ml) were used to inoculate 250 ml baffled
shake flasks containing 25 ml Grants II media and chloramphenicol
at a final concentration of 25 .mu.g/ml. Grants II Media recipe was
10 g soytone, 3 ml 1M K.sub.2HPO.sub.4, 75 g glucose, 3.6 g urea,
100 ml 10.times.MOPS, q.s. to 1 L with H.sub.2O, pH 7.2;
10.times.MOPS recipe was 83.72 g MOPS, 7.17 g tricine, 12 g KOH
pellets, 10 ml 0.276M K.sub.2SO.sub.4 solution, 10 ml 0.528M
MgCl.sub.2 solution, 29.22 g NaCl, 100 ml 100.times.
micronutrients, q.s. to 1 L with H.sub.2O; and 100.times.
micronutrients recipe was 1.47 g CaCl.sub.2*2H.sub.2O, 0.4 g
FeSO.sub.4*7H.sub.2O, 0.1 g MnSO.sub.4*H.sub.2O, 0.1 g
ZnSO.sub.4*H.sub.2O, 0.05 g CuCl.sub.2*2H.sub.2O, 0.1 g
CoCl.sub.2*6H.sub.2O, 0.1 g Na.sub.2MoO.sub.4*2H.sub.2O, q.s. to 1
L with H.sub.2O, Shake flasks were incubated at 37.degree. C. and
samples were taken at 18, 24, and 44 hours. At 18 hours the
headspaces of CF443 and the control strain were sampled. This
represented 18 hours of accumulation of isoprene. The amount of
isoprene was determined by gas chromatography as described in
Example 1. Production of isoprene was enhanced significantly by
expressing recombinant isoprene synthase (FIG. 11).
III. Production of Isoprene by CF443 in 14 L Fermentation
[0724] Large scale production of isoprene from B. subtilis
containing the recombinant kudzu isoprene synthase gene on a
replication plasmid was determined from a fed-batch culture.
Bacillus strain CF 443, expressing a kudzu isoprene synthase gene,
or control stain which does not express a kudzu isoprene synthase
gene were cultivated by conventional fed-batch fermentation in a
nutrient medium containing soy meal (Cargill), sodium and potassium
phosphate, magnesium sulfate and a solution of citric acid, ferric
chloride and manganese chloride. Prior to fermentation the media is
macerated for 90 minutes using a mixture of enzymes including
cellulases, hemicellulases and pectinases (see, WO95/04134). 14-L
batch fermentations are fed with 60% wt/wt glucose (Cargill DE99
dextrose, ADM Versadex greens or Danisco invert sugar) and 99%
wt/wt oil (Western Family soy oil, where the 99% wt/wt is the
concentration of oil before it was added to the cell culture
medium). Feed was started when glucose in the batch was
non-detectable. The feed rate was ramped over several hours and was
adjusted to add oil on an equal carbon basis. The pH was controlled
at 6.8-7.4 using 28% w/v ammonium hydroxide. In case of foaming,
antifoam agent was added to the media. The fermentation temperature
was controlled at 37.degree. C. and the fermentation culture was
agitated at 750 rpm. Various other parameters such as pH, DO %,
airflow, and pressure were monitored throughout the entire process.
The DO % is maintained above 20. Samples were taken over the time
course of 36 hours and analyzed for cell growth (OD.sub.550) and
isoprene production. Results of these experiments are presented in
FIGS. 53A and 53B.
IV. Integration of the Kudzu Isoprene Synthase (ispS) in B.
subtilis.
[0725] The kudzu isoprene synthase gene was cloned in an
integrating plasmid (pJH101-cmpR) under the control of the aprE
promoter. Under the conditions tested, no isoprene was
detected.
Example 5
Production of Isoprene in Trichoderma
[0726] I. Construction of Vectors for Expression of the Kudzu
Isoprene Synthase in Trichoderma reesei
[0727] The Yarrowia lipolytica codon-optimized kudzu IS gene was
synthesized by DNA 2.0 (SEQ ID NO:6) (FIG. 13). This plasmid served
as the template for the following PCR amplification reaction: 1
.mu.l plasmid template (20 ng/ul), 1 .mu.l Primer EL-945 (10 .mu.M)
5'-GCTTATGGATCCTCTAGACTATTACACGTACATCAATTGG (SEQ ID NO:63), 1 .mu.l
Primer EL-965 (10 .mu.M) 5'-CACCATGTGTGCAACCTCCTCCCAGTTTAC (SEQ ID
NO:64), 1 .mu.l dNTP (10 mM), 5 .mu.l 10.times.PfuUltra II Fusion
HS DNA Polymerase Buffer, 1 .mu.l PfuUltra II Fusion HS DNA
Polymerase, 40 .mu.l water in a total reaction volume of 50 .mu.l.
The forward primer contained an additional 4 nucleotides at the
5'-end that did not correspond to the Y. lipolytica codon-optimized
kudzu isoprene synthase gene, but was required for cloning into the
pENTR/D-TOPO vector. The reverse primer contained an additional 21
nucleotides at the 5'-end that did not correspond to the Y.
lipolytica codon-optimized kudzu isoprene synthase gene, but were
inserted for cloning into other vector backbones. Using the MJ
Research PTC-200 Thermocycler, the PCR reaction was performed as
follows: 95.degree. C. for 2 minutes (first cycle only), 95.degree.
C. for 30 seconds, 55.degree. C. for 30 seconds, 72.degree. C. for
30 seconds (repeat for 27 cycles), 72.degree. C. for 1 minute after
the last cycle. The PCR product was analyzed on a 1.2% E-gel to
confirm successful amplification of the Y. lipolytica
codon-optimized kudzu isoprene synthase gene.
[0728] The PCR product was then cloned using the TOPO pENTR/D-TOPO
Cloning Kit following manufacturer's protocol: 1 .mu.l PCR
reaction, 1 .mu.l Salt solution, 1 .mu.l TOPO pENTR/D-TOPO vector
and 3 .mu.l water in a total reaction volume of 6 .mu.l. The
reaction was incubated at room temperature for 5 minutes. One
microliter of TOPO reaction was transformed into TOP10 chemically
competent E. coli cells. The transformants were selected on LA+50
.mu.g/ml kanamycin plates. Several colonies were picked and each
was inoculated into a 5 ml tube containing LB+50 .mu.g/ml kanamycin
and the cultures grown overnight at 37.degree. C. with shaking at
200 rpm. Plasmids were isolated from the overnight culture tubes
using QIAprep Spin Miniprep Kit, following manufacturer's protocol.
Several plasmids were sequenced to verify that the DNA sequence was
correct.
[0729] A single pENTR/D-TOPO plasmid, encoding a Y. lipolytica
codon-optimized kudzu isoprene synthase gene, was used for Gateway
Cloning into a custom-made pTrex3g vector. Construction of pTrex3g
is described in WO 2005/001036 A2. The reaction was performed
following manufacturer's protocol for the Gateway LR Clonase II
Enzyme Mix Kit (Invitrogen): 1 .mu.l Y. lipolytica codon-optimized
kudzu isoprene synthase gene pENTR/D-TOPO donor vector, 1 .mu.l
pTrex3g destination vector, 6 .mu.l TE buffer, pH 8.0 in a total
reaction volume of 8 .mu.l. The reaction was incubated at room
temperature for 1 hour and then 1 .mu.l proteinase K solution was
added and the incubation continued at 37.degree. C. for 10 minutes.
Then 1 .mu.l of reaction was transformed into TOP10 chemically
competent E. coli cells. The transformants were selected on LA+50
.mu.g/ml carbenicillin plates. Several colonies were picked and
each was inoculated into a 5 ml tube containing LB+50 .mu.g/ml
carbenicillin and the cultures were grown overnight at 37.degree.
C. with shaking at 200 rpm. Plasmids were isolated from the
overnight culture tubes using QIAprep Spin Miniprep Kit (Qiagen,
Inc.), following manufacturer's protocol. Several plasmids were
sequenced to verify that the DNA sequence was correct.
[0730] Biolistic transformation of Y. lipolytica codon-optimized
kudzu isoprene synthase pTrex3g plasmid (FIG. 14) into a quad
delete Trichoderma reesei strain was performed using the Biolistic
PDS-1000/HE Particle Delivery System (see WO 2005/001036 A2).
Isolation of stable transformants and shake flask evaluation was
performed using protocol listed in Example 11 of patent publication
WO 2005/001036 A2.
II. Production of Isoprene in Recombinant Strains of T. reesei
[0731] One ml of 15 and 36 hour old cultures of isoprene synthase
transformants described above were transferred to head space vials.
The vials were sealed and incubated for 5 hours at 30.degree. C.
Head space gas was measured and isoprene was identified by the
method described in Example 1. Two of the transformants showed
traces of isoprene. The amount of isoprene could be increased by a
14 hour incubation. The two positive samples showed isoprene at
levels of about 0.5 .mu.g/L for the 14 hour incubation. The
untransformed control showed no detectable levels of isoprene. This
experiment shows that T. reesei is capable of producing isoprene
from endogenous precursor when supplied with an exogenous isoprene
synthase.
Example 6
Production of Isoprene in Yarrowia
[0732] I. Construction of Vectors for Expression of the Kudzu
Isoprene Synthase in Yarrowia lipolytica.
[0733] The starting point for the construction of vectors for the
expression of the kudzu isoprene synthase gene in Yarrowia
lipolytica was the vector pSPZ1(MAP29Spb). The complete sequence of
this vector (SEQ ID NO:7) is shown in FIG. 15.
[0734] The following fragments were amplified by PCR using
chromosomal DNA of a Y. lipolytica strain GICC 120285 as the
template: a promotorless form of the URA3 gene, a fragment of 18S
ribosomal RNA gene, a transcription terminator of the Y. lipolytica
XPR2 gene and two DNA fragments containing the promoters of XPR2
and ICL1 genes. The following PCR primers were used:
TABLE-US-00009 ICL1 3 (SEQ ID NO: 65) 5'-
GGTGAATTCAGTCTACTGGGGATTCCCAAATCTATATATACTGCAG GTGAC ICL1 5 (SEQ ID
NO: 66) 5'- GCAGGTGGGAAACTATGCACTCC XPR 3 (SEQ ID NO: 67) 5'-
CCTGAATTCTGTTGGATTGGAGGATTGGATAGTGGG XPR 5 (SEQ ID NO: 68) 5'-
GGTGTCGACGTACGGTCGAGCTTATTGACC XPRT3 (SEQ ID NO: 69) 5'-
GGTGGGCCCGCATTTTGCCACCTACAAGCCAG XPRT 5 (SEQ ID NO: 70) 5'-
GGTGAATTCTAGAGGATCCCAACGCTGTTGCCTACAACGG Y18S3 (SEQ ID NO: 71) 5'-
GGTGCGGCCGCTGTCTGGACCTGGTGAGTTTCCCCG Y18S 5 (SEQ ID NO: 72) 5'-
GGTGGGCCCATTAAATCAGTTATCGTTTATTTGATAG YURA3 (SEQ ID NO: 73) 5'-
GGTGACCAGCAAGTCCATGGGTGGTTTGATCATGG YURA 50 (SEQ ID NO: 74) 5'-
GGTGCGGCCGCCTTTGGAGTACGACTCCAACTATG YURA 51 (SEQ ID NO: 75) 5'-
GCGGCCGCAGACTAAATTTATTTCAGTCTCC
[0735] For PCR amplification the PfuUltraII polymerase
(Stratagene), supplier-provided buffer and dNTPs, 2.5 .mu.M primers
and the indicated template DNA were used as per the manufacturer's
instructions. The amplification was done using the following cycle:
95.degree. C. for 1 min; 34.times.(95.degree. C. for 30 sec;
55.degree. C. for 30 sec; 72.degree. C. for 3 min) and 10 min at
72.degree. C. followed by a 4.degree. C. incubation.
[0736] Synthetic DNA molecules encoding the kudzu isoprene synthase
gene, codon-optimized for expression in Yarrowia, was obtained from
DNA 2.0 (FIG. 16; SEQ ID NO:8). Full detail of the construction
scheme of the plasmids pYLA(KZ1) and pYLI(KZ1) carrying the
synthetic kudzu isoprene synthase gene under control of XPR2 and
ICL1 promoters respectively is presented in FIG. 18. Control
plasmids in which a mating factor gene (MAP29) is inserted in place
of an isoprene synthase gene were also constructed (FIGS. 18E and
18F).
[0737] A similar cloning procedure can be used to express a poplar
(Populus alba.times.Populus tremula) isoprene synthase gene. The
sequence of the poplar isoprene is described in Miller B. et al.
(2001) Planta 213, 483-487 and shown in FIG. 17 (SEQ ID NO:9). A
construction scheme for the generation the plasmids pYLA(POP1) and
pYLI(POP1) carrying synthetic poplar isoprene synthase gene under
control of XPR2 and ICL1 promoters respectively is presented in
FIGS. 18A and B.
II. Production of Isoprene by Recombinant Strains of Y.
lipolytica.
[0738] Vectors pYLA(KZ1), pYLI(KZ1), pYLA(MAP29) and pYLI(MAP29)
were digested with SacII and used to transform the strain Y.
lipolytica CLIB 122 by a standard lithium acetate/polyethylene
glycol procedure to uridine prototrophy. Briefly, the yeast cells
grown in YEPD (1% yeast extract, 2% peptone, 2% glucose) overnight,
were collected by centrifugation (4000 rpm, 10 min), washed once
with sterile water and suspended in 0.1 M lithium acetate, pH 6.0.
Two hundred .mu.l aliquots of the cell suspension were mixed with
linearized plasmid DNA solution (10-20 .mu.g), incubated for 10
minutes at room temperature and mixed with 1 ml of 50% PEG 4000 in
the same buffer. The suspensions were further incubated for 1 hour
at room temperature followed by a 2 minutes heat shock at
42.degree. C. Cells were then plated on SC his leu plates (0.67%
yeast nitrogen base, 2% glucose, 100 mg/L each of leucine and
histidine). Transformants appeared after 3-4 days of incubation at
30.degree. C.
[0739] Three isolates from the pYLA(KZ1) transformation, three
isolates from the pYLI(KZ1) transformation, two isolates from the
pYLA(MAP29) transformation and two isolates from the pYLI(MAP29)
transformation were grown for 24 hours in YEP7 medium (1% yeast
extract, 2% peptone, pH 7.0) at 30.degree. C. with shaking. Cells
from 10 ml of culture were collected by centrifugation, resuspended
in 3 ml of fresh YEP7 and placed into 15 ml screw cap vials. The
vials were incubated overnight at room temperature with gentle (60
rpm) shaking. Isoprene content in the headspace of these vials was
analyzed by gas chromatography using mass-spectrometric detector as
described in Example 1. All transformants obtained with pYLA(KZ1)
and pYLI(KZ1) produced readily detectable amounts of isoprene (0.5
.mu.g/L to 1 .mu.g/L, FIG. 20). No isoprene was detected in the
headspace of the control strains carrying phytase gene instead of
an isoprene synthase gene.
Example 7
Production of Isoprene in E. coli Expressing Kudzu Isoprene
Synthase and idi, or dxs, or idi and dxs
[0740] I. Construction of Vectors Encoding Kudzu Isoprene Synthase
and idi, or dxs, or idi and dxs for the Production of Isoprene in
E. coli i) Construction of pTrcKudzuKan
[0741] The bla gene of pTrcKudzu (described in Example 1) was
replaced with the gene conferring kanamycin resistance. To remove
the bla gene, pTrcKudzu was digested with BspHI, treated with
Shrimp Alkaline Phosphatase (SAP), heat killed at 65.degree. C.,
then end-filled with Klenow fragment and dNTPs. The 5 kbp large
fragment was purified from an agarose gel and ligated to the
kan.sup.r gene which had been PCR amplified from pCR-Blunt-II-TOPO
using primers MCM22 5'-GATCAAGCTTAACCGGAATTGCCAGCTG (SEQ ID NO:76)
and MCM23 5'-GATCCGATCGTCAGAAGAACTCGTCAAGAAGGC (SEQ ID NO:77),
digested with HindIII and PvuI, and end-filled. A transformant
carrying a plasmid conferring kanamycin resistance (pTrcKudzuKan)
was selected on LA containing kanamycin 50 .mu.g/ml.
ii) Construction of pTrcKudzu yIDI Kan
[0742] pTrcKudzuKan was digested with PstI, treated with SAP, heat
killed and gel purified. It was ligated to a PCR product encoding
idi from S. cerevisiae with a synthetic RBS. The primers for PCR
were NsiI-YIDI 1 F 5'-CATCAATGCATCGCCCTTAGGAGGTAAAAAAAAATGAC (SEQ
ID NO:78) and PstI-YIDI 1 R 5'-CCTTCTGCAGGACGCGTTGTTATAGC (SEQ ID
NO:79); and the template was S. cerevisiae genomic DNA. The PCR
product was digested with NsiI and PstI and gel purified prior to
ligation. The ligation mixture was transformed into chemically
competent TOP10 cells and selected on LA containing 50 .mu.g/ml
kanamycin. Several transformants were isolated and sequenced and
the resulting plasmid was called pTrcKudzu-yIDI(kan) (FIGS. 34 and
35; SEQ ID NO:16).
iii) Construction of pTrcKudzu DXS Kan
[0743] Plasmid pTrcKudzuKan was digested with PstI, treated with
SAP, heat killed and gel purified. It was ligated to a PCR product
encoding dxs from E. coli with a synthetic RBS. The primers for PCR
were MCM 13
5'-GATCATGCATTCGCCCTTAGGAGGTAAAAAAACATGAGTTTTGATATTGCCAAATACCCG
(SEQ ID NO:80) and MCM14 5'-CATGCTGCAGTTATGCCAGCCAGGCCTTGAT (SEQ ID
NO:81); and the template was E. coli genomic DNA. The PCR product
was digested with NsiI and PstI and gel purified prior to ligation.
The resulting transformation reaction was transformed into TOP10
cells and selected on LA with kanamycin 50 .mu.g/ml. Several
transformants were isolated and sequenced and the resulting plasmid
was called pTrcKudzu-DXS(kan) (FIGS. 36 and 37; SEQ ID NO:17).
iv) Construction of pTrcKudzu-yIDI-dxs (kan)
[0744] pTrcKudzu-yIDI(kan) was digested with PstI, treated with
SAP, heat killed and gel purified. It was ligated to a PCR product
encoding E. coli dxs with a synthetic RBS (primers MCM13
5'-GATCATGCATTCGCCCTTAGGAGGTAAAAAAACATGAGTTTTGATATTGCCAAATACCCG
(SEQ ID NO:80) and MCM14 5'-CATGCTGCAGTTATGCCAGCCAGGCCTTGAT (SEQ ID
NO:81); template TOP10 cells) which had been digested with NsiI and
PstI and gel purified. The final plasmid was called
pTrcKudzu-yIDI-dxs (kan) (FIGS. 21 and 22; SEQ ID NO:10).
v) Construction of pCL PtrcKudzu
[0745] A fragment of DNA containing the promoter, structural gene
and terminator from Example 1 above was digested from pTrcKudzu
using SspI and gel purified. It was ligated to pCL1920 which had
been digested with PvuII, treated with SAP and heat killed. The
resulting ligation mixture was transformed into TOP10 cells and
selected in LA containing spectinomycin 50 .mu.g/ml. Several clones
were isolated and sequenced and two were selected. pCL PtrcKudzu
and pCL PtrcKudzu (A3) have the insert in opposite orientations
(FIGS. 38-41; SEQ ID NOs:18-19).
vi) Construction of pCL PtrcKudzu yIDI
[0746] The NsiI-PstI digested, gel purified, IDI PCR amplicon from
(ii) above was ligated into pCL PtrcKudzu which had been digested
with PstI, treated with SAP, and heat killed. The ligation mixture
was transformed into TOP10 cells and selected in LA containing
spectinomycin 50 .mu.g/ml. Several clones were isolated and
sequenced and the resulting plasmid is called pCL PtrcKudzu yIDI
(FIGS. 42 and 43; SEQ ID NO:20).
vii) Construction of pCL PtrcKudzu DXS
[0747] The NsiI-PstI digested, gel purified, DXS PCR amplicon from
(iii) above was ligated into pCL PtrcKudzu (A3) which had been
digested with PstI, treated with SAP, and heat killed. The ligation
mixture was transformed into TOP10 cells and selected in LA
containing spectinomycin 50 .mu.g/ml. Several clones were isolated
and sequenced and the resulting plasmid is called pCL PtrcKudzu DXS
(FIGS. 44 and 45; SEQ ID NO:21).
II. Measurement of Isoprene in Headspace from Cultures Expressing
Kudzu Isoprene Synthase, idi, and/or dxs at Different Copy
Numbers.
[0748] Cultures of E. coli BL21(.lamda.DE3) previously transformed
with plasmids pTrcKudzu(kan) (A), pTrcKudzu-yIDI kan (B),
pTrcKudzu-DXS kan (C), pTrcKudzu-yIDI-DXS kan (D) were grown in LB
kanamycin 50 .mu.g/mL. Cultures of pCL PtrcKudzu (E), pCL
PtrcKudzu, pCL PtrcKudzu-yIDI (F) and pCL PtrcKudzu-DXS (G) were
grown in LB spectinomycin 50 .mu.g/mL. Cultures were induced with
400 .mu.M IPTG at time 0 (OD.sub.600 approximately 0.5) and samples
taken for isoprene headspace measurement (see Example 1). Results
are shown in FIG. 23A-23G.
[0749] Plasmid pTrcKudzu-yIDI-dxs (kan) was introduced into E. coli
strain BL21 by transformation. The resulting strain BL21/pTrc Kudzu
IDI DXS was grown overnight in LB containing kanamycin (50
.mu.g/ml) at 20.degree. C. and used to inoculate shake flasks of
TM3 (13.6 g K.sub.2PO.sub.4, 13.6 g KH.sub.2PO.sub.4, 2.0 g
MgSO.sub.4*7H.sub.2O), 2.0 g citric acid monohydrate, 0.3 g ferric
ammonium citrate, 3.2 g (NH.sub.4).sub.2SO.sub.4, 0.2 g yeast
extract, 1.0 ml 1000.times. Modified Trace Metal Solution, adjusted
to pH 6.8 and q.s. to H.sub.2O, and filter sterilized) containing
1% glucose. Flasks were incubated at 30.degree. C. until an
OD.sub.600 of 0.8 was reached, and then induced with 400 .mu.M
IPTG. Samples were taken at various times after induction and the
amount of isoprene in the head space was measured as described in
Example 1. Results are shown in FIG. 23H.
III. Production of Isoprene from Biomass in E. coli/pTrcKudzu yIDI
DXS
[0750] The strain BL21 pTrcKudzuIDIDXS was tested for the ability
to generate isoprene from three types of biomass; bagasse, corn
stover and soft wood pulp with glucose as a control. Hydrolysates
of the biomass were prepared by enzymatic hydrolysis (Brown, L. and
Torget, R., 1996, NREL standard assay method Lap-009 "Enzymatic
Saccharification of Lignocellulosic Biomass") and used at a
dilution based upon glucose equivalents. In this example, glucose
equivalents were equal to 1% glucose. A single colony from a plate
freshly transformed cells of BL21 (DE3) pTrcKudzu yIDI DXS (kan)
was used to inoculate 5 ml of LB plus kanamycin (50 .mu.g/ml). The
culture was incubated overnight at 25.degree. C. with shaking. The
following day the overnight culture was diluted to an OD.sub.600 of
0.05 in 25 ml of TM3+0.2% YE+1% feedstock. The feedstock was corn
stover, bagasse, or softwood pulp. Glucose was used as a positive
control and no glucose was used as a negative control. Cultures
were incubated at 30.degree. C. with shaking at 180 rpm. The
culture was monitored for OD.sub.600 and when it reached an
OD.sub.600 of .about.0.8, cultures were analyzed at 1 and 3 hours
for isoprene production as described in Example 1. Cultures are not
induced. All cultures containing added feedstock produce isoprene
equivalent to those of the glucose positive control. Experiments
were done in duplicate and are shown in FIG. 46.
IV. Production of Isoprene from Invert Sugar in E.
coli/pTrcKudzuIDIDXS
[0751] A single colony from a plate freshly transformed cells of
BL21 (.lamda.DE3)/pTrcKudzu yIDI DXS (kan) was used to inoculate 5
mL of LB+kanamycin (50 .mu.g/ml). The culture was incubated
overnight at 25.degree. C. with shaking. The following day the
overnight culture was diluted to an OD.sub.600 of 0.05 in 25 ml of
TM3+0.2% YE+1% feedstock. Feedstock was glucose, inverted glucose
or corn stover. The invert sugar feedstock (Danisco Invert Sugar)
was prepared by enzymatically treating sucrose syrup. AFEX corn
stover was prepared as described below (Part V). The cells were
grown at 30.degree. C. and the first sample was measured when the
cultures reached an OD.sub.600 .about.0.8-1.0 (0 hour). The
cultures were analyzed for growth as measured by OD.sub.600 and for
isoprene production as in Example 1 at 0, 1 and 3 hours. Results
are shown in FIG. 47.
V. Preparation of Hydrolysate from AFEX Pretreated Corn Stover
[0752] AFEX pretreated corn stover was obtained from Michigan
Biotechnology Institute. The pretreatment conditions were 60%
moisture, 1:1 ammonia loading, and 90.degree. C. for 30 minutes,
then air dried. The moisture content in the AFEX pretreated corn
stover was 21.27%. The contents of glucan and xylan in the AFEX
pretreated corn stover were 31.7% and 19.1% (dry basis),
respectively. The saccharification process was as follows; 20 g of
AFEX pretreated corn stover was added into a 500 ml flask with 5 ml
of 1 M sodium citrate buffer pH 4.8, 2.25 ml of Accellerase 1000,
0.1 ml of Grindamyl H121 (Danisco xylanase product from Aspergillus
niger for bread-making industry), and 72.65 ml of DI water. The
flask was put in an orbital shaker and incubated at 50.degree. C.
for 96 hours. One sample was taken from the shaker and analyzed
using HPLC. The hydrolysate contained 38.5 g/l of glucose, 21.8 g/l
of xylose, and 10.3 g/l of oligomers of glucose and/or xylose.
VI. The Effect of Yeast Extract on Isoprene Production in E. coli
Grown in Fed-Batch Culture
[0753] Fermentation was performed at the 14-L scale as previously
described with E. coli cells containing the pTrcKudzu yIDI DXS
plasmid described above. Yeast extract (Bio Springer, Montreal,
Quebec, Canada) was fed at an exponential rate. The total amount of
yeast extract delivered to the fermentor was varied between 70-830
g during the 40 hour fermentation. Optical density of the
fermentation broth was measured at a wavelength of 550 nm. The
final optical density within the fermentors was proportional to the
amount of yeast extract added (FIG. 48A). The isoprene level in the
off-gas from the fermentor was determined as previously described.
The isoprene titer increased over the course of the fermentation
(FIG. 48B). The amount of isoprene produced was linearly
proportional to the amount of fed yeast extract (FIG. 48C).
VII. Production of Isoprene in 500 L Fermentation of pTrcKudzu DXS
yIDI
[0754] A 500 liter fermentation of E. coli cells with a kudzu
isoprene synthase, S. cerevisiae IDI, and E. coli DXS nucleic acids
(E. coli BL21 (.lamda.DE3) pTrc Kudzu dxs yidi) was used to produce
isoprene. The levels of isoprene varied from 50 to 300 .mu.g/L over
a time period of 15 hours. On the basis of the average isoprene
concentrations, the average flow through the device and the extent
of isoprene breakthrough, the amount of isoprene collected was
calculated to be approximately 17 g.
VIII. Production of Isoprene in 500 L Fermentation of E. coli Grown
in Fed-Batch Culture Medium Recipe (Per Liter Fermentation
Medium):
[0755] K.sub.2HPO.sub.4 7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric
acid monohydrate 2 g, ferric ammonium citrate 0.3 g, yeast extract
0.5 g, 1000.times. Modified Trace Metal Solution 1 ml. All of the
components were added together and dissolved in diH.sub.2O. This
solution was autoclaved. The pH was adjusted to 7.0 with ammonium
gas (NH.sub.3) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1
g, and antibiotic were added after sterilization and pH
adjustment.
1000.times. Modified Trace Metal Solution:
[0756] Citric Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl
10 g, FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg, H.sub.3BO.sub.3
100 mg, NaMoO.sub.4*2H.sub.2O 100 mg. Each component is dissolved
one at a time in DI H.sub.2O, pH to 3.0 with HCl/NaOH, then q.s. to
volume and filter sterilized with 0.22 micron filter.
[0757] Fermentation was performed in a 500-L bioreactor with E.
coli cells containing the pTrcKudzu yIDI DXS plasmid. This
experiment was carried out to monitor isoprene formation from
glucose and yeast extract at the desired fermentation pH 7.0 and
temperature 30.degree. C. An inoculum of E. coli strain taken from
a frozen vial was prepared in soytone-yeast extract-glucose medium.
After the inoculum grew to OD 0.15, measured at 550 nm, 20 ml was
used to inoculate a bioreactor containing 2.5-L soytone-yeast
extract-glucose medium. The 2.5-L bioreactor was grown at
30.degree. C. to OD 1.0 and 2.0-L was transferred to the 500-L
bioreactor.
[0758] Yeast extract (Bio Springer, Montreal, Quebec, Canada) and
glucose were fed at exponential rates. The total amount of glucose
and yeast extract delivered to the bioreactor during the 50 hour
fermentation was 181.2 kg and 17.6 kg, respectively. The optical
density within the bioreactor over time is shown in FIG. 49A. The
isoprene level in the off-gas from the bioreactor was determined as
previously described. The isoprene titer increased over the course
of the fermentation (FIG. 49B). The total amount of isoprene
produced during the 50 hour fermentation was 55.1 g and the time
course of production is shown in FIG. 49C.
Example 8
Production of Isoprene in E. coli Expressing Kudzu Isoprene
Synthase and Recombinant Mevalonic Acid Pathway Genes
[0759] I. Cloning the lower MVA pathway
[0760] The strategy for cloning the lower mevalonic pathway was as
follows. Four genes of the mevalonic acid biosynthesis pathway;
mevalonate kinase (MVK), phosphomevalonate kinase (PMK),
diphosphomevalonte decarboxylase (MVD) and isopentenyl diphosphate
isomerase genes were amplified by PCR from S. cerevisiae
chromosomal DNA and cloned individually into the pCR BluntII TOPO
plasmid (Invitrogen). In some cases, the idi gene was amplified
from E. coli chromosomal DNA. The primers were designed such that
an E. coli consensus RBS (AGGAGGT (SEQ ID NO:82) or AAGGAGG (SEQ ID
NO:83)) was inserted at the 5' end, 8 bp upstream of the start
codon and a PstI site was added at the 3' end. The genes were then
cloned one by one into the pTrcHis2B vector until the entire
pathway was assembled.
[0761] Chromosomal DNA from S. cerevisiae S288C was obtained from
ATCC (ATCC 204508D). The MVK gene was amplified from the chromosome
of S. cerevisiae using primers MVKF
(5'-AGGAGGTAAAAAAACATGTCATTACCGTTCTTAACTTCTGC, SEQ ID NO:84) and
MVK-Pst1-R
(5'-ATGGCTGCAGGCCTATCGCAAATTAGCTTATGAAGTCCATGGTAAATTCGTG, SEQ ID
NO:85) using PfuTurbo as per manufacturer's instructions. The
correct sized PCR product (1370 bp) was identified by
electrophoresis through a 1.2% E-gel (Invitrogen) and cloned into
pZeroBLUNT TOPO. The resulting plasmid was designated pMVK1. The
plasmid pMVK1 was digested with SacI and Taq1 restriction
endonucleases and the fragment was gel purified and ligated into
pTrcHis2B digested with SacI and BstBI. The resulting plasmid was
named pTrcMVK1.
[0762] The second gene in the mevalonic acid biosynthesis pathway,
PMK, was amplified by PCR using primers: PstI-PMK1 R
(5'-GAATTCGCCCTTCTGCAGCTACC, SEQ ID NO:86) and BsiHKA I-PMK1 F
(5'-CGACTGGTGCACCCTTAAGGAGGAAAAAAACATGTCAG, SEQ ID NO:87). The PCR
reaction was performed using Pfu Turbo polymerase (Stratagene) as
per manufacturer's instructions. The correct sized product (1387
bp) was digested with PstI and BsiHKI and ligated into pTrcMVK1
digested with PstI. The resulting plasmid was named pTrcKK. The MVD
and the idi genes were cloned in the same manner. PCR was carried
out using the primer pairs PstI-MVD 1 R
(5'-GTGCTGGAATTCGCCCTTCTGCAGC, SEQ ID NO:88) and NsiI-MVD 1 F
(5'-GTAGATGCATGCAGAATTCGCCCTTAAGGAGG, SEQ ID NO:89) to amplify the
MVD gene and PstI-YIDI 1 R (5'-CCTTCTGCAGGACGCGTTGTTATAGC, SEQ ID
NO:79) and NsiI-YIDI 1 F
(5'-CATCAATGCATCGCCCTTAGGAGGTAAAAAAAAATGAC, SEQ ID NO:78) to
amplify the yIDI gene. In some cases the IPP isomerase gene, idi
from E. coli was used. To amplify idi from E. coli chromosomal DNA,
the following primer set was used: PstI-CIDI 1 R
(5'-GTGTGATGGATATCTGCAGAATTCG, SEQ ID NO:90) and NsiI-CIDI 1 F
(5'-CATCAATGCATCGCCCTTAGGAGGTAAAAAAACATG, SEQ ID NO:91). Template
DNA was chromosomal DNA isolated by standard methods from E. coli
FM5 (WO 96/35796 and WO 2004/033646, which are each hereby
incorporated by reference in their entireties, particularly with
respect to isolation of nucleic acids). The final plasmids were
named pKKDIy for the construct encoding the yeast idi gene or
pKKDIc for the construct encoding the E. coli idi gene. The
plasmids were transformed into E. coli hosts BL21 for subsequent
analysis. In some cases the isoprene synthase from kudzu was cloned
into pKKDIy yielding plasmid pKKDIyIS.
[0763] The lower MVA pathway was also cloned into pTrc containing a
kanamycin antibiotic resistance marker. The plasmid pTrcKKDIy was
digested with restriction endonucleases ApaI and PstI, the 5930 bp
fragment was separated on a 1.2% agarose E-gel and purified using
the Qiagen Gel Purification kit according to the manufacturer's
instructions. The plasmid pTrcKudzuKan, described in Example 7, was
digested with restriction endonucleases ApaI and PstI, and the 3338
bp fragment containing the vector was purified from a 1.2% E-gel
using the Qiagen Gel Purification kit. The 3338 bp vector fragment
and the 5930 bp lower MVA pathway fragment were ligated using the
Roche Quick Ligation kit. The ligation mix was transformed into E.
coli TOP10 cells and transformants were grown at 37.degree. C.
overnight with selection on LA containing kanamycin (50 .mu.g/ml).
The transformants were verified by restriction enzyme digestion and
one was frozen as a stock. The plasmid was designated
pTrcKanKKDIy.
II. Cloning a Kudzu Isoprene Synthase Gene into pTrcKanKKDIy
[0764] The kudzu isoprene synthase gene was amplified by PCR from
pTrcKudzu, described in Example 1, using primers MCM50
5'-GATCATGCATTCGCCCTTAGGAGGTAAAAAAACATGTGTGCGACCTCTTCTCAATTTACT
(SEQ ID NO:52) and MCM53 5'-CGGTCGACGGATCCCTGCAGTTAGACATACATCAGCTG
(SEQ ID NO:50). The resulting PCR fragment was cloned into pCR2.1
and transformed into E. coli TOP10. This fragment contains the
coding sequence for kudzu isoprene synthase and an upstream region
containing a RBS from E. coli. Transformants were incubated
overnight at 37.degree. C. with selection on LA containing
carbenicillin (50 .mu.g/ml). The correct insertion of the fragment
was verified by sequencing and this strain was designated
MCM93.
[0765] The plasmid from strain MCM93 was digested with restriction
endonucleases NsiI and PstI to liberate a 1724 bp insert containing
the RBS and kudzu isoprene synthase. The 1724 bp fragment was
separated on a 1.2% agarose E-gel and purified using the Qiagen Gel
Purification kit according to the manufacturer's instructions.
Plasmid pTrcKanKKDIy was digested with the restriction endonuclease
PstI, treated with SAP for 30 minutes at 37.degree. C. and purified
using the Qiagen PCR cleanup kit. The plasmid and kudzu isoprene
synthase encoding DNA fragment were ligated using the Roche Quick
Ligation kit. The ligation mix was transformed into E. coli TOP10
cells and transformants were grown overnight at 37.degree. C. with
selection on LA containing Kanamycin at 50 .mu.g/ml. The correct
transformant was verified by restriction digestion and the plasmid
was designated pTrcKKDyIkISKan (FIGS. 24 and 25; SEQ ID NO:11).
This plasmid was transformed into BL21(.lamda.DE3) cells
(Invitrogen).
III. Isoprene Production from Mevalonate in E. coli Expressing the
Recombinant Lower Mevalonate Pathway and Isoprene Synthase from
Kudzu.
[0766] Strain BL21/pTrcKKDyIkISKan was cultured in MOPS medium
(Neidhardt et al., (1974) J. Bacteriology 119:736-747) adjusted to
pH 7.1 and supplemented with 0.5% glucose and 0.5% mevalonic acid.
A control culture was also set up using identical conditions but
without the addition of 0.5% mevalonic acid. The culture was
started from an overnight seed culture with a 1% inoculum and
induced with 500 .mu.M IPTG when the culture had reached an
OD.sub.600 of 0.3 to 0.5. The cultures were grown at 30.degree. C.
with shaking at 250 rpm. The production of isoprene was analyzed 3
hours after induction by using the head space assay described in
Example 1. Maximum production of isoprene was 6.67.times.10.sup.-4
mol/L.sub.broth/OD.sub.600/hr where L.sub.broth is the volume of
broth and includes both the volume of the cell medium and the
volume of the cells. The control culture not supplemented with
mevalonic acid did not produce measurable isoprene.
IV. Cloning the Upper MVA Pathway
[0767] The upper mevalonate biosynthetic pathway, comprising two
genes encoding three enzymatic activities, was cloned from
Enterococcus faecalis. The mvaE gene encodes a protein with the
enzymatic activities of both acetyl-CoA acetyltransferase and
3-hydroxy-3-methylglutaryl-CoA (HMG-CoA) reductase, the first and
third proteins in the pathway, and the mvaS gene encodes second
enzyme in the pathway, HMG-CoA synthase. The mvaE gene was
amplified from E. faecalis genomic DNA (ATCC 700802D-5) with an E.
coli ribosome binding site and a spacer in front using the
following primers:
TABLE-US-00010 CF 07-60 (+) Start of mvaE w/ RBS + ATG start codon
SacI (SEQ ID NO: 93) 5' -
GAGACATGAGCTCAGGAGGTAAAAAAACATGAAAACAGTAGTTA TTATTG CF 07-62 (-)
Fuse mvaE to mvaS with RBS in between (SEQ ID NO: 94) 5' -
TTTATCAATCCCAATTGTCATGTTTTTTTACCTCCTTTATTGTT TTCTTAAATC
[0768] The mvaS gene was amplified from E. faecalis genomic DNA
(ATCC 700802D-5) with a RBS and spacer from E. coli in front using
the following primers:
TABLE-US-00011 CF 07-61 (+) Fuse mvaE to mvaS with RBS in between
(SEQ ID NO: 95) 5' - GATTTAAGAAAACAATAAAGGAGGTAAAAAAACATGACAATTGG
GATTGATAAA CF 07-102 (-) End of mvaS gene BglII (SEQ ID NO: 96) 5'
-GACATGACATAGATCTTTAGTTTCGATAAGAACGAACGGT
[0769] The PCR fragments were fused together with PCR using the
following primers:
TABLE-US-00012 CF 07-60 (+) Start of mvaE w/ RBS + ATG start codon
SacI (SEQ ID NO: 93) 5'
-GAGACATGAGCTCAGGAGGTAAAAAAACATGAAAACAGTAGTTAT TATTG CF 07-102 (-)
End of mvaS gene BglII (SEQ ID NO: 96)
5'-GACATGACATAGATCTTTAGTTTCGATAAGAACGAACGGT
[0770] The fusion PCR fragment was purified using a Qiagen kit and
digested with the restriction enzymes SacI and BglII. This digested
DNA fragment was gel purified using a Qiagen kit and ligated into
the commercially available vector pTrcHis2A, which had been
digested with SacI and BglII and gel purified.
[0771] The ligation mix was transformed into E. coli Top 10 cells
and colonies were selected on LA+50 .mu.g/ml carbenicillin plates.
A total of six colonies were chosen and grown overnight in LB+50
.mu.g/ml carbenicillin and plasmids were isolated using a Qiagen
kit. The plasmids were digested with Sad and BglII to check for
inserts and one correct plasmid was sequenced with the following
primers:
TABLE-US-00013 CF 07-58 (+) Start of mvaE gene (SEQ ID NO: 97) 5' -
ATGAAAACAGTAGTTATTATTGATGC CF 07-59 (-) End of mvaE gene (SEQ ID
NO: 98) 5' - ATGTTATTGTTTTCTTAAATCATTTAAAATAGC CF 07-82 (+) Start
of mvaS gene (SEQ ID NO: 99) 5' - ATGACAATTGGGATTGATAAAATTAG CF
07-83 (-) End of mvaS gene (SEQ ID NO: 100) 5' -
TTAGTTTCGATAAGAACGAACGGT CF 07-86 (+) Sequence in mvaE (SEQ ID NO:
101) 5' - GAAATAGCCCCATTAGAAGTATC CF 07-87 (+) Sequence in mvaE
(SEQ ID NO: 102) 5' - TTGCCAATCATATGATTGAAAATC CF 07-88 (+)
Sequence in mvaE (SEQ ID NO: 103) 5' - GCTATGCTTCATTAGATCCTTATCG CF
07-89 (+) Sequence mvaS (SEQ ID NO: 104) 5' -
GAAACCTACATCCAATCTTTTGCCC
[0772] The plasmid called pTrcHis2AUpperPathway#1 was correct by
sequencing and was transformed into the commercially available E.
coli strain BL21. Selection was done on LA+50 .mu.g/ml
carbenicillin. Two transformants were chosen and grown in LB+50
.mu.g/ml carbenicillin until they reached an OD.sub.600 of 1.5.
Both strains were frozen in a vial at -80.degree. C. in the
presence of glycerol. Strains were designated CF 449 for
pTrcHis2AUpperPathway#1 in BL21, isolate #1 and CF 450 for
pTrcHis2AUpperPathway#1 in BL21, isolate #2. Both clones were found
to behave identically when analyzed.
V. Cloning of UpperMVA Pathway into pCL1920
[0773] The plasmid pTrcHis2AUpperPathway was digested with the
restriction endonuclease SspI to release a fragment containing
pTrc-mvaE-mvaS-(His tag)-terminator. In this fragment, the his-tag
was not translated. This blunt ended 4.5 kbp fragment was purified
from a 1.2% E-gel using the Qiagen Gel Purification kit. A
dephosphorylated, blunt ended 4.2 kbp fragment from pCL1920 was
prepared by digesting the vector with the restriction endonuclease
PvuII, treating with SAP and gel purifying from a 1.2% E-gel using
the Qiagen Gel Purification kit. The two fragments were ligated
using the Roche Quick Ligation Kit and transformed into TOP10
chemically competent cells. Transformants were selected on LA
containing spectinomycin (50 .mu.g/ml). A correct colony was
identified by screening for the presence of the insert by PCR. The
plasmid was designated pCL PtrcUpperPathway (FIGS. 26 and 27A-27D;
SEQ ID NO:12).
VI. Strains Expressing the Combined Upper and Lower Mevalonic Acid
Pathways
[0774] To obtain a strain with a complete mevalonic acid pathway
plus kudzu isoprene synthase, plasmids pTrcKKDyIkISkan and
pCLpTrcUpperPathway were both transformed into BL21(.lamda.DE3)
competent cells (Invitrogen) and transformants were selected on LA
containing kanamycin (50 .mu.g/ml) and Spectinomycin (50 .mu.g/ml).
The transformants were checked by plasmid prep to ensure that both
plasmids were retained in the host. The strain was designated
MCM127.
VII. Production of Mevalonic Acid from Glucose in E.
coli/pUpperpathway
[0775] Single colonies of the BL21/pTrcHis2A-mvaE/mvaS or FM5/p
pTrcHis2A-mvaE/mvaS are inoculated into LB+carbenicillin (100
.mu.g/ml) and are grown overnight at 37.degree. C. with shaking at
200 rpm. These cultures were diluted into 50 ml medium in 250 ml
baffled flasks to an OD.sub.600 of 0.1. The medium was TM3+1 or 2%
glucose+carbenicillin (100 .mu.g/ml) or TM3+1% glucose+hydrolyzed
soy oil+carbenicillin (100 .mu.g/ml) or TM3+biomass (prepared
bagasse, corn stover or switchgrass). Cultures were grown at
30.degree. C. with shaking at 200 rpm for approximately 2-3 hours
until an OD.sub.600 of 0.4 was reached. At this point the
expression from the mvaE mvaS construct was induced by the addition
of IPTG (400 .mu.M). Cultures were incubated for a further 20 or 40
hours with samples taken at 2 hour intervals to 6 hour post
induction and then at 24, 36 and 48 hours as needed. Sampling was
done by removing 1 ml of culture, measuring the OD.sub.600,
pelleting the cells in a microfuge, removing the supernatant and
analyzing it for mevalonic acid.
[0776] A 14 liter fermentation of E. coli cells with nucleic acids
encoding Enterococcus faecalis AA-CoA thiolase, HMG-CoA synthase,
and HMG-CoA reductase polypeptides produced 22 grams of mevalonic
acid with TM3 medium and 2% glucose as the cell medium. A shake
flask of these cells produced 2-4 grams of mevalonic acid per liter
with LB medium and 1% glucose as the cell culture medium. The
production of mevalonic acid in these strains indicated that the
MVA pathway was functional in E. coli.
VIII. Production of Isoprene from E. coli BL21 Containing the Upper
and Lower MVA Pathway Plus Kudzu Isoprene Synthase.
[0777] The following strains were created by transforming in
various combinations of plasmids containing the upper and lower MVA
pathway and the kudzu isoprene synthase gene as described above and
the plasmids containing the idi, dxs, and dxr and isoprene synthase
genes described in Example 7. The host cells used were chemically
competent BL21(.lamda.DE3) and the transformations were done by
standard methods. Transformants were selected on L agar containing
kanamycin (50 .mu.g/ml) or kanamycin plus spectinomycin (both at a
concentration of 50 .mu.g/ml). Plates were grown at 37.degree. C.
The resulting strains were designated as follows:
Grown on Kanamycin Plus Spectinomycin (50 .mu.g/ml Each) MCM127-pCL
Upper MVA+pTrcKKDyIkIS (kan) in BL21(.lamda.DE3)
MCM131-pCL1920+pTrcKKDyIkIS (kan) in BL21(.lamda.DE3) MCM125-pCL
Upper MVA+pTrcHis2B (kan) in BL21(.lamda.DE3) Grown on Kanamycin
(50 .mu.g/ml) MCM64-pTrcKudzu yIDI DXS (kan) in BL21(.lamda.DE3)
MCM50-pTrcKudzu (kan) in BL21(.lamda.DE3) MCM123-pTrcKudzu yIDI DXS
DXR (kan) in BL21(.lamda.DE3)
[0778] The above strains were streaked from freezer stocks to
LA+appropriate antibiotic and grown overnight at 37.degree. C. A
single colony from each plate was used to inoculate shake flasks
(25 ml LB+the appropriate antibiotic). The flasks were incubated at
22.degree. C. overnight with shaking at 200 rpm. The next morning
the flasks were transferred to a 37.degree. C. incubator and grown
for a further 4.5 hours with shaking at 200 rpm. The 25 ml cultures
were centrifuged to pellet the cells and the cells were resuspended
in 5 ml LB+the appropriate antibiotic. The cultures were then
diluted into 25 ml LB+1% glucose+the appropriate antibiotic to an
OD.sub.600 of 0.1. Two flasks for each strain were set up, one set
for induction with IPTG (800 .mu.M) the second set was not induced.
The cultures were incubated at 37.degree. C. with shaking at 250
rpm. One set of the cultures were induced after 1.50 hours
(immediately following sampling time point 1). At each sampling
time point, the OD.sub.600 was measured and the amount of isoprene
determined as described in Example 1. Results are presented in
Table 3. The amount of isoprene made is presented as the amount at
the peak production for the particular strain.
TABLE-US-00014 TABLE 3 Production of isoprene in E. coli strains
Strain Isoprene (.mu.g/liter/OD/hr) MCM50 23.8 MCM64 289 MCM125 ND
MCM131 Trace MCM127 874 ND: not detected Trace: peak present but
not integratable.
IX. Analysis of Mevalonic Acid
[0779] Mevalonolactone (1.0 g, 7.7 mmol) (CAS#503-48-0) was
supplied from Sigma-Aldrich (WI, USA) as a syrup that was dissolved
in water (7.7 mL) and was treated with potassium hydroxide (7.7
mmol) in order to generate the potassium salt of mevalonic acid.
The conversion to mevalonic acid was confirmed by .sup.1H NMR
analysis. Samples for HPLC analysis were prepared by centrifugation
at 14,000 rpm for 5 minutes to remove cells, followed by the
addition of a 300 .mu.l aliquot of supernatant to 900 .mu.l of
H.sub.2O. Perchloric acid (36 .mu.l of a 70% solution) was then
added followed by mixing and cooling on ice for 5 minutes. The
samples were then centrifuged again (14,000 rpm for 5 min) and the
supernatant transferred to HPLC. Mevalonic acid standards (20, 10,
5, 1 and 0.5 g/L) were prepared in the same fashion. Analysis of
mevalonic acid (20 .mu.L injection volume) was performed by HPLC
using a BioRad Aminex 87-H+ column (300 mm by 7.0 mm) eluted with 5
mM sulfuric acid at 0.6 mL/min with refractive index (R1)
detection. Under these conditions mevalonic acid eluted as the
lactone form at 18.5 minutes.
X. Production of Isoprene from E. coli BL21 Containing the Upper
MVA Pathway Plus Kudzu Isoprene Synthase
[0780] A 15-L scale fermentation of E. coli expressing mevalonic
acid pathway polypeptides and Kudzu isoprene synthase was used to
produce isoprene from cells in fed-batch culture. This experiment
demonstrates that growing cells under glucose limiting conditions
resulted in the production of 2.2 g/L of isoprene.
Medium Recipe (Per Liter Fermentation Medium):
[0781] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
modified trace metal solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0782] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component was dissolved one at a time in diH.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume, and filter sterilized with a
0.22 micron filter.
[0783] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the pCL PtrcUpperPathway (FIG. 26)
and pTrcKKDyIkIS plasmids. This experiment was carried out to
monitor isoprene formation from glucose at the desired fermentation
pH 7.0 and temperature 30.degree. C. An inoculum of E. coli strain
taken from a frozen vial was streaked onto an LB broth agar plate
(with antibiotics) and incubated at 37.degree. C. A single colony
was inoculated into soytone-yeast extract-glucose medium. After the
inoculum grew to OD 1.0 when measured at 550 nm, 500 mL was used to
inoculate a 5-L bioreactor.
[0784] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 54 hour fermentation was 3.7
kg. Induction was achieved by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG). The IPTG
concentration was brought to 25 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 10. The IPTG concentration
was raised to 50 .mu.M when OD.sub.550 reached 190. IPTG
concentration was raised to 100 .mu.M at 38 hours of fermentation.
The OD.sub.550 profile within the bioreactor over time is shown in
FIG. 54. The isoprene level in the off gas from the bioreactor was
determined as described herein. The isoprene titer increased over
the course of the fermentation to a final value of 2.2 g/L (FIG.
55). The total amount of isoprene produced during the 54 hour
fermentation was 15.9 g, and the time course of production is shown
in FIG. 56.
XI. Isoprene Fermentation from E. coli Expressing Genes from the
Mevalonic Acid Pathway and Grown in Fed-Batch Culture at the 15-L
Scale
[0785] A 15-L scale fermentation of E. coli expressing mevalonic
acid pathway polypeptides and Kudzu isoprene synthase was used to
produce isoprene from cells in fed-batch culture. This experiment
demonstrates that growing cells under glucose limiting conditions
resulted in the production of 3.0 g/L of isoprene.
Medium Recipe (Per Liter Fermentation Medium):
[0786] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0787] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component was dissolved one at a time in diH.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume, and filter sterilized with a
0.22 micron filter.
[0788] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids. This experiment was carried out to monitor
isoprene formation from glucose at the desired fermentation pH 7.0
and temperature 30.degree. C. An inoculum of E. coli strain taken
from a frozen vial was streaked onto an LB broth agar plate (with
antibiotics) and incubated at 37.degree. C. A single colony was
inoculated into tryptone-yeast extract medium. After the inoculum
grew to OD 1.0, measured at 550 nm, 500 mL was used to inoculate a
5-L bioreactor.
[0789] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time, the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 59 hour fermentation was 2.2
kg. Induction was achieved by adding IPTG. The IPTG concentration
was brought to 25 .mu.M when the optical density at 550 nm
(OD.sub.550) reached a value of 10. The IPTG concentration was
raised to 50 .mu.M when OD.sub.550 reached 190. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 93. The
isoprene level in the off gas from the bioreactor was determined as
described herein. The isoprene titer increased over the course of
the fermentation to a final value of 3.0 g/L (FIG. 94). The total
amount of isoprene produced during the 59 hour fermentation was
22.8 g, and the time course of production is shown in FIG. 95. The
molar yield of utilized carbon that went into producing isoprene
during fermentation was 2.2%. The weight percent yield of isoprene
from glucose was 1.0%.
XII. Isoprene Fermentation from E. coli Expressing Genes from the
Mevalonic Acid Pathway and Grown in Fed-Batch Culture at the 15-L
Scale
[0790] A 15-L scale fermentation of E. coli expressing mevalonic
acid pathway polypeptides, Pueraria lobata isoprene synthase, and
Kudzu isoprene synthase was used to produce isoprene from cells in
fed-batch culture. This experiment demonstrates that growing cells
under glucose limiting conditions resulted in the production of 3.3
g/L of isoprene.
i) Construction of pCLPtrcUpperPathwayHGS2
[0791] The gene encoding isoprene synthase from Pueraria lobata was
PCR-amplified using primers NsiI-RBS-HGS F
(CTTGATGCATCCTGCATTCGCCCTTAGGAGG, SEQ ID NO:105) and pTrcR
(CCAGGCAAATTCTGTTTTATCAG, SEQ ID NO:106), and pTrcKKDyIkIS as a
template. The PCR product thus obtained was restriction-digested
with NsiI and PstI and gel-purified. The plasmid pCL
PtrcUpperPathway was restriction-digested with PstI and
dephosphorylated using rAPid alkaline phosphatase (Roche) according
to manufacturer's instructions.
[0792] These DNA fragments were ligated together and the ligation
reaction was transformed into E. coli Top10 chemically competent
cells (Invitrogen), plated on L agar containing spectinomycin (50
.mu.g/ml) and incubated overnight at 37.degree. C. Plasmid DNA was
prepared from 6 clones using the Qiaquick Spin Mini-prep kit. The
plasmid DNA was digested with restriction enzymes EcoRV and MluI to
identify a clone in which the insert had the right orientation
(i.e., the gene oriented in the same way as the pTrc promoter).
[0793] The resulting correct plasmid was designated
pCLPtrcUpperPathwayHGS2. This plasmid was assayed using the
headspace assay described herein and found to produce isoprene in
E. coli Top10, thus validating the functionality of the gene. The
plasmid was transformed into BL21(LDE3) containing pTrcKKDyIkIS to
yield the strain BL21/pCLPtrcUpperPathwayHGS2-pTrcKKDyIkIS This
strain has an extra copy of the isoprene synthase compared to the
BL21/pCL PtrcUpperMVA and pTrc KKDyIkIS strain (Example 8, part
XI). This strain also had increased expression and activity of HMGS
compared to the BL21/pCL PtrcUpperMVA and pTrc KKDyIkIS strain used
in Example 8, part XI.
Ii) Isoprene Fermentation from E. coli Expressing
pCLPtrcUpperPathwayHGS2-pTrcKKDyIkIS and Grown in Fed-Batch Culture
at the 15-L Scale
Medium Recipe (Per Liter Fermentation Medium):
[0794] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
modified trace metal solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0795] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component is dissolved one at a time in Di H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with 0.22
micron filter.
[0796] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the pCLPtrcUpperPathwayHGS2 and pTrc
KKDyIkIS plasmids. This experiment was carried out to monitor
isoprene formation from glucose at the desired fermentation pH 7.0
and temperature 30.degree. C. An inoculum of E. coli strain taken
from a frozen vial was streaked onto an LB broth agar plate (with
antibiotics) and incubated at 37.degree. C. A single colony was
inoculated into tryptone-yeast extract medium. After the inoculum
grew to OD 1.0 measured at 550 nm, 500 mL was used to inoculate a
5-L bioreactor.
[0797] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 58 hour fermentation was 2.1
kg. Induction was achieved by adding IPTG. The IPTG concentration
was brought to 25 .mu.M when the optical density at 550 nm
(OD.sub.550) reached a value of 9. The IPTG concentration was
raised to 50 .mu.M when OD.sub.550 reached 170. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 104. The
isoprene level in the off gas from the bioreactor was determined as
described herein. The isoprene titer increased over the course of
the fermentation to a final value of 3.3 g/L (FIG. 105). The total
amount of isoprene produced during the 58 hour fermentation was
24.5 g and the time course of production is shown in FIG. 106. The
molar yield of utilized carbon that went into producing isoprene
during fermentation was 2.5%. The weight percent yield of isoprene
from glucose was 1.2%. Analysis showed that the activity of the
isoprene synthase was increased by approximately 3-4 times that
compared to BL21 expressing CL PtrcUpperMVA and pTrc KKDyIkIS
plasmids (data not shown).
XIII. Chromosomal Integration of the Lower Mevalonate Pathway in E.
coli.
[0798] A synthetic operon containing mevalonate kinase, mevalonate
phosphate kinase, mevalonate pyrophosphate decarboxylase, and the
IPP isomerase was integrated into the chromosome of E. coli. If
desired, expression may be altered by integrating different
promoters 5' of the operon.
[0799] Table 4 lists primers used for this experiment.
TABLE-US-00015 TABLE 4 Primers MCM78 attTn7 up rev for
gcatgctcgagcggccgcTTTTAATCAAACATCCTGCCAA integration CTC (SEQ ID
NO: 107) construct MCM79 attTn7 down rev for
gatcgaagggcgatcgTGTCACAGTCTGGCGAAACCG integration (SEQ ID NO: 108)
construct MCM88 attTn7 up forw for
ctgaattctgcagatatcTGTTTTTCCACTCTTCGTTCACTT integration T (SEQ ID
NO: 109) construct MCM89 attTn7 down forw
tctagagggcccAAGAAAAATGCCCCGCTTACG for integration (SEQ ID NO: 110)
construct MCM104 GI1.2 promoter -
Gatcgcggccgcgcccttgacgatgccacatcctgagcaaataattcaaccac MVK
taattgtgagcggataacacaaggaggaaacagctatgtcattaccgttcttaact tc (SEQ ID
NO: 111) MCM105 aspA terminator -
Gatcgggccccaagaaaaaaggcacgtcatctgacgtgccttttttatttgtaga yIDI
cgcgttgttatagcattcta (SEQ ID NO: 112) MCM120 Forward of attTn7:
aaagtagccgaagatgacggtttgtcacatggagttggcaggatgtttgattaaa attTn7
homology, agcAATTAACCCTCACTAAAGGGCGG (SEQ ID NO: 113) GB marker
homology MCM127 Rev complement of AGAGTGTTCACCAAAAATAATAACCTTTCCCGG
1.2 GI: GB marker
TGCAgaagttaagaacggtaatgacatagctgtttcctccttgtgttatccgct homology
(extra cacaattagtggttgaattatttgctcaggatgtggcatcgtcaagggcTAAT long),
promoter, ACGACTCACTATAGGGCTCG (SEQ ID NO: 114) RBS, ATG
i) Target Vector Construction
[0800] The attTn7 site was selected for integration. Regions of
homology upstream (attTn7 up) (primers MCM78 and MCM79) and
downstream (attTn7 down) (primers MCM88 and MCM89) were amplified
by PCR from MG1655 cells. A 50 .mu.L reaction with 1 .mu.L 10 .mu.M
primers, 3 .mu.L ddH.sub.2O, 45 .mu.L Invitrogen Platinum PCR
Supermix High Fidelity, and a scraped colony of MG1655 was
denatured for 2:00 at 94.degree. C., cycled 25 times (2:00 at
94.degree. C., 0:30 at 50.degree. C., and 1:00 at 68.degree. C.),
extended for 7:00 at 72.degree. C., and cooled to 4.degree. C. This
resulting DNA was cloned into pCR2.1 (Invitrogen) according to the
manufacturer's instructions, resulting in plasmids MCM278 (attTn7
up) and MCM252 (attTn7 down). The 832 bp ApaI-PvuI fragment
digested and gel purified from MCM252 was cloned into ApaI-PvuI
digested and gel purified plasmid pR6K, creating plasmid MCM276.
The 825 bp PstI-NotI fragment digested and gel purified from MCM278
was cloned into PstI-NotI digested and gel purified MCM276,
creating plasmid MCM281.
Ii) Cloning of Lower Pathway and Promoter
[0801] MVK-PMK-MVD-IDI genes were amplified from pTrcKKDyIkIS with
primers MCM104 and MCM105 using Roche Expand Long PCR System
according to the manufacturer's instructions. This product was
digested with NotI and ApaI and cloned into MCM281 which had been
digested with NotI and ApaI and gel purified. Primers MCM120 and
MCM127 were used to amplify CMR cassette from the GeneBridges
FRT-gb2-Cm-FRT template DNA using Stratagene Pfu Ultra II. A PCR
program of denaturing at 95.degree. C. for 4:00, 5 cycles of
95.degree. C. for 0:20, 55.degree. C. for 0:20, 72.degree. C. for
2:00, 25 cycles of 95.degree. C. for 0:20, 58.degree. C. for 0:20,
72.degree. C. for 2:00, 72.degree. C. for 10:00, and then cooling
to 4.degree. C. was used with four 50 .mu.L PCR reactions
containing 1 .mu.L.about.10 ng/.mu.L template, 1 .mu.L each primer,
1.25 .mu.L 10 mM dNTPs, 5 .mu.L 10.times. buffer, 1 .mu.L enzyme,
and 39.750 .mu.L ddH.sub.2O. Reactions were pooled, purified on a
Qiagen PCR cleanup column, and used to electroporate water-washed
Pir1 cells containing plasmid MCM296. Electroporation was carried
out in 2 mM cuvettes at 2.5V and 200 ohms. Electroporation
reactions were recovered in LB for 3 hr at 30.degree. C.
Transformant MCM330 was selected on LA with CMP5, Kan50 (FIGS. 107
and 108A-108C; SEQ ID NO:25).
iii) Integration into E. coli Chromosome
[0802] Miniprepped DNA (Qiaquick Spin kit) from MCM330 was digested
with SnaBI and used to electroporate BL21(DE3) (Novagen) or MG1655
containing GeneBridges plasmid pRedET Carb. Cells were grown at
30.degree. C. to .about.OD1 then induced with 0.4% L-arabinose at
37.degree. C. for 1.5 hours. These cells were washed three times in
4.degree. C. ddH2O before electroporation with 2 .mu.L of DNA.
Integrants were selected on L agar with containing chloramphenicol
(5 .mu.g/ml) and subsequently confirmed to not grow on L
agar+Kanamycin (50 .mu.g/ml). BL21 integrant MCM331 and MG1655
integrant MCM333 were frozen.
iv) Construction of pET24D-Kudzu Encoding Kudzu Isoprene
Synthase
[0803] The kudzu isoprene synthase gene was subcloned into the
pET24d vector (Novagen) from the pCR2.1 vector (Invitrogen). In
particular, the kudzu isoprene synthase gene was amplified from the
pTrcKudzu template DNA using primers MCM50 5'-GATCATGCAT TCGCCCTTAG
GAGGTAAAAA AACATGTGTG CGACCTCTTC TCAATTTACT (SEQ ID NO:52) and
MCM53 5'-CGGTCGACGG ATCCCTGCAG TTAGACATAC ATCAGCTG (SEQ ID NO:50).
PCR reactions were carried out using Taq DNA Polymerase
(Invitrogen), and the resulting PCR product was cloned into
pCR2.1-TOPO TA cloning vector (Invitrogen), and transformed into E.
coli Top10 chemically competent cells (Invitrogen). Transformants
were plated on L agar containing carbenicillin (50 .mu.g/ml) and
incubated overnight at 37.degree. C. Five ml Luria Broth cultures
containing carbenicillin 50 .mu.g/ml were inoculated with single
transformants and grown overnight at 37.degree. C. Five colonies
were screened for the correct insert by sequencing of plasmid DNA
isolated from 1 ml of liquid culture (Luria Broth) and purified
using the QIAprep Spin Mini-prep Kit (Qiagen). The resulting
plasmid, designated MCM93, contains the kudzu isoprene synthase
coding sequence in a pCR2.1 backbone.
[0804] The kudzu coding sequence was removed by restriction
endonuclease digestion with PciI and BamH1 (Roche) and gel purified
using the QIAquick Gel Extraction kit (Qiagen). The pET24d vector
DNA was digested with NcoI and BamHI (Roche), treated with shrimp
alkaline phosphatase (Roche), and purified using the QIAprep Spin
Mini-prep Kit (Qiagen). The kudzu isoprene synthase fragment was
ligated to the NcoI/BamH1 digested pET24d using the Rapid DNA
Ligation Kit (Roche) at a 5:1 fragment to vector ratio in a total
volume of 20 .mu.l. A portion of the ligation mixture (5 .mu.l) was
transformed into E. coli Top 10 chemically competent cells and
plated on L agar containing kanamycin (50 .mu.g/ml). The correct
transformant was confirmed by sequencing and transformed into
chemically competent BL21(.lamda.DE3)pLysS cells (Novagen). A
single colony was selected after overnight growth at 37.degree. C.
on L agar containing kanamycin (50 .mu.g/ml). A map of the
resulting plasmid designated as pET24D-Kudzu is shown in FIG. 109.
The sequence of pET24D-Kudzu (SEQ ID NO:26) is shown in FIGS. 110A
and 110B. Isoprene synthase activity was confirmed using a
headspace assay.
v) Production Strains
[0805] Strains MCM331 and MCM333 were cotransformed with plasmids
pCLPtrcupperpathway and either pTrcKudzu or pETKudzu, resulting in
the strains shown in Table 5.
TABLE-US-00016 TABLE 5 Production Strains Isoprene Integrated Upper
MVA synthase Production Background Lower plasmid plasmid Stain
BL21(DE3) MCM331 pCLPtrcUpper pTrcKudzu MCM343 Pathway BL21(DE3)
MCM331 pCLPtrcUpper pET24D- MCM335 Pathway Kudzu MG1655 MCM333
pCLPtrcUpper pTrcKudzu MCM345 Pathway
vi) Isoprene Fermentation from E. coli Expressing Genes from the
Mevalonic Acid Pathway and Grown in Fed-Batch Culture at the 15-L
Scale.
Medium Recipe (Per Liter Fermentation Medium):
[0806] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
modified trace metal solution 1 ml. All of the components were
added together and dissolved in diH2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0807] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component is dissolved one at a time in Di H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0808] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the gi1.2 integrated lower MVA
pathway described above and the pCL PtrcUpperMVA and pTrcKudzu
plasmids. This experiment was carried out to monitor isoprene
formation from glucose at the desired fermentation pH 7.0 and
temperature 30.degree. C. An inoculum of E. coli strain taken from
a frozen vial was streaked onto an LB broth agar plate (with
antibiotics) and incubated at 37.degree. C. A single colony was
inoculated into tryptone-yeast extract medium. After the inoculum
grew to OD 1.0, measured at 550 nm, 500 mL was used to inoculate a
5-L bioreactor.
[0809] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time, the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 57 hour fermentation was 3.9
kg. Induction was achieved by adding IPTG. The IPTG concentration
was brought to 100 .mu.M when the carbon dioxide evolution rate
reached 100 mmol/L/hr. The OD.sub.550 profile within the bioreactor
over time is shown in FIG. 111A. The isoprene level in the off gas
from the bioreactor was determined as described herein. The
isoprene titer increased over the course of the fermentation to a
final value of 1.6 g/L (FIG. 111B). The specific productivity of
isoprene over the course of the fermentation is shown in FIG. 111C
and peaked at 1.2 mg/OD/hr. The total amount of isoprene produced
during the 57 hour fermentation was 16.2 g. The molar yield of
utilized carbon that went into producing isoprene during
fermentation was 0.9%. The weight percent yield of isoprene from
glucose was 0.4%.
XIV. Production of Isoprene from E. coli BL21 Containing the Kudzu
Isoprene Synthase Using Glycerol as a Carbon Source
[0810] A 15-L scale fermentation of E. coli expressing Kudzu
isoprene synthase was used to produce isoprene from cells fed
glycerol in fed-batch culture. This experiment demonstrates that
growing cells in the presence of glycerol (without glucose)
resulted in the production of 2.2 mg/L of isoprene.
Medium Recipe (Per Liter Fermentation Medium):
[0811] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, and 1000.times. modified trace metal
solution 1 ml. All of the components were added together and
dissolved in diH.sub.2O. This solution was autoclaved. The pH was
adjusted to 7.0 with ammonium hydroxide (30%) and q.s. to volume.
Glycerol 5.1 g, thiamine*HCl 0.1 g, and antibiotics were added
after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0812] The medium was generated using the following components per
liter fermentation medium: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component was dissolved one at a time in diH.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0813] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the pTrcKudzu plasmid. This
experiment was carried out to monitor isoprene formation from
glycerol at the desired fermentation pH 7.0 and temperature
35.degree. C. An inoculum of E. coli strain taken from a frozen
vial was streaked onto an LA broth agar plate (with antibiotics)
and incubated at 37.degree. C. A single colony was inoculated into
soytone-yeast extract-glucose medium and grown at 35.degree. C.
After the inoculum grew to OD 1.0, measured at 550 nm, 600 mL was
used to inoculate a 7.5-L bioreactor.
[0814] Glycerol was fed at an exponential rate until cells reached
an optical density at 550 nm (OD.sub.550) of 153. The total amount
of glycerol delivered to the bioreactor during the 36 hour
fermentation was 1.7 kg. Other than the glucose in the inoculum, no
glucose was added to the bioreactor. Induction was achieved by
adding IPTG. The IPTG concentration was brought to 20 .mu.M when
the OD.sub.550 reached a value of 50. The OD.sub.550 profile within
the bioreactor over time is shown in FIG. 57. The isoprene level in
the off gas from the bioreactor was determined as described herein.
The isoprene titer increased over the course of the fermentation to
a final value of 2.2 mg/L (FIG. 58). The total amount of isoprene
produced during the 54 hour fermentation was 20.9 mg, and the time
course of production is shown in FIG. 59.
XV. Isoprene Fermentation from E. coli Expressing Genes from the
Mevalonic Acid Pathway and Grown in Fed-Batch Culture at the 15-L
Scale Using Invert Sugar as a Carbon Source
[0815] A 15-L scale fermentation of E. coli expressing mevalonic
acid pathway polypeptides and Kudzu isoprene synthase was used to
produce isoprene from cells fed invert sugar in fed-batch culture.
This experiment demonstrates that growing cells in the presence of
invert sugar resulted in the production of 2.4 g/L of isoprene.
Medium Recipe (Per Liter Fermentation Medium):
[0816] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Invert sugar 10 g, thiamine*HCl 0.1 g,
and antibiotics were added after sterilization and pH
adjustment.
1000.times. Modified Trace Metal Solution:
[0817] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component is dissolved one at a time in Di H2O, pH to 3.0 with
HCl/NaOH, then q.s. to volume and filter sterilized with 0.22
micron filter.
[0818] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids. This experiment was carried out to monitor
isoprene formation from invert sugar at the desired fermentation pH
7.0 and temperature 30.degree. C. An inoculum of E. coli strain
taken from a frozen vial was streaked onto an LB broth agar plate
(with antibiotics) and incubated at 37.degree. C. A single colony
was inoculated into tryptone-yeast extract medium. After the
inoculum grew to OD 1.0, measured at 550 nm, 500 mL was used to
inoculate a 5-L bioreactor.
[0819] Invert sugar was fed at an exponential rate until cells
reached the stationary phase. After this time the invert sugar feed
was decreased to meet metabolic demands. The total amount of invert
sugar delivered to the bioreactor during the 44 hour fermentation
was 2.4 kg. Induction was achieved by adding IPTG. The IPTG
concentration was brought to 25 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 9. The IPTG concentration
was raised to 50 .mu.M when OD.sub.550 reached 200. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 96. The
isoprene level in the off gas from the bioreactor was determined as
described herein. The isoprene titer increased over the course of
the fermentation to a final value of 2.4 g/L (FIG. 97). The total
amount of isoprene produced during the 44 hour fermentation was
18.4 g and the time course of production is shown in FIG. 98. The
molar yield of utilized carbon that went into producing isoprene
during fermentation was 1.7%. The weight percent yield of isoprene
from glucose was 0.8%.
Example 9
Construction of the Upper and Lower MVA Pathway for Integration
into Bacillus subtilis
[0820] I. Construction of the Upper MVA Pathway in Bacillus
subtilis
[0821] The upper pathway from Enterococcus faecalis is integrated
into B. subtilis under control of the aprE promoter. The upper
pathway consists of two genes; mvaE, which encodes for AACT and
HMGR, and mvaS, which encodes for HMGS. The two genes are fused
together with a stop codon in between, an RBS site in front of
mvaS, and are under the control of the aprE promoter. A terminator
is situated after the mvaE gene. The chloramphenicol resistance
marker is cloned after the mvaE gene and the construct is
integrated at the aprE locus by double cross over using flanking
regions of homology.
[0822] Four DNA fragments are amplified by PCR such that they
contain overhangs that will allowed them to be fused together by a
PCR reaction. PCR amplifications are carried out using Herculase
polymerase according to manufacturer's instructions.
1. PaprE
TABLE-US-00017 [0823] CF 07-134 (+) Start of aprE promoter PstI
(SEQ ID NO: 115) 5'- GACATCTGCAGCTCCATTTTCTTCTGC CF 07-94 (-) Fuse
PaprE to mvaE (SEQ ID NO: 116) 5'-
CAATAATAACTACTGTTTTCACTCTTTACCCTCTCCTTTTAA
Template: Bacillus subtilis chromosomal DNA 2. mvaE
TABLE-US-00018 CF 07-93 (+) fuse mvaE to the aprE promoter (GTG
start codon) (SEQ ID NO: 117) 5'-
TTAAAAGGAGAGGGTAAAGAGTGAAAACAGTAGTTATTATTG CF 07-62 (-) Fuse mvaE
to mvaS with RBS in between (SEQ ID NO: 94) 5'-
TTTATCAATCCCAATTGTCATGTTTTTTTACCTCCTTTATTGTTT TCTTAAATC
Template: Enterococcus faecalis chromosomal DNA (from ATCC) 3.
mvaS
TABLE-US-00019 CF 07-61 (+) Fuse mvaE to mvaS with RBS in between
(SEQ ID NO: 95) 5'- GATTTAAGAAAACAATAAAGGAGGTAAAAAAACATGACAATTGGG
ATTGATAAA CF 07-124 (-) Fuse the end of mvaS to the terminator (SEQ
ID NO: 118) 5'- CGGGGCCAAGGCCGGTTTTTTTTAGTTTCGATAAGAACGAACGGT
Template: Enterococcus faecalis chromosomal DNA 4. B.
amyliquefaciens Alkaline Serine Protease Terminator
TABLE-US-00020 CF 07-123 (+) Fuse the end of mvaS to the terminator
(SEQ ID NO: 119) 5'- ACCGTTCGTTCTTATCGAAACTAAAAAAAACCGGCCTTGGCCCCG
CF 07-46 (-) End of B. amyliquefaciens terminator BamHI (SEQ ID NO:
58) 5'- GACATGACGGATCCGATTACGAATGCCGTCTC
Template: Bacillus amyliquefaciens chromosomal DNA
PCR Fusion Reactions
[0824] 5. Fuse mvaE to mvaS
TABLE-US-00021 CF 07-93 (+) fuse mvaE to the aprE promoter (GTG
start codon) (SEQ ID NO: 117) 5'-
TTAAAAGGAGAGGGTAAAGAGTGAAAACAGTAGTTATTATTG CF 07-124 (-) Fuse the
end of mvaS to the terminator (SEQ ID NO: 118) 5'-
CGGGGCCAAGGCCGGTTTTTTTTAGTTTCGATAAGAACGAACGGT
Template: #2 and 3 from above 6. Fuse mvaE-mvaS to aprE
Promoter
TABLE-US-00022 CF 07-134 (+) Start of aprE promoter PstI (SEQ ID
NO: 115) 5'- GACATCTGCAGCTCCATTTTCTTCTGC CF 07-124 (-) Fuse the end
of mvaS to the terminator (SEQ ID NO: 118) 5'-
CGGGGCCAAGGCCGGTTTTTTTTAGTTTCGATAAGAACGAACGGT
Template #1 and #4 from above
7. Fuse PaprE-mvaE-mvaS to Terminator
TABLE-US-00023 [0825] CF 07-134 (+) Start of aprE promoter PstI
(SEQ ID NO: 115) 5'- GACATCTGCAGCTCCATTTTCTTCTGC CF 07-46 (-) End
of B. amyliquefaciens terminator BamHI (SEQ ID NO: 58) 5'-
GACATGACGGATCCGATTACGAATGCCGTCTC
Template: #4 and #6
[0826] The product is digested with restriction endonucleases
PstI/BamHI and ligated to pJM102 (Perego, M. 1993. Integrational
vectors for genetic manipulation in Bacillus subtilis, p. 615-624.
In A. L. Sonenshein, J. A. Hoch, and R. Losick (ed.), Bacillus
subtilis and other gram-positive bacteria: biochemistry,
physiology, and molecular genetics. American Society for
Microbiology, Washington, D.C.) which is digested with PstI/BamHI.
The ligation is transformed into E. coli TOP 10 chemically
competent cells and transformants are selected on LA containing
carbenicillin (50 .mu.g/ml). The correct plasmid is identified by
sequencing and is designated pJMUpperpathway2 (FIGS. 50 and 51).
Purified plasmid DNA is transformed into Bacillus subtilis aprEnprE
Pxyl-comK and transformants are selected on L agar containing
chloramphenicol (5 .mu.g/ml). A correct colony is selected and is
plated sequentially on L agar containing chloramphenicol 10, 15 and
25 .mu.g/ml to amplify the number of copies of the cassette
containing the upper pathway.
[0827] The resulting strain is tested for mevalonic acid production
by growing in LB containing 1% glucose and 1%. Cultures are
analyzed by GC for the production of mevalonic acid.
[0828] This strain is used subsequently as a host for the
integration of the lower mevalonic acid pathway.
[0829] The following primers are used to sequence the various
constructs above.
Sequencing Primers:
TABLE-US-00024 [0830] CF 07-134 (+) Start of aprE promoter PstI
(SEQ ID NO: 115) 5'- GACATCTGCAGCTCCATTTTCTTCTGC CF 07-58 (+) Start
of mvaE gene (SEQ ID NO: 97) 5'- ATGAAAACAGTAGTTATTATTGATGC CF
07-59 (-) End of mvaE gene (SEQ ID NO: 98) 5'-
ATGTTATTGTTTTCTTAAATCATTTAAAATAGC CF 07-82 (+) Start of mvaS gene
(SEQ ID NO: 99) 5'- ATGACAATTGGGATTGATAAAATTAG CF 07-83 (-) End of
mvaS gene (SEQ ID NO: 100) 5'- TTAGTTTCGATAAGAACGAACGGT CF 07-86
(+) Sequence in mvaE (SEQ ID NO: 101) 5'- GAAATAGCCCCATTAGAAGTATC
CF 07-87 (+) Sequence in mvaE (SEQ ID NO: 102) 5'-
TTGCCAATCATATGATTGAAAATC CF 07-88 (+) Sequence in mvaE (SEQ ID NO:
103) 5'- GCTATGCTTCATTAGATCCTTATCG CF 07-89 (+) Sequence mvaS (SEQ
ID NO: 104) 5'- GAAACCTACATCCAATCTTTTGCCC
[0831] Transformants are selected on LA containing chloramphenicol
at a concentration of 5 .mu.g/ml. One colony is confirmed to have
the correct integration by sequencing and is plated on LA
containing increasing concentrations of chloramphenicol over
several days, to a final level of 25 .mu.g/ml. This results in
amplification of the cassette containing the genes of interest. The
resulting strain is designated CF 455:
pJMupperpathway#1.times.Bacillus subtilis aprEnprE Pxyl comK
(amplified to grow on LA containing chloramphenicol 25
.mu.g/ml).
II. Construction of the Lower MVA Pathway in Bacillus subtilis
[0832] The lower MVA pathway, consisting of the genes mvk1, pmk,
mpd and idi are combined in a cassette consisting of flanking DNA
regions from the nprE region of the B. subtilis chromosome (site of
integration), the aprE promoter, and the spectinomycin resistance
marker (see FIGS. 28 and 29; SEQ ID NO:13). This cassette is
synthesized by DNA2.0 and is integrated into the chromosome of B.
subtilis containing the upper MVA pathway integrated at the aprE
locus. The kudzu isoprene synthase gene is expressed from the
replicating plasmid described in Example 4 and is transformed into
the strain with both upper and lower pathways integrated.
Example 10
Exemplary Isoprene Compositions and Methods of Making them
I. Compositional Analysis of Fermentation Off-Gas Containing
Isoprene
[0833] A 14 L scale fermentation was performed with a recombinant
E. coli BL21 (DE3) strain containing two plasmids (pCL upperMev;
pTrcKKDyIkIS encoding the full mevalonate pathway for isoprenoid
precursor biosynthesis, an isoprenyl pyrophosphate isomerase from
yeast, and an isoprene synthase from Kudzu. Fermentation off-gas
from the 14 L tank was collected into 20 mL headspace vials at
around the time of peak isoprene productivity (27.9 hours elapsed
fermentation time, "EFT") and analyzed by headspace GC/MS for
volatile components.
[0834] Headspace analysis was performed with an Agilent 6890 GC/MS
system fitted with an Agilent HP-5MS GC/MS column (30 m.times.250
.mu.m; 0.25 .mu.m film thickness). A combiPAL autoinjector was used
for sampling 500 .mu.L aliquots from 20 mL headspace vials. The
GC/MS method utilized helium as the carrier gas at a flow of 1
mL/min. The injection port was held at 250.degree. C. with a split
ratio of 50:1. The oven temperature was held at 37.degree. C. for
an initial 2 minute period, followed an increase to 237.degree. C.
at a rate of 25.degree. C./min for a total method time of 10
minutes. The Agilent 5793N mass selective detector scanned from m/z
29 to m/z 300. The limit of detection of this system is
approximately 0.1 .mu.g/L.sub.gas or approximately 0.1 ppm. If
desired, more sensitive equipment with a lower limit of detection
may be used.
[0835] The off-gas consisted of 99.925% (v/v) permanent gases
(N.sub.2, CO.sub.2 and O.sub.2), approximately 0.075% isoprene
(2-methyl-1,3-butadiene) (.about.750 ppmv, 2100 .mu.g/L) and minor
amounts (<50 ppmv) of ethanol, acetone, and two C5 prenyl
alcohols. The amount of water vapor was not determined but was
estimated to be equal to the equilibrium vapor pressure at
0.degree. C. The composition of the volatile organic fraction was
determined by integration of the area under the peaks in the GC/MS
chromatogram (FIGS. 86A and 86B) and is listed in Table 6.
Calibration curves for ethanol and acetone standards enabled the
conversion of GC area to gas phase concentration in units of
.mu.g/L using standard methods.
TABLE-US-00025 TABLE 6 Composition of volatile organic components
in fermentation off-gas. The off-gas was analyzed at the 27.9 hour
time point of a fermentation using an E. coli BL21 (DE3) strain
expressing a heterologous mevalonate pathway, an isoprenyl
pyrophosphate isomerase from yeast, and an isoprene synthase from
Kudzu. Compound RT (min) GC area Area % Conc. (.mu.g/L) Ethanol
1.669 239005 0.84 62 +/- 6 Acetone 1.703 288352 1.02 42 +/- 4
Isoprene (2-methyl- 1.829 27764544 97.81 2000 +/- 200
1,3-butadiene) 3-methyl-3-buten-1-ol 3.493 35060 0.12 <10
3-methyl-2-buten-1-ol 4.116 58153 0.20 <10
II. Measurement of Trace Volatile Organic Compounds (VOCs)
Co-Produced with Isoprene during Fermentation of a Recombinant E.
coli Strain
[0836] A 14 L scale fermentation was performed with a recombinant
E. coli BL21 (DE3) strain containing two plasmids (pCL upperMev;
pTrcKKDyIkIS) encoding the full mevalonate pathway for isoprenoid
precursor biosynthesis, an isoprenyl pyrophosphate isomerase from
yeast, and an isoprene synthase from Kudzu.
[0837] Fermentation off-gas was passed through cooled headspace
vials in order to concentrate and identify trace volatile organic
components. The off-gas from this fermentation was sampled at a
rate of 1 L/min for 10 minutes through a 20 mL headspace vial
packed with quartz wool (2 g) and cooled to -78.degree. C. with dry
ice. The vial was recapped with a fresh vial cap and analyzed by
headspace GC/MS for trapped VOCs using the conditions described in
Example 10, part I. The ratios of compounds observed in FIGS.
87A-87D are a combination of overall level in the fermentation
off-gas, the relative vapor pressure at -78.degree. C., and the
detector response of the mass spectrometer. For example, the low
level of isoprene relative to oxygenated volatiles (e.g., acetone
and ethanol) is a function of the high volatility of this material
such that it does not accumulate in the headspace vial at
-78.degree. C.
[0838] The presence of many of these compounds is unique to
isoprene compositions derived from biological sources. The results
are depicted in FIGS. 87A-87D and summarized in Tables 7A and
7B.
TABLE-US-00026 TABLE 7A Trace volatiles present in off-gas produced
by E. coli BL21 (DE3) (pCL upperMev; pTrcKKDyIkIS) following
cryo-trapping at -78.degree. C. RT GC Compound (min) Area1 Area %2
Ratio %3 Acetaldehyde 1.542 4019861 4.841 40.14 Ethanol 1.634
10553620 12.708 105.39 Acetone 1.727 7236323 8.714 72.26
2-methyl-1,3-butadiene 1.777 10013714 12.058 100.00 1-propanol
1.987 163574 0.197 1.63 Diacetyl 2.156 221078 0.266 2.21
2-methyl-3-buten-2-ol 2.316 902735 1.087 9.01 2-methyl-1-propanol
2.451 446387 0.538 4.46 3-methyl-1-butanal 2.7 165162 0.199 1.65
1-butanol 2.791 231738 0.279 2.31 3-methyl-3-buten-1-ol 3.514
14851860 17.884 148.32 3-methyl-1-butanol 3.557 8458483 10.185
84.47 3-methyl-2-buten-1-ol 4.042 18201341 21.917 181.76
3-methyl-2-butenal 4.153 1837273 2.212 18.35 3-methylbutyl acetate
5.197 196136 0.236 1.96 3-methyl-3-buten-1-yl 5.284 652132 0.785
6.51 acetate 2-heptanone 5.348 67224 0.081 0.67
2,5-dimethylpyrazine 5.591 58029 0.070 0.58 3-methyl-2-buten-1-yl
5.676 1686507 2.031 16.84 acetate 6-methyl-5-hepten-2-one 6.307
101797 0.123 1.02 2,4,5-trimethylpyridine 6.39 68477 0.082 0.68
2,3,5-trimethylpyrazine 6.485 30420 0.037 0.30
(E)-3,7-dimethyl-1,3,6- 6.766 848928 1.022 8.48 octatriene
(Z)-3,7-dimethyl-1,3,6- 6.864 448810 0.540 4.48 octatriene
3-methyl-2-buten-1-yl 7.294 105356 0.127 1.05 butyrate Citronellal
7.756 208092 0.251 2.08 2,3-cycloheptenolpyridine 8.98 1119947
1.349 11.18 1GC area is the uncorrected area under the peak
corresponding to the listed compound. 2Area % is the peak area
expressed as a % relative to the total peak area of all compounds.
3Ratio % is the peak area expressed as a % relative to the peak
area of 2-methyl-1,3-butadiene.
TABLE-US-00027 TABLE 7B Trace volatiles present in off-gas produced
by E. coli BL21 (DE3) (pCL upperMev; pTrcKKDyIkIS) following
cryo-trapping at -196.degree. C. RT Compound (min) GC Area1 Area %2
Ratio %3 Acetaldehyde 1.54 1655710 0.276 0.33 Methanethiol 1.584
173620 0.029 0.03 Ethanol 1.631 10259680 1.707 2.03 Acetone 1.722
73089100 12.164 14.43 2-methyl-1,3-butadiene 1.771 506349429 84.269
100.00 methyl acetate 1.852 320112 0.053 0.06 1-propanol 1.983
156752 0.026 0.03 Diacetyl 2.148 67635 0.011 0.01 2-butanone 2.216
254364 0.042 0.05 2-methyl-3-buten-2-ol 2.312 684708 0.114 0.14
ethyl acetate 2.345 2226391 0.371 0.44 2-methyl-1-propanol 2.451
187719 0.031 0.04 3-methyl-1-butanal 2.696 115723 0.019 0.02
3-methyl-2-butanone 2.751 116861 0.019 0.02 1-butanol 2.792 54555
0.009 0.01 2-pentanone 3.034 66520 0.011 0.01 3-methyl-3-buten-1-ol
3.516 1123520 0.187 0.22 3-methyl-1-butanol 3.561 572836 0.095 0.11
ethyl isobutyrate 3.861 142056 0.024 0.03 3-methyl-2-buten-1-ol
4.048 302558 0.050 0.06 3-methyl-2-butenal 4.152 585690 0.097 0.12
butyl acetate 4.502 29665 0.005 0.01 3-methylbutyl acetate 5.194
271797 0.045 0.05 3-methyl-3-buten-1-yl 5.281 705366 0.117 0.14
acetate 3-methyl-2-buten-1-yl 5.675 815186 0.136 0.16 acetate
(E)-3,7-dimethyl-1,3,6- 6.766 207061 0.034 0.04 octatriene
(Z)-3,7-dimethyl-1,3,6- 6.863 94294 0.016 0.02 octatriene
2,3-cycloheptenolpyridine 8.983 135104 0.022 0.03 1GC area is the
uncorrected area under the peak corresponding to the listed
compound. 2Area % is the peak area expressed as a % relative to the
total peak area of all compounds. 3Ratio % is the peak area
expressed as a % relative to the peak area of
2-methyl-1,3-butadiene.
III. Absence of C5 Hydrocarbon Isomers in Isoprene Derived from
Fermentation.
[0839] Cryo-trapping of isoprene present in fermentation off-gas
was performed using a 2 mL headspace vial cooled in liquid
nitrogen. The off-gas (1 L/min) was first passed through a 20 mL
vial containing sodium hydroxide pellets in order to minimize the
accumulation of ice and solid CO.sub.2 in the 2 mL vial
(-196.degree. C.). Approximately 10 L of off-gas was passed through
the vial, after which it was allowed to warm to -78.degree. C. with
venting, followed by resealing with a fresh vial cap and analysis
by GC/MS.
[0840] GC/MS headspace analysis was performed with an Agilent 6890
GC/MS system using a 100 .mu.L gas tight syringe in headspace mode.
A Zebron ZB-624 GC/MS column (30 m.times.250 .mu.m; 1.40 .mu.m film
thickness) was used for separation of analytes. The GC autoinjector
was fitted with a gas-tight 100 .mu.L syringe, and the needle
height was adjusted to allow the injection of a 50 .mu.L headspace
sample from a 2 mL GC vial. The GC/MS method utilized helium as the
carrier gas at a flow of 1 mL/min. The injection port was held at
200.degree. C. with a split ratio of 20:1. The oven temperature was
held at 37.degree. C. for the 5 minute duration of the analysis.
The Agilent 5793N mass selective detector was run in single ion
monitoring (SIM) mode on m/z 55, 66, 67 and 70. Under these
conditions, isoprene was observed to elute at 2.966 minutes (FIG.
88B). A standard of petroleum derived isoprene (Sigma-Aldrich) was
also analyzed using this method and was found to contain additional
C5 hydrocarbon isomers, which eluted shortly before or after the
main peak and were quantified based on corrected GC area (FIG.
88A).
TABLE-US-00028 TABLE 8A GC/MS analysis of petroleum-derived
isoprene Area % of total RT C5 Compound (min) GC area hydrocarbons
2-methyl-1-butene 2.689 18.2 .times. 103 0.017% (Z)-2-pentene 2.835
10.6 .times. 104 0.101% Isoprene 2.966 10.4 .times. 107 99.869%
1,3- 3.297 12.8 .times. 103 0.012% cyclopentadiene (CPD)
TABLE-US-00029 TABLE 8B GC/MS analysis of fermentation-derived
isoprene (% total C5 hydrocarbons) Corrected GC % of total C5
Compound RT (min) Area hydrocarbons Isoprene 2.966 8.1 .times. 107
100%
[0841] In a separate experiment, a standard mixture of C5
hydrocarbons was analyzed to determine if the detector response was
the same for each of the compounds. The compounds were
2-methyl-1-butene, 2-methyl-1,3-butadiene, (E)-2-pentene,
(Z)-2-pentene and (E)-1,3-pentadiene. In this case, the analysis
was performed on an Agilent DB-Petro column (100 m.times.0.25 mm,
0.50 .mu.m film thickness) held at 50.degree. C. for 15 minutes.
The GC/MS method utilized helium as the carrier gas at a flow of 1
mL/min. The injection port was held at 200.degree. C. with a split
ratio of 50:1. The Agilent 5793N mass selective detector was run in
full scan mode from m/z 19 to m/z 250. Under these conditions, a
100 .mu.g/L concentration of each standard produced the same
detector response within experimental error.
IV. Compositions Comprising Isoprene Adsorbed to a Solid Phase.
[0842] Biologically-produced isoprene was adsorbed to activated
carbon resulting in a solid phase containing 50 to 99.9% carbon,
0.1% to 50% isoprene, 0.01% to 5% water, and minor amounts
(<0.1%) of other volatile organic components.
[0843] Fermentation off-gas was run through a copper condensation
coil held at 0.degree. C., followed by a granulated silica
desiccant filter in order to remove water vapor. The dehumidified
off-gas was then run through carbon containing filters (Koby Jr,
Koby Filters, Mass.) to the point at which breakthrough of isoprene
was detected in the filter exhaust by GC/MS. The amount of isoprene
adsorbed to the cartridge can be determined indirectly by
calculating the concentration in the off-gas, the overall flow rate
and the percent breakthrough over the collection period.
Alternately the adsorbed isoprene can be recovered from the filters
by thermal, vacuum, or solvent-mediated desorption.
V. Collection and Analysis of Condensed Isoprene.
[0844] Fermentation off-gas is dehumidified, and the CO.sub.2
removed by filtration through a suitable adsorbent (e.g.,
ascarite). The resulting off-gas stream is then run through a
liquid nitrogen-cooled condenser in order to condense the VOCs in
the stream. The collection vessel contains t-butyl catechol to
inhibit the resulting isoprene condensate. The condensate is
analyzed by GC/MS and NMR in order to determine purity using
standard methods, such as those described herein.
VI. Production of Prenyl Alcohols by Fermentation
[0845] Analysis of off-gas from an E. coli BL21 (DE3) strain
expressing a Kudzu isoprene synthase revealed the presence of both
isoprene and 3-methyl-3-buten-1-ol (isoprenol). The levels of the
two compounds in the fermentation off-gas over the fermentation are
shown in FIG. 89 as determined by headspace GC/MS. Levels of
isoprenol (3-methyl-3-buten-1-ol, 3-MBA) attained was nearly 10
.mu.g/L.sub.offgas in this experiment. Additional experiments
produced levels of approximately 20 .mu.g/L.sub.offgas in the
fermentation off-gas.
Example 11
The De-Coupling of Growth and Production of Isoprene in E. coli
Expressing Genes from the Mevalonic Acid Pathway and Fermented in a
Fed-Batch Culture
[0846] Example 11 illustrates the de-coupling of cell growth from
mevalonic acid and isoprene production.
I. Fermentation Conditions
Medium Recipe (Per Liter Fermentation Medium):
[0847] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
modified trace metal solution 1 ml. All of the components were
added together and dissolved in diH2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0848] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component was dissolved one at a time in Di H.sub.2O, pH to
3.0 with HCl/NaOH, then q.s. to volume, and filter sterilized with
a 0.22 micron filter.
[0849] Fermentation was performed with E. coli cells containing the
pTrcHis2AUpperPathway (also called pTrcUpperMVA, FIGS. 91 and
92A-92C; SEQ ID NO:23) (50 .mu.g/ml carbenicillin) or the pCL
PtrcUpperMVA (also called pCL PtrcUpperPathway (FIG. 26)) (50
.mu.g/ml spectinomycin) plasmids. For experiments in which isoprene
was produced, the E. coli cells also contained the pTrc KKDyIkIS
(50 .mu.g/ml kanamycin) plasmid. These experiments were carried out
to monitor mevalonic acid or isoprene formation from glucose at the
desired fermentation pH 7.0 and temperature 30.degree. C. An
inoculum of an E. coli strain taken from a frozen vial was streaked
onto an LA broth agar plate (with antibiotics) and incubated at
37.degree. C. A single colony was inoculated into tryptone-yeast
extract medium. After the inoculum grew to optical density 1.0 when
measured at 550 nm, it was used to inoculate the bioreactor.
[0850] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. Induction was achieved by
adding IPTG. The mevalonic acid concentration in fermentation broth
was determined by applying perchloric acid (Sigma-Aldrich #244252)
treated samples (0.3 M incubated at 4.degree. C. for 5 minutes) to
an organic acids HPLC column (BioRad #125-0140). The concentration
was determined by comparing the broth mevalonic acid peak size to a
calibration curve generated from mevalonolacetone (Sigma-Aldrich
#M4667) treated with perchloric acid to form D,L-mevalonate. The
isoprene level in the off gas from the bioreactor was determined as
described herein. The isoprene titer is defined as the amount of
isoprene produced per liter of fermentation broth.
II. Mevalonic Acid Production from E. coli BL21 (DE3) Cells
Expressing the pTrcUpperMVA Plasmid at a 150-L Scale
[0851] BL21 (DE3) cells that were grown on a plate as explained
above in Example 11, part I were inoculated into a flask containing
45 mL of tryptone-yeast extract medium and incubated at 30.degree.
C. with shaking at 170 rpm for 5 hours. This solution was
transferred to a 5-L bioreactor of tryptone-yeast extract medium,
and the cells were grown at 30.degree. C. and 27.5 rpm until the
culture reached an OD.sub.550 of 1.0. The 5 L of inoculum was
seeded into a 150-L bioreactor containing 45-kg of medium. The IPTG
concentration was brought to 1.1 mM when the OD.sub.550 reached a
value of 10. The OD.sub.550 profile within the bioreactor over time
is shown in FIG. 60A. The mevalonic acid titer increased over the
course of the fermentation to a final value of 61.3 g/L (FIG. 60B).
The specific productivity profile throughout the fermentation is
shown in FIG. 60C and a comparison to FIG. 60A illustrates the
de-coupling of growth and mevalonic acid production. The total
amount of mevalonic acid produced during the 52.5 hour fermentation
was 4.0 kg from 14.1 kg of utilized glucose. The molar yield of
utilized carbon that went into producing mevalonic acid during
fermentation was 34.2%.
III. Mevalonic Acid Production from E. coli BL21 (DE3) Cells
Expressing the pTrcUpperMVA Plasmid at a 15-L Scale
[0852] BL21 (DE3) cells that were grown on a plate as explained
above in Example 11, part I were inoculated into a flask containing
500 mL of tryptone-yeast extract medium and grown at 30.degree. C.
at 160 rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 1.0 mM when the OD.sub.550 reached a value of 10. The
OD.sub.550 profile within the bioreactor over time is shown in FIG.
61A. The mevalonic acid titer increased over the course of the
fermentation to a final value of 53.9 g/L (FIG. 61B). The specific
productivity profile throughout the fermentation is shown in FIG.
61C and a comparison to FIG. 61A illustrates the de-coupling of
growth and mevalonic acid production. The total amount of mevalonic
acid produced during the 46.6 hour fermentation was 491 g from 2.1
kg of utilized glucose. The molar yield of utilized carbon that
went into producing mevalonic acid during fermentation was
28.8%.
IV. Mevalonic Acid Production from E. coli FM5 Cells Expressing the
pTrcUpperMVA Plasmid at a 15-L Scale
[0853] FM5 cells that were grown on a plate as explained above in
Example 11, part I were inoculated into a flask containing 500 mL
of tryptone-yeast extract medium and grown at 30.degree. C. at 160
rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 1.0 mM when the OD.sub.550 reached a value of 30. The
OD.sub.550 profile within the bioreactor over time is shown in FIG.
62A. The mevalonic acid titer increased over the course of the
fermentation to a final value of 23.7 g/L (FIG. 62B). The specific
productivity profile throughout the fermentation is shown in FIG.
62C and a comparison to FIG. 62A illustrates the de-coupling of
growth and mevalonic acid production. The total amount of mevalonic
acid produced during the 51.2 hour fermentation was 140 g from 1.1
kg of utilized glucose. The molar yield of utilized carbon that
went into producing mevalonic acid during fermentation was
15.2%.
V. Isoprene Production from E. coli BL21 (DE3) Cells Expressing the
pCL PtrcUpperMVA and pTrc KKDyIkIS Plasmids at a 15-L Scale
[0854] BL21 (DE3) cells expressing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids that were grown on a plate as explained above in
Example 11, part I were inoculated into a flask containing 500 mL
of tryptone-yeast extract medium and grown at 30.degree. C. at 160
rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 25 .mu.M when the OD.sub.550 reached a value of 10. The
IPTG concentration was raised to 50 .mu.M when OD.sub.550 reached
190. The IPTG concentration was raised to 100 .mu.M at 38 hours of
fermentation. The OD.sub.550 profile within the bioreactor over
time is shown in FIG. 63A. The isoprene titer increased over the
course of the fermentation to a final value of 2.2 g/L broth (FIG.
63B). The specific productivity profile throughout the fermentation
is shown in FIG. 63C and a comparison to FIG. 63A illustrates the
de-coupling of growth and isoprene production. The total amount of
isoprene produced during the 54.4 hour fermentation was 15.9 g from
2.3 kg of utilized glucose. The molar yield of utilized carbon that
went into producing isoprene during fermentation was 1.53%.
VI. Isoprene Production from E. coli BL21 (DE3) Tuner Cells
Expressing the pCL PtrcUpperMVA and pTrc KKDyIkIS Plasmids at a
15-L Scale
[0855] BL21 (DE3) tuner cells expressing the pCL PtrcUpperMVA and
pTrc KKDyIkIS plasmids that were grown on a plate as explained
above in Example 11, part I were inoculated into a flask containing
500 mL of tryptone-yeast extract medium and grown at 30.degree. C.
at 160 rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 26 .mu.M when the OD.sub.550 reached a value of 10. The
IPTG concentration was raised to 50 .mu.M when OD.sub.550 reached
175. The OD.sub.550 profile within the bioreactor over time is
shown in FIG. 64A. The isoprene titer increased over the course of
the fermentation to a final value of 1.3 g/L broth (FIG. 64B). The
specific productivity profile throughout the fermentation is shown
in FIG. 64C and a comparison to FIG. 64A illustrates the
de-coupling of growth and isoprene production. The total amount of
isoprene produced during the 48.6 hour fermentation was 9.9 g from
1.6 kg of utilized glucose. The molar yield of utilized carbon that
went into producing isoprene during fermentation was 1.34%.
VII. Isoprene Production from E. Coli MG1655 Cells Expressing the
pCL PtrcUpperMVA and pTrc KKDyIkIS Plasmids at a 15-L Scale
[0856] MG1655 cells expressing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids that were grown on a plate as explained above in
Example 11, part I were inoculated into a flask containing 500 mL
of tryptone-yeast extract medium and grown at 30.degree. C. at 160
rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 24 .mu.M when the OD.sub.550 reached a value of 45. The
OD.sub.550 profile within the bioreactor over time is shown in FIG.
65A. The isoprene titer increased over the course of the
fermentation to a final value of 393 mg/L broth (FIG. 65B). The
specific productivity profile throughout the fermentation is shown
in FIG. 65C and a comparison to FIG. 65A illustrates the
de-coupling of growth and isoprene production. The total amount of
isoprene produced during the 67.4 hour fermentation was 2.2 g from
520 g of utilized glucose. The molar yield of utilized carbon that
went into producing isoprene during fermentation was 0.92%.
VIII. Isoprene Production from E. coli MG1655Ack-Pta Cells
Expressing the pCL PtrcUpperMVA and pTrc KKDyIkIS Plasmids at a
15-L Scale
[0857] MG1655ack-pta cells expressing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids that were grown on a plate as explained above in
Example 11, part I were inoculated into a flask containing 500 mL
of tryptone-yeast extract medium and grown at 30.degree. C. at 160
rpm to OD.sub.550 1.0. This material was seeded into a 15-L
bioreactor containing 4.5-kg of medium. The IPTG concentration was
brought to 30 .mu.M when the OD.sub.550 reached a value of 10. The
OD.sub.550 profile within the bioreactor over time is shown in FIG.
66A. The isoprene titer increased over the course of the
fermentation to a final value of 368 mg/L broth (FIG. 66B). The
specific productivity profile throughout the fermentation is shown
in FIG. 66C and a comparison to FIG. 66A illustrates the
de-coupling of growth and isoprene production. The total amount of
isoprene produced during the 56.7 hour fermentation was 1.8 g from
531 g of utilized glucose. The molar yield of utilized carbon that
went into producing isoprene during fermentation was 0.73%.
IX. Isoprene Production from E. coli FM5 Cells Expressing the pCL
PtrcUpperMVA and pTrc KKDyIkIS Plasmids at a 15-L Scale
[0858] FM5 cells expressing the pCL PtrcUpperMVA and pTrc KKDyIkIS
plasmids that were grown on a plate as explained above in Example
11, part I were inoculated into a flask containing 500 mL of
tryptone-yeast extract medium and grown at 30.degree. C. at 160 rpm
to OD.sub.550 1.0. This material was seeded into a 15-L bioreactor
containing 4.5-kg of medium. The IPTG concentration was brought to
27 .mu.M when the OD.sub.550 reached a value of 15. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 67A. The
isoprene titer increased over the course of the fermentation to a
final value of 235 mg/L broth (FIG. 67B). The specific productivity
profile throughout the fermentation is shown in FIG. 67C and a
comparison to FIG. 67A illustrates the de-coupling of growth and
isoprene production. The total amount of isoprene produced during
the 52.3 hour fermentation was 1.4 g from 948 g of utilized
glucose. The molar yield of utilized carbon that went into
producing isoprene during fermentation was 0.32%.
Example 12
Production of Isoprene During the Exponential Growth Phase of E.
coli Expressing Genes from the Mevalonic Acid Pathway and Fermented
in a Fed-Batch Culture
[0859] Example 12 illustrates the production of isoprene during the
exponential growth phase of cells.
Medium Recipe (Per Liter Fermentation Medium):
[0860] The medium was generated using the following components per
liter fermentation medium: K.sub.2HPO.sub.4 7.5 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
modified trace metal solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0861] The 1000.times. modified trace metal solution was generated
using the following components: citric acids*H.sub.2O 40 g,
MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g,
CoCl.sub.2*6H.sub.2O 1 g, ZnSO*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O
100 mg, H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg.
Each component is dissolved one at a time in Di H2O, pH to 3.0 with
HCl/NaOH, then q.s. to volume and filter sterilized with 0.22
micron filter.
[0862] Fermentation was performed in a 15-L bioreactor with
ATCC11303 E. coli cells containing the pCL PtrcUpperMVA and pTrc
KKDyIkIS plasmids. This experiment was carried out to monitor
isoprene formation from glucose at the desired fermentation pH 7.0
and temperature 30.degree. C. An inoculum of E. coli strain taken
from a frozen vial was streaked onto an LB broth agar plate (with
antibiotics) and incubated at 37.degree. C. A single colony was
inoculated into tryptone-yeast extract medium. After the inoculum
grew to OD 1.0, measured at 550 nm, 500 mL was used to inoculate a
5-L bioreactor.
[0863] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 50 hour fermentation was 2.0
kg. Induction was achieved by adding IPTG. The IPTG concentration
was brought to 25 .mu.M when the optical density at 550 nm
(OD.sub.550) reached a value of 10. The IPTG concentration was
raised to 50 .mu.M when OD.sub.550 reached 190. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 99. The
isoprene level in the off gas from the bioreactor was determined as
described herein. The isoprene titer increased over the course of
the fermentation to a final value of 1.4 g/L (FIG. 100). The total
amount of isoprene produced during the 50 hour fermentation was
10.0 g. The profile of the isoprene specific productivity over time
within the bioreactor is shown in FIG. 101. The molar yield of
utilized carbon that contributed to producing isoprene during
fermentation was 1.1%. The weight percent yield of isoprene from
glucose was 0.5%.
Example 13
Flammability Modeling and Testing of Isoprene
I. Summary of Flammability Modeling and Testing of Isoprene
[0864] Flammability modeling and experiments were performed for
various hydrocarbon/oxygen/nitrogen/water/carbon dioxide mixtures.
This modeling and experimental tested was aimed at defining
isoprene and oxygen/nitrogen flammability curves under specified
steam and carbon monoxide concentrations at a fixed pressure and
temperature. A matrix of the model conditions is shown in Table 9,
and a matrix of the experiments performed is shown in Table 5.
TABLE-US-00030 TABLE 9 Summary of Modeled Isoprene Flammability
Carbon Steam Dioxide Isoprene Oxygen Temper- Pres- Concen- Concen-
Concen- Concen- ature sure tration tration tration tration Series
(.degree. C.) (psig) (wt %) (wt. %) (vol. %) (vol. %) A 40 0 0 0
Varying Varying B 40 0 4 0 Varying Varying C 40 0 0 5 Varying
Varying D 40 0 0 10 Varying Varying E 40 0 0 15 Varying Varying F
40 0 0 20 Varying Varying G 40 0 0 30 Varying Varying
TABLE-US-00031 TABLE 10 Summary of Isoprene Flammability Tests
Steam Tem- Concen- Isoprene Oxygen Series perature Pressure tration
Concentration Concentration Number (.degree. C.) (psig) (vol. %)
(vol. %) (vol. %) 1 40 0 0 Varying Varying 2 40 0 4 Varying
Varying
II. Description of Calculated Adiabatic Flame Temperature (CAFT)
Model
[0865] Calculated adiabatic flame temperatures (CAFT) along with a
selected limit flame temperature for combustion propagation were
used to determine the flammability envelope for isoprene. The
computer program used in this study to calculate the flame
temperatures is the NASA Glenn Research Center CEA (Chemical
Equilibrium with Applications) software.
[0866] There are five steps involved in determining the
flammability envelope using an adiabatic flame temperature model
for a homogeneous combustion mechanism (where both the fuel and
oxidant are in the gaseous state): selection of the desired
reactants, selection of the test condition, selection of the limit
flame temperature, modification of the reactants, and construction
of a flammability envelope from calculations.
[0867] In this first step, selection of desired reactants, a
decision must be made as to the reactant species that will be
present in the system and the quantities of each. In many cases the
computer programs used for the calculations have a list of reactant
and product species. If any of the data for the species to be
studied are not found in the program, they may be obtained from
other sources such as the JANAF tables or from the internet. In
this current model data for water, nitrogen, oxygen and carbon
dioxide were present in the program database. The program database
did not have isoprene as a species; therefore the thermodynamic
properties were incorporated manually.
[0868] The next step is to decide whether the initial pressure and
temperature conditions that the combustion process is taking place
in. In this model the pressure was 1 atmosphere (absolute) and the
temperature was 40.degree. C., the boiling point of isoprene.
[0869] The limit flame temperature for combustion can be either
selected based on theoretical principles or determined
experimentally. Each method has its own limitations.
[0870] Based on prior studies, the limit flame temperatures of
hydrocarbons fall in the range of 1000 K to 1500 K. For this model,
the value of 1500 K was selected. This is the temperature at which
the reaction of carbon monoxide to carbon dioxide (a highly
exothermic reaction and constitutes a significant proportion of the
flame energy) becomes self sustaining.
[0871] Once the limit flame temperature has been decided upon,
model calculations are performed on the given reactant mixture
(species concentrations) and the adiabatic flame temperature is
determined. Flame propagation is considered to have occurred only
if the temperature is greater than the limit flame temperature. The
reactant mixture composition is then modified to create data sets
for propagation and non-propagation mixtures.
[0872] This type of model shows good agreement with the
experimentally determined flammability limits. Regions outside the
derived envelope are nonflammable and regions within it are
flammable. The shape of the envelope forms a nose. The nose of the
envelope is related to the limiting oxygen concentration (LOC) for
gaseous fuels.
III. Results from Calculated Adiabatic Flame Temperature (CAFT)
Model
[0873] Plotted in FIGS. 68 through 74 are the CAFT model results
for Series A to G, respectively. The figures plot the calculated
adiabatic flame temperature (using the NASA CEA program) as a
function of fuel concentration (by weight) for several
oxygen/nitrogen ratios (by weight). The parts of the curve that are
above 1500 K, the selected limit flame temperature, contain fuel
levels sufficient for flame propagation. The results may be
difficult to interpret in the form presented in FIGS. 68 through
74. Additionally, the current form is not conducive to comparison
with experimental data which is generally presented in terms of
volume percent.
[0874] Using Series A as an example the data in FIG. 68 can be
plotted in the form of a traditional flammability envelope. Using
FIG. 68 and reading across the 1500 K temperature line on the
ordinate one can determine the fuel concentration for this limit
flame temperature by dropping a tangent to the abscissa for each
curve (oxygen to nitrogen ratio) that it intersects. These values
can then be tabulated as weight percent of fuel for a given weight
percent of oxidizer (FIG. 75A). Then knowing the composition of the
fuel (100 wt. % isoprene) and the composition of the oxidizer
(relative content of water, oxygen and nitrogen) molar quantities
can be established.
[0875] From these molar quantities percentage volume concentrations
can be calculated. The concentrations in terms of volume percent
can then be plotted to generate a flammability envelope (FIG. 75B).
The area bounded by the envelope is the explosible range and the
area excluded is the non-explosible range. The "nose" of the
envelope is the limiting oxygen concentration. FIGS. 76A and 76B
contain the calculated volume concentrations for the flammability
envelope for Series B generated from data presented in FIG. 69. A
similar approach can be used on data presented in FIGS. 70-74.
IV. Flammability Testing Experimental Equipment and Procedure
[0876] Flammability testing was conducted in a 4 liter high
pressure vessel. The vessel was cylindrical in shape with an inner
diameter of 6'' and an internal height of 8.625''. The temperature
of the vessel (and the gases inside) was maintained using external
heaters that were controlled by a PID controller. To prevent heat
losses, ceramic wool and reflective insulation were wrapped around
the pressure vessel. Type K thermocouples were used the measure the
temperature of the gas space as well as the temperature of the
vessel itself. FIG. 77 illustrates the test vessel.
[0877] Before a test was ran, the vessel was evacuated and purged
with nitrogen to ensure that any gases from previous tests were
removed. A vacuum was then pulled on the vessel. The pressure after
this had been done was typically around 0.06 bar(a). Due to the
nitrogen purging, the gas responsible for this initial pressure was
assumed to be nitrogen. Using partial pressures, water, isoprene,
nitrogen, and oxygen were then added in the appropriate amounts to
achieve the test conditions in question. A magnetically driven
mixing fan within the vessel ensured mixing of the gaseous
contents. The gases were allowed to mix for about 2 minutes with
the fan being turned off approximately 1 minute prior to
ignition.
[0878] The igniter was comprised of a 1.5 ohm nicrome coil and an
AC voltage source on a timer circuit. Using an oscilloscope, it was
determined that 34.4 VAC were delivered to the igniter for 3.2
seconds. A maximum current of 3.8 amps occurred approximately
halfway into the ignition cycle. Thus, the maximum power was 131 W
and the total energy provided over the ignition cycle was
approximately 210 J.
[0879] Deflagration data was acquired using a variable reluctance
Validyne DP215 pressure transducer connected to a data acquisition
system. A gas mixture was considered to have deflagrated if the
pressure rise was greater than or equal to 5%.
V. Results of Flammability Testing
[0880] The first experimental series (Series 1) was run at
40.degree. C. and 0 psig with no steam. Running tests at varying
concentrations of isoprene and oxygen produced the flammability
curve shown in FIG. 78A. The data points shown in this curve are
only those that border the curve. A detailed list of all the data
points taken for this series is shown in FIGS. 80A and 80B.
[0881] FIG. 78B summarizes the explosibility data points shown in
FIG. 78A. FIG. 78C is a comparison of the experimental data with
the CAFT model predicted flammability envelope. The model agrees
very well with the experimental data. Discrepancies may be due to
the non-adiabatic nature of the test chamber and limitations of the
model. The model looks at an infinite time horizon for the
oxidation reaction and does not take into consideration any
reaction kinetic limitation.
[0882] Additionally, the model is limited by the number of
equilibrium chemical species that are in its database and thus may
not properly predict pyrolytic species. Also, the flammability
envelope developed by the model uses one value for a limit flame
temperature (1500K). The limit flame temperature can be a range of
values from 1,000K to 1,500K depending on the reacting chemical
species. The complex nature of pyrolytic chemical species formed at
fuel concentrations above the stoichiometric fuel/oxidizer level is
one reason why the model may not accurately predict the upper
flammable limit for this system.
[0883] The second experimental series (Series 2) was run at
40.degree. C. and 0 psig with a fixed steam concentration of 4%.
Running tests at varying concentrations of isoprene and oxygen
produced the flammability curve shown in FIG. 79A. The data points
shown in this curve are only those that border the curve. A
detailed list of all the data points taken for this series is shown
in FIG. 81. Due to the similarity between the data in Series 1 only
the key points of lower flammable limit, limiting oxygen
concentration, and upper flammable limits were tested. The addition
of 4% steam to the test mixture did not significantly change the
key limits of the flammability envelope. It should be noted that
higher concentrations of steam/water and or other inertants may
influence the flammability envelope.
[0884] FIG. 79B summarizes the explosibility data points shown in
FIG. 79A. FIG. 79C is a comparison of the experimental data with
the CAFT model predicted flammability envelope. The model agrees
very well with the experimental data. Discrepancies may be due to
the same factors described in Series 1
VI. Calculation of Flammability Limits of Isoprene in Air at 3
Atmospheres of Pressure
[0885] The methods described in Example 13, parts I to IV were also
used to calculate the flammability limits of isoprene at an
absolute system pressure of 3 atmospheres and 40.degree. C. These
results were compared to those of Example 13, parts I to IV at an
absolute system pressure of 1 atmosphere and 40.degree. C. This
higher pressure was tested because the flammability envelope
expands or grows larger as the initial system pressure is
increased. The upper flammability limit is affected the most,
followed by the limiting oxygen composition. The lower flammability
limit is the least affected (see, for example, "Bulletin
627--Flammability Characteristics of Combustible Gases and Vapors"
written by Michael G. Zabetakis and published by the former US
Bureau of Mines (1965), which is hereby incorporated by reference
in its entirety, particular with respect to the calculation of
flammability limits).
[0886] In FIG. 82, the calculated adiabatic flame temperature is
plotted as a function of isoprene (fuel) concentration, expressed
in weight percent of the total fuel/nitrogen/oxygen, where the
system pressure was initially 3 atmospheres. The calculated flame
temperatures are very similar to those determined initially in the
1 atmosphere system (FIG. 83). As a result, when flammability
envelopes are generated using the calculated adiabatic flammability
data, the curves are very similar (see FIGS. 84 and 85). Therefore,
based on these theoretical calculations, a system pressure increase
from 1 atmosphere to 3 atmosphere does not result in a significant
increase/broadening of the flammability envelope. If desired, these
model results may be validated using experimental testing (such as
the experimental testing described herein at a pressure of 1
atmosphere).
VII. Summary of Flammability Studies
[0887] A calculated adiabatic temperature model was developed for
the flammability envelope of the
isoprene/oxygen/nitrogen/water/carbon dioxide system at 40.degree.
C. and 0 psig. The CAFT model that was developed agreed well with
the experimental data generated by the tests conducted in this
work. The experimental results from Series 1 and 2 validated the
model results from Series A and B.
Example 14
Expression Constructs and Strains
I. Construction of Plasmids Encoding Mevalonate Kinase.
[0888] A construct encoding the Methanosarcina mazei lower MVA
pathway (Accession numbers NC.sub.--003901.1, NC.sub.--003901.1,
NC.sub.--003901.1, and NC.sub.--003901.1, which are each hereby
incorporated by reference in their entireties) was synthesized with
codon optimization for expression in E. coli. This construct is
named M. mazei archeal Lower Pathway operon (FIGS. 112A-112C; SEQ
ID NO:27) and encodes M. mazei MVK, a putative decarboxylase, IPK,
and IDI enzymes. The gene encoding MVK (Accession number
NC.sub.--003901.1) was PCR amplified using primers MCM165 and
MCM177 (Table 11) using the Strategene Herculase II Fusion kit
according to the manufacturer's protocol using 30 cycles with an
annealing temperature of 55.degree. C. and extension time of 60
seconds. This amplicon was purified using a Qiagen PCR column and
then digested at 37.degree. C. in a 10 .mu.L reaction with PmeI (in
the presence of NEB buffer 4 and BSA). After one hour, NsiI and
Roche buffer H were added for an additional hour at 37.degree. C.
The digested DNA was purified over a Qiagen PCR column and ligated
to a similarly digested and purified plasmid MCM29 (MCM29 is E.
coli TOP10 (Invitrogen) transformed with pTrcKudzu encoding Kudzu
isoprene synthase) in an 11 .mu.L reaction 5 .mu.L Roche Quick
Ligase buffer 1, 1 .mu.L buffer 2, 1 .mu.L plasmid, 3 .mu.L
amplicon, and 1 .mu.L ligase (1 hour at room temperature). MCM 29
is pTrcKudzuKan. The ligation reaction was introduced into
Invitrogen TOP10 cells and transformants selected on LA/kan50
plates incubated at 37.degree. C. overnight. The MVK insert in the
resulting plasmid MCM382 was sequenced (FIGS. 113A-113C; SEQ ID NO:
28).
TABLE-US-00032 TABLE 11 Oligonucleotides. MCM161 M.mazei MVK for
CACCATGGTATCCTGTTCTGCG (SEQ ID NO: 120) MCM162 M.mazei MVK rev
TTAATCTACTTTCAGACCTTGC (SEQ ID NO: 121) MCM165 M.mazei MVK for
gcgaacgATGCATaaaggaggtaaaaaaacATGGTATCCTGTTCTG Rw/BS
CGCCGGGTAAGATTTACCTG (SEQ ID NO: 122) MCM177 M.mazei MVK rev
gggcccgtttaaactttaactagactTTAATCTACTTTCAGACCTTGC Pst (SEQ ID NO:
123)
II. Creation of Strains Overexpressing Mevalonate Kinase and
Isoprene Synthase.
[0889] Plasmid MCM382 was transformed into MCM331 cells (which
contains chromosomal construct gi1.2KKDyI encoding S. cerevisiae
mevalonate kinase, mevalonate phosphate kinase, mevalonate
pyrophosphate decarboxylase, and IPP isomerase) that had been grown
to midlog in LB medium and washed three times in iced, sterile
water. One .mu.L of DNA was added to 50 .mu.L of cell suspension,
and this mixture was electroporated in a 2 mm cuvette at 2.5 volts,
25 uFd followed immediately by recovery in 500 .mu.L LB medium for
one hour at 37.degree. C. Transformant was selected on LA/kan50 and
named MCM391. Plasmid MCM82 was introduced into this strain by the
same electroporation protocol followed by selection on
LA/kan50/spec50. The resulting strain MCM401 contains a cmp-marked
chromosomal construct gi1.2KKDyI, kan-marked plasmid MCM382, and
spec-marked plasmid MCM82 (which is pCL PtrcUpperPathway encoding
E. faecalis mvaE and mvaS). See Table 12.
TABLE-US-00033 TABLE 12 Strains overexpressing mevalonate kinase
and isoprene synthase. MCM382 E. coli BL21 (lambdaDE3)
pTrcKudzuMVK(M. mazei)GI1.2KKDyI MCM391 MCM331 pTrcKudzuMVK(M.
mazei) MCM401 MCM331pTrcKudzuMVK(M. mazei)pCLPtrcUpperpathway
MCM396 MCM333pTrcKudzuMVK(M. mazei) MCM406 MCM333pTrcKudzuMVK(M.
mazei)pCLPtrcUpperpathway
III. Construction of Plasmid MCM376-MVK from M. mazei Archeal Lower
in pET200D.
[0890] The MVK ORF from the M. mazei archeal Lower Pathway operon
(FIGS. 112A-112C; SEQ ID NO:27) was PCR amplified using primers
MCM161 and MCM162 (Table 11) using the Invitrogen Platinum HiFi PCR
mix. 45 .mu.L of PCR mix was combined with 1 .mu.L template, 1
.mu.L of each primer at 10 .mu.M, and 2 .mu.L water. The reaction
was cycled as follows: 94.degree. C. for 2:00; 30 cycles of
94.degree. C. for 0:30, 55.degree. C. for 0:30, and 68.degree. C.
for 1:15; and then 72.degree. C. for 7:00, and 4.degree. C. until
cool. 3 .mu.L of this PCR reaction was ligated to Invitrogen
pET200D plasmid according to the manufacturer's protocol. 3 .mu.L
of this ligation was introduced into Invitrogen TOP10 cells, and
transformants were selected on LA/kan50. A plasmid from a
transformant was isolated and the insert sequenced, resulting in
MCM376 (FIGS. 114A-114C; SEQ ID NO:29).
IV. Creation of Expression Strain MCM378.
[0891] Plasmid MCM376 was transformed into Invitrogen BL21(DE3)
pLysS cells according to the manufacturer's protocol. Transformant
MCM378 was selected on LA/kan50.
Example 15
Production of Isoprene by E. coli Expressing the Upper Mevalonic
Acid (MVA) Pathway, the Integrated Lower MVA Pathway (gi1.2KKDyI),
Mevalonate Kinase from M. mazei, and Isoprene Synthase from Kudzu
and Grown in Fed-Batch Culture at the 20 mL Batch Scale
Medium Recipe (Per Liter Fermentation Medium):
[0892] Each liter of fermentation medium contained K.sub.2HPO.sub.4
13.6 g, KH.sub.2PO.sub.4 13.6 g, MgSO.sub.4*7H.sub.2O 2 g, citric
acid monohydrate 2 g, ferric ammonium citrate 0.3 g,
(NH.sub.4).sub.2SO.sub.4 3.2 g, yeast extract 1 g, and 1000.times.
Trace Metal Solution 1 ml. All of the components were added
together and dissolved in diH.sub.2O. The pH was adjusted to 6.8
with ammonium hydroxide (30%) and brought to volume. Media was
filter sterilized with a 0.22 micron filter. Glucose (2.5 g) and
antibiotics were added after sterilization and pH adjustment.
1000.times. Trace Metal Solution:
[0893] 1000.times. Trace Metal Solution contained citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in di H.sub.2O, pH to 3.0
with HCl/NaOH, then brought to volume and filter sterilized with a
0.22 micron filter.
Strains:
[0894] MCM343 cells are BL21 (DE3) E. coli cells containing the
upper mevalonic acid (MVA) pathway (pCL Upper), the integrated
lower MVA pathway (gi1.2KKDyI), and isoprene synthase from Kudzu
(pTrcKudzu).
[0895] MCM401 cells are BL21 (DE3) E. coli cells containing the
upper mevalonic acid (MVA) pathway (pCL PtrcUpperPathway), the
integrated lower MVA pathway (gi1.2KKDyI), and high expression of
mevalonate kinase from M. mazei and isoprene synthase from Kudzu
(pTrcKudzuMVK (M. mazei)).
[0896] Isoprene production was analyzed by growing the strains in
100 mL bioreactors with a 20 mL working volume at a temperature of
30.degree. C. An inoculum of E. coli strain taken from a frozen
vial was streaked onto an LB broth agar plate (with antibiotics)
and incubated at 30.degree. C. A single colony was inoculated into
media and grown overnight. The bacteria were diluted into 20 mL of
media to reach an optical density of 0.05 measured at 550 nm. The
100 mL bioreactors were sealed, and air was pumped through at a
rate of 8 mL/min. Adequate agitation of the media was obtained by
stirring at 600 rpm using magnetic stir bars. The off-gas from the
bioreactors was analyzed using an on-line Hiden HPR-20 mass
spectrometer. Masses corresponding to isoprene, CO.sub.2, and other
gasses naturally occurring in air were monitored. Accumulated
isoprene and CO.sub.2 production were calculated by summing the
concentration (in percent) of the respective gasses over time.
Atmospheric CO.sub.2 was subtracted from the total in order to
estimate the CO.sub.2 released due to metabolic activity.
[0897] Isoprene production from a strain expressing the full
mevalonic acid pathway and Kudzu isoprene synthase (MCM343) was
compared to a strain that in addition over-expressed MVK from M.
mazei and Kudzu isoprene synthase (MCM401) in 100 mL bioreactors.
The bacteria were grown under identical conditions in defined media
with glucose as carbon source. Induction of isoprene production was
achieved by adding isopropyl-beta-D-1-thiogalactopyranoside (IPTG)
to a final concentration of either 100 .mu.M or 200 .mu.M. Off-gas
measurements revealed that the strain over-expressing both MVK and
isoprene synthase (MCM401) produced significantly more isoprene
compared to the strain expressing only the mevalonic acid pathway
and Kudzu isoprene synthase (MCM343) as shown in FIGS. 115A-115D.
At 100 .mu.M induction, the MCM401 strain produced 2-fold more
isoprene compared to the MCM343 strain. At 200 .mu.M IPTG
induction, the MCM401 strain produced 3.4-fold more isoprene when
compared to the MCM343 strain. Analysis of CO.sub.2 in the off-gas
from the bioreactors, which is a measure of metabolic activity,
indicates that metabolic activity was independent from IPTG
induction and isoprene production.
Example 16
Production of Isoprene by E. coli Expressing the Upper Mevalonic
Acid (MVA) Pathway, the Integrated Lower MVA Pathway (gi1.2KKDyI),
Mevalonate Kinase from M. mazei, and Isoprene Synthase from Kudzu
and Grown in Fed-Batch Culture at the 15-L Scale
Medium Recipe (Per Liter Fermentation Medium):
[0898] Each liter of fermentation medium contained K.sub.2HPO.sub.4
7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g,
ferric ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in DI H.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0899] 1000.times. Modified Trace Metal Solution contained citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in DI H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0900] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the upper mevalonic acid (MVA)
pathway (pCL PtrcUpperPathway encoding E. faecalis mvaE and mvaS),
the integrated lower MVA pathway (gi1.2KKDyI encoding S. cerevisiae
mevalonate kinase, mevalonate phosphate kinase, mevalonate
pyrophosphate decarboxylase, and IPP isomerase), and high
expression of mevalonate kinase from M. mazei and isoprene synthase
from Kudzu (pTrcKudzuMVK(M. mazei)). This experiment was carried
out to monitor isoprene formation from glucose at the desired
fermentation pH 7.0 and temperature 30.degree. C. An inoculum of E.
coli strain taken from a frozen vial was streaked onto an LB broth
agar plate (with antibiotics) and incubated at 37.degree. C. A
single colony was inoculated into tryptone-yeast extract medium.
After the inoculum grew to OD 1.0, measured at 550 nm, 500 mL was
used to inoculate 5-L of medium in a 15-L bioreactor.
[0901] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 68 hour fermentation was 3.8
kg. Induction was achieved by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG). The IPTG
concentration was brought to 51 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 9. The IPTG concentration
was raised to 88 .mu.M when OD.sub.550 reached 149. Additional IPTG
additions raised the concentration to 119 .mu.M at OD.sub.550=195
and 152 .mu.M at OD.sub.550=210. The OD.sub.550 profile within the
bioreactor over time is shown in FIG. 116. The isoprene level in
the off gas from the bioreactor was determined using a Hiden mass
spectrometer. The isoprene titer increased over the course of the
fermentation to a final value of 23.8 g/L (FIG. 117). The total
amount of isoprene produced during the 68 hour fermentation was
227.2 g and the time course of production is shown in FIG. 118. The
metabolic activity profile, as measured by TCER, is shown in FIG.
119. The total viable count (total colony forming units) decreased
by two orders of magnitude between 10 and 39 hours of fermentation
(FIG. 120). The molar yield of utilized carbon that went into
producing isoprene during fermentation was 13.0%. The weight
percent yield of isoprene from glucose was 6.3%.
Example 17
Production of Isoprene by E. Coli Expressing the Upper Mevalonic
Acid (MVA) Pathway, the Integrated Lower MVA Pathway (gi1.2KKDyI),
Mevalonate Kinase from M. mazei, and Isoprene Synthase from Kudzu
and Grown in Fed-Batch Culture at the 15-L Scale (2.times.100 .mu.M
IPTG Induction)
[0902] Medium Recipe (per liter fermentation medium):
[0903] Each liter of fermentation medium contained K.sub.2HPO.sub.4
7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g,
ferric ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in DI H.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0904] 1000.times. Modified Trace Metal Solution contained citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in DI H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0905] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the upper mevalonic acid (MVA)
pathway (pCL PtrcUpperPathway encoding E. faecalis mvaE and mvaS),
the integrated lower MVA pathway (gi1.2KKDyI encoding S. cerevisiae
mevalonate kinase, mevalonate phosphate kinase, mevalonate
pyrophosphate decarboxylase, and IPP isomerase), and high
expression of mevalonate kinase from M. mazei and isoprene synthase
from Kudzu (pTrcKudzuMVK(M. mazei)). This experiment was carried
out to monitor isoprene formation from glucose at the desired
fermentation pH 7.0 and temperature 30.degree. C. An inoculum of E.
coli strain taken from a frozen vial was streaked onto an LB broth
agar plate (with antibiotics) and incubated at 37.degree. C. A
single colony was inoculated into tryptone-yeast extract medium.
After the inoculum grew to OD 1.0, measured at 550 nm, 500 mL was
used to inoculate 5-L medium in a 15-L bioreactor.
[0906] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 55 hour fermentation was 1.9
kg. Induction was achieved by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG). The IPTG
concentration was brought to 111 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 9. The IPTG concentration
was raised to 193 .mu.M when OD.sub.550 reached 155. The OD.sub.550
profile within the bioreactor over time is shown in FIG. 121. The
isoprene level in the off gas from the bioreactor was determined
using a Hiden mass spectrometer. The isoprene titer increased over
the course of the fermentation to a final value of 19.5 g/L (FIG.
122). The total amount of isoprene produced during the 55 hour
fermentation was 133.8 g and the time course of production is shown
in FIG. 123. Instantaneous volumetric productivity levels reached
values as high as 1.5 g isoprene/L broth/hr (FIG. 124).
Instantaneous yield levels reached as high as 17.7% w/w (FIG. 125).
The metabolic activity profile, as measured by TCER, is shown in
FIG. 126. The total viable count (total colony forming units)
decreased by two orders of magnitude between 8 and 36 hours of
fermentation (FIG. 127). The molar yield of utilized carbon that
went into producing isoprene during fermentation was 15.8%. The
weight percent yield of isoprene from glucose over the entire
fermentation was 7.4%.
[0907] In addition, as a control, fermentation was performed in a
15-L bioreactor with BL21 (DE3) E. coli cells containing the upper
mevalonic acid (MVA) pathway (pCL PtrcUpperPathway encoding E.
faecalis mvaE and mvaS), the integrated lower MVA pathway
(gi1.2KKDyI encoding S. cerevisiae mevalonate kinase, mevalonate
phosphate kinase, mevalonate pyrophosphate decarboxylase, and IPP
isomerase), and high expression of mevalonate kinase from M. mazei
and isoprene synthase from Kudzu (pTrcKudzuMVK(M. mazei)). This
experiment was carried out to monitor uninduced cell metabolic
activity as measured by CER from glucose at the desired
fermentation pH 7.0 and temperature 30.degree. C. An inoculum of E.
coli strain (MCM401 described above) taken from a frozen vial was
streaked onto an LB broth agar plate (with antibiotics) and
incubated at 37.degree. C. A single colony was inoculated into
tryptone-yeast extract medium. After the inoculum grew to OD 1.0,
measured at 550 nm, 500 mL was used to inoculate 5-L medium in a
15-L bioreactor. Glucose was fed at an exponential rate until cells
reached the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands.
[0908] FIG. 148 compares the CER profiles for the uninduced cells
described above and the cells induced by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG) in Examples 16 and
17.
Example 18
Production of Isoprene by E. coli Expressing the Upper Mevalonic
Acid (MVA) Pathway, the Integrated Lower MVA Pathway (gi1.2KKDyI),
Mevalonate Kinase from M. mazei, and Isoprene Synthase from Kudzu
and Grown in Fed-Batch Culture at the 15-L Scale (1.times.50 .mu.M
IPTG+150 .mu.M IPTG Fed Induction)
Medium Recipe (Per Liter Fermentation Medium):
[0909] Each liter of fermentation medium contained K.sub.2HPO.sub.4
7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g,
ferric ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0910] 1000.times. Modified Trace Metal Solution contained citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in DI H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0911] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the upper mevalonic acid (MVA)
pathway (pCL PtrcUpperPathway encoding E. faecalis mvaE and mvaS),
the integrated lower MVA pathway (gi1.2KKDyI encoding S. cerevisiae
mevalonate kinase, mevalonate phosphate kinase, mevalonate
pyrophosphate decarboxylase, and IPP isomerase), and high
expression of mevalonate kinase from M. mazei and isoprene synthase
from Kudzu (pTrcKudzuMVK(M. mazei)). This experiment was carried
out to monitor isoprene formation from glucose at the desired
fermentation pH 7.0 and temperature 30.degree. C. An inoculum of E.
coli strain taken from a frozen vial was streaked onto an LB broth
agar plate (with antibiotics) and incubated at 37.degree. C. A
single colony was inoculated into tryptone-yeast extract medium.
After the inoculum grew to OD 1.0, measured at 550 nm, 500 mL was
used to inoculate 5-L medium in a 15-L bioreactor.
[0912] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 55 hour fermentation was 2.2
kg. Induction was achieved by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG). The IPTG
concentration was brought to 51 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 10. In addition to the IPTG
spike, at OD.sub.550=10 a constant feed began and delivered 164 mg
of IPTG over 18 hours. The OD.sub.550 profile within the bioreactor
over time is shown in FIG. 128. The isoprene level in the off gas
from the bioreactor was determined using a Hiden mass spectrometer.
The isoprene titer increased over the course of the fermentation to
a final value of 22.0 g/L (FIG. 129). The total amount of isoprene
produced during the 55 hour fermentation was 170.5 g and the time
course of production is shown in FIG. 130. The metabolic activity
profile, as measured by TCER, is shown in FIG. 131. When the
airflow to the bioreactor was decreased from 8 slpm to 4 slpm for a
period of about 1.7 hours, the concentration of isoprene in the
offgas increased from 0.51 to 0.92 w/w % (FIG. 132). These elevated
levels of isoprene did not appear to have any negative impact on
cell metabolic activity as measured by the total carbon dioxide
evolution rate (TCER), since TCER declined only 7% between 37.2 and
39.3 hours (FIG. 132). The total viable count (total colony forming
units) decreased by two orders of magnitude between 7 and 36 hours
of fermentation (FIG. 133). The molar yield of utilized carbon that
went into producing isoprene during fermentation was 16.6%. The
weight percent yield of isoprene from glucose over the entire
fermentation was 7.7%.
Example 19
The Effect of Externally Applied Isoprene on a Wild-Type E. coli
Grown in Fed-Batch Culture at the 1-L Scale
Medium Recipe (Per Liter Fermentation Medium):
[0913] Each liter of fermentation medium contained K.sub.2HPO.sub.4
7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g,
ferric ammonium citrate 0.3 g, yeast extract 0.5 g, and 1000.times.
Modified Trace Metal Solution 1 ml. All of the components were
added together and dissolved in diH.sub.2O. This solution was
autoclaved. The pH was adjusted to 7.0 with ammonium hydroxide
(30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1 g, and
antibiotics were added after sterilization and pH adjustment.
1000.times. Modified Trace Metal Solution:
[0914] 1000.times. Modified Trace Metal Solution contained citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, and NaMoO.sub.4*2H.sub.2O 100 mg. Each
component was dissolved one at a time in DI H.sub.2O, pH to 3.0
with HCl/NaOH, then q.s. to volume and filter sterilized with a
0.22 micron filter.
[0915] Fermentation was performed in a 1-L bioreactor with BL21
(DE3) E. coli cells. This experiment was carried out to monitor the
effects of isoprene on cell viability and metabolic activity in a
glucose fed-batch bioreactor at the desired fermentation pH 7.0 and
temperature 30.degree. C. An inoculum of E. coli strain from a
frozen vial was inoculated into tryptone-yeast extract medium.
After the inoculum grew to OD 1.0, measured at 550 nm, 50 mL was
used to inoculate 0.5-L medium in a 1-L bioreactor.
[0916] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was fed to
meet metabolic demands. Isoprene was fed into the bioreactor using
nitrogen gas as a carrier. The rate of isoprene feeding was 1
g/L/hr during mid-growth phase (OD.sub.550=31-44) and lasted for a
total of 75 minutes (13.2 to 14.4 hours). The OD.sub.550 profile
within the bioreactor over time is shown in FIG. 134. The metabolic
activity profile, as measured by TCER, is shown in FIG. 135. The
total viable count (total colony forming units) increased by
14-fold during the period when isoprene was introduced into the
bioreactor (FIG. 136).
Example 20
Production of Isoprene and Expression of Isoprene Synthase by
Saccharomyces cerevisiae
[0917] The Kudzu isoprene synthase enzyme was optimized for
expression according to a hybrid Saccharomyces cerevisiae/Pichia
pastoris codon usage table, synthesized, and cloned into
pDONR221:19430 (by DNA 2.0, FIG. 140 for map and FIG. 141 for
sequence (SEQ ID NO:38)). A Gateway.RTM. Cloning (Invitrogen)
reaction was performed according to the manufacturer's protocol:
Since pDONR221:19430 was an "entry" vector, the LR Clonase II
enzyme (the LR Reaction) was used to introduce the codon-optimized
isoprene synthase into the "destination" vector pYES-DEST52
(Invitrogen).
[0918] The LR Reaction was then transformed into Top10 chemically
competent cells (Invitrogen) according to the manufacturer's
protocol, and bacteria harboring pYES-DEST52 plasmids with the
isoprene synthase ORF were selected for on LA plates containing 50
.mu.g/ml carbenicillin. Individual positive transformants were
tested by colony PCR (see below for primer concentrations and
thermocycling parameters) using illustra PuReTaq Ready-To-Go.TM.
PCR Beads (GE Healthcare) with the T7 forward primer and the Yeast
isoprene synthase-Rev2 primer (See Table 13).
TABLE-US-00034 TABLE 13 Primer sequences for amplifying isoprene
synthase. Primer Name Sequence (5' to 3') Purpose Yeast HGS-
CACCAAAGACTTCATAGACT Forward primer for yeast For2 (SEQ ID NO: 124)
optimized isoprene synthase Yeast HGS- AGAGATATCTTCCTGCTGCT Reverse
primer for yeast Rev2 (SEQ ID NO: 125) optimized isoprene synthase
T7 Forward TAATACGACTCACTATAGGG PCR and sequencing primer (SEQ ID
NO: 126)
[0919] Plasmids that yielded a PCR fragment of the correct size
(1354 bp) were purified by miniprep (Qiagen) and sent for
sequencing (Quintara Biosciences, Berkeley, Calif.) with the T7
Forward and Yeast isoprene synthase-For2 primers (See Table 13).
Results from sequencing runs were compared to the known sequence of
pDONR221:19430 (using Vector NTI software, Invitrogen), and a
single plasmid, pDW14, was selected for further study (FIG. 142A
for map and FIGS. 142B and C for the complete sequence (SEQ ID
NO:39)). The sequence of pDW14 diverged from that of pDONR221:19430
by a single nucleotide (marked in bold in FIG. 142B). The single
nucleotide change (G to A) did not result in a change in the ORF,
since it was in the third position of a lysine-encoding codon.
[0920] Purified pDW14 was transformed into Saccharomyces cerevisiae
strain INVSc-1 using the protocol described in the S. c. EasyComp
Transformation kit (Invitrogen). INVSc-1 strains harboring pDW14 or
pYES-DEST52 (which contains an intact URA3 gene) were selected for
and maintained on SC Minimal Medium with 2% glucose without uracil,
as described in the pYES-DEST52 Gateway Vector manual (Invitrogen).
Two independent isolates of INVSc-1 containing pDW14 and a single
control strain with pYES-DEST52 were chosen for further
analysis.
[0921] To induce isoprene synthase expression, cultures were grown
overnight in liquid SC Minimal Medium. The cultures were then
diluted to an OD.sub.600 of approximately 0.2 and grown for 2-3
hours. Cultures were spun by centrifugation, washed once,
resuspended in an equal volume (10 ml) of SC minimal medium with 1%
raffinose, 2% galactose without uracil, and grown overnight to
induce the expression of isoprene synthase. The OD.sub.600 of the
strains was determined (FIG. 144A), and strains were harvested by
centrifugation and resuspended in 2 ml of lysis buffer (a 1:1 mix
of 50% glycerol and PEB pH 7.4: Tris Base 2.423 g/L, MgCl.sub.2
(Anhydrous) 1.904 g/L, KCl 14.910 g/L, DTT 0.154 g/L, Glycerol 50
mL/L).
[0922] The lysis mixtures were passed through a french press three
times, and lysates were analyzed by SDS-PAGE. For Coomassie gel
analysis (FIG. 143A), samples were diluted 1:1 with 2.times.SDS
loading buffer with reducing agent, loaded (20 .mu.l total volume)
onto a 4-12% bis-tris gel, run in MES buffer, and stained using
SimplyBlue SafeStain according to the manufacturer's protocol (the
Invitrogen Novex system).
[0923] The WesternBreeze kit (Invitrogen) was used for transfer and
chromogenic detection of isoprene synthase on a nitrocellulose
membrane. The primary antibody was 1799A 10 week diluted 1:1000 in
Invitrogen antibody diluent. Primary antibody binding was followed
by development with a secondary antibody labeled with Alexa Fluor
488 (Invitrogen Catalog No. A-11008) to permit quantitative signal
determination. The western blot procedure was carried out as
described by Invitrogen. The fluorescence signal was recorded with
a Molecular Dynamics Storm instrument using the blue filter setting
and quantitatively analyzed with the Molecular Dynamics ImageQuant
image analysis software package. Specific activity of the library
members was calculated from the ratio of the amount of isoprene
produced divided by either the A600 of the induction cultures or
the isoprene synthase protein concentration determined by western
blot. FIG. 143B shows that isoprene synthase was present in the
induced INVSc-1 strains harboring pDW14 (lanes 2 and 3) in
comparison to the control harboring pYES-DEST52 (lane 1).
[0924] The DMAPP assay for isoprene synthase headspace was
performed on 25 .mu.L of the lysate from each strain for which 5
.mu.L 1 M MgCl.sub.2, 5 .mu.L 100 mM DMAPP, and 65 .mu.L 50 mM Tris
pH 8 were added. The reaction was performed at 30.degree. C. for 15
minutes in a gas tight 1.8 mL GC tube. Reactions were terminated by
addition of 100 .mu.L 250 mM EDTA pH 8. FIG. 144B showed the
specific activity values (in .mu.g HG/L/OD) of the induced strains
harboring pDW 14 in comparison to the control. Induced strains
harboring pDW14 displayed approximately 20.times. higher activity
than the control lacking isoprene synthase.
PCR Cycling Parameters
[0925] Illustra PuReTaq Ready-To-Go.TM. PCR Beads (GE Healthcare)
were used with oligonucleotide primer pairs at a concentration of
0.4 .mu.M each in 25 .mu.l total volume/reaction. For analysis of
plasmids resulting from the LR Clonase reaction (Invitrogen), a
small amount of bacteria from individual colonies on a selective
plate was added to each tube containing the PCR mix described
above. The reaction cycle was as follows: 1) 95.degree. C. for 4
minutes; 2) 95.degree. C. for 20 seconds; 3) 52.degree. C. for 20
seconds; 4) 72.degree. C. for 30 seconds; 5 cycles of steps 2
through 4; 5) 95.degree. C. for 20 seconds; 6) 55.degree. C. for 20
seconds; 7) 72.degree. C. for 30 seconds; 25 cycles of steps 5
through 7, 72.degree. C. for 10 minutes, and 4.degree. C. until
cool.
Example 21
Production of Isoprene in Pseudomonas and Other Gram Negative
Bacteria Construction of pBBRSHGSOpt2.sub.--2, Conjugation in
Pseudomonas and Measurement of Isoprene Synthase Activity
[0926] A gene encoding isoprene synthase from Pueraria lobata
(Kudzu plant) was codon-optimized for different microbial species
of interest (Table 14; fluo-opt2v2 was the sequence chosen) and was
synthesized by DNA2.0, Menlo Park, Calif. The map and sequence of
fluo-opt2v2 can be found in FIGS. 145A and 145B (SEQ ID NO:40).
HindIII and BamHI restriction sites were added to the synthesized
sequence for easier cloning, and a RBS was added in front of the
ATG to enhance transcription.
[0927] Number of rare codons, as a function of the microbial
species, in different versions of codon-optimized isoprene synthase
from Pueraria lobata. Several rounds of optimization led to a gene
with no rare codons in the all the species of interest.
TABLE-US-00035 TABLE 14 Number of rare codons. fluo- opt1 fluo-
fluo- E. coli fluo- Organism (quote) opt2 opt3 opt opt2v2
Pseudomonas fluorescens 19 X X 57 0 Pf-5 Phodopseudomonas palustris
37 13 3 74 0 CGA009 Pseudomonas putida F1 0 0 0 29 0
Corynebacterium glutamicum 4 (Ser) 0 0 0 0 (ATCC) Pseudomonas
fluorescens 1 (Val) 0 0 57 0 PfO-1
[0928] The gene was provided by DNA2.0 in a cloning vector. The
vector was digested with HindIII/BamHI, the band corresponding to
the insert of interest was gel-purified, and relegated with
HindIII/BamHI-digested pBBR1MCS5 (Kovach et al, Gene 166:175-176,
1995, which is incorporated by reference in its entirety,
particularly with respect to pBBR1MCS5), FIG. 146A for map and
FIGS. 146B and C for sequence (SEQ ID NO:41). This resulted in
plasmid pBBRSHGSOpt2.sub.--2 (FIG. 147A for map and FIGS. 147B and
C for sequence (SEQ ID NO:42)) in which isoprene synthase was
expressed from the lac promoter presented in pBBR1MCS5.
[0929] The vector was transformed in E. coli S17-1 and mated with
Pseudomonas putida F1 ATCC700007 and Pseudomonas fluorescens ATCC
13525. After conjugation on LB, selection for plasmid-harboring
Pseudomonas strains was on M9+16 mM sodium citrate+Gentamicin 50
.mu.g/ml. Presence of the plasmid in the strains thus generated was
checked by plasmid preparation using the Qiagen kit (Valencia,
Calif.).
[0930] Isoprene synthase activities of the recombinant strains P.
putida, pBBRSHGSOpt2.sub.--2 and P. fluorescens,
pBBRSHGSOpt2.sub.--2 were assayed by growing the strains in TM3
medium (as described in Example 1 Part II)+10 g/L glucose,
harvesting the biomass in mid-log phase, breaking the cells by
French Press and proceeding with the DMAPP assay. Results of the
assay were presented in Table 15. The presence of activity measured
by the DMAPP assay confirmed that isoprene synthase was expressed
in Pseudomonas.
[0931] Isoprene synthase activity was examined in Pseudomonas
putida and Pseudomonas fluorescens expressing isoprene synthase
from the lac promoter, using plasmid pBBRSHGSOpt2.sub.--2
TABLE-US-00036 TABLE 15 Isoprene synthase activity in Pseudomonas
putida and Pseudomonas fluorescens. Isoprene synthase activity
Strain OD mg isoprene/(L h OD) P. fluorescens, pBBR5HGSOpt2_2 1.46
0.96 P. putida, pBBR5HGSOpt2_2 3.44 0.65 Control (P. putida w/o
plasmid) 8.32 To be determined
Example 22
Growth of E. coli and Pseudomonas Strains on Sugar Cane Compared to
Glucose, and Expression of Isoprene Synthase Using Both
Substrates
I. Preparation of Liquid Sugar Cane
[0932] Crystallized raw cane sugar was dissolved in water in the
following way: 750 g H.sub.2O was added to 250 g sugar. The
solution was stirred and gently heated until dissolution. Some
material was not soluble. The weight of the solution was adjusted
to 1 kg after dissolution to replenish the evaporated water. The
volume of the solution was measured to be 940 mL. Hence the
concentration of the solution was 265 g/L. The product label
claimed 14 g of carbohydrate for 15 g of raw sugar cane. Hence the
carbohydrate concentration of the solution was 248 g/L. Dry solids
were measured to be 24.03%, close enough of the expected 250 g/kg.
pH of the solution was 5.49. Glucose concentration was measured
using an enzymatic/spectrophotometric assay, with glucose oxidase.
The glucose concentration was 17.4 g/L.
[0933] As a majority of microorganisms do not use sucrose, but can
use glucose and fructose, the solution was split in two. One half
was autoclaved once for 30 minutes (sugar cane as is). Some
inversion resulted, as the glucose content increased to 29.75 g/L
(See FIG. 149). The other half of the solution was adjusted to pH
4.0 using phosphoric acid, then the solution was inverted by
autoclaving (inverted sugar cane). Three cycles of 30 min were
sufficient to obtain complete inversion, as shown on FIG. 149. Both
solutions were used for the growth curves described below.
II. Growth Curves of Different Strains of E. coli and Pseudomonas
on Sugar Cane Compared to Glucose
[0934] One colony of each of the strains presented in Table 16 was
inoculated in 25 ml TM3+10 g/L glucose, and was grown overnight at
30.degree. C. and 200 rpm. TM3 is described in Example 7, Section
II. The morning after, 1 ml of each culture was used to inoculate
flasks containing 25 mL TM3 and 10 g/L glucose, 10 g/L sugar cane
as is, or 10 g/L inverted sugar cane (sugar cane solutions
described above). The flasks were incubated at 30.degree. C. and
200 rpm and samples were taken regularly to measure OD600. FIGS.
150 and 151 show that growth rate and biomass yield were comparable
for glucose and inverted sugar cane, both for Pseudomonas and E.
coli strains. P. fluorescens showed some signs of being able to use
sugar cane which has not been inverted too.
TABLE-US-00037 TABLE 16 Strains used in this study. Strain
Escherichia coli BL21 MG1655 ATCC11303 B REL 606 Pseudomonas putida
F1 (ATCC700007) Fluorescens (ATCC13525)
III. Comparison of Isoprene Production from E. coli Expressing
Isoprene Synthase when Grown on Glucose or Sugar Cane
[0935] E. coli MCM401 (BL21(DE3)) containing the full MVA pathway,
mevalonate kinase from M. mazei and isoprene synthase from Pueraria
lobata, as described in Example 14, Section II was grown in
TM3+either 10 g/L glucose or 10 g/L inverted sugar cane (based on
carbohydrate concentration of the syrup). Flasks were inoculated
from an overnight culture on TM3+10 g/L glucose at an
OD.sub.600=0.2. Antibiotics were added where needed. After two
hours, the E. coli cultures were induced with 400 .mu.M IPTG. After
6 hours of growth, isoprene production and isoprene synthase
activities, using the DMAPP assay as described in Example 2B, were
measured. Results are presented in Table 17 and illustrate clearly
that inverted sugar cane is equivalent to glucose in terms of
isoprene and isoprene synthase production on a per cell basis.
TABLE-US-00038 TABLE 17 Isoprene Isoprene synthase production mg
Carbon activity mg isoprene/ Strain Source OD isoprene/(L h OD) (L
h OD) MCM401 Glucose 2.20 21.06 8.98 MCM401 Sugar cane 2.32 20.20
9.23 inverted
Example 23
Construction of E. coli Strains Expressing the S. cerevisiae
gi1.2KKDyI Operon, P. alba Isoprene Synthase, M. mazei Mevalonate
Kinase, pCL Upper MVA (E. faecalis mvaE and mvaS) and ybhE
(pgl)
(i) Construction of Strain EWL201 (BL21, Cm-GI1.2-KKDyI)
[0936] E. coli BL21 (Novagen brand, EMD Biosciences, Inc.) was a
recipient strain, transduced with MCM331 P1 lysate (lysate prepared
according to the method described in Ausubel, et al., Current
Protocols in Molecular Biology. John Wiley and Sons, Inc.). MCM331
cells contain chromosomal construct gi1.2KKDyI encoding S.
cerevisiae mevalonate kinase, mevalonate phosphate kinase,
mevalonate pyrophosphate decarboxylase, and IPP isomerase (i.e.,
the gi1.2-KKDyI operon from S. cerevisiae). Transductants were
selected for by spreading cells onto L Agar and 20 .mu.g/.mu.l
chloramphenicol. The plates were incubated overnight at 30.degree.
C. Analysis of transductants showed no colonies on control plates
(water+cells control plate for reversion and water and P1 lysate
control plate for lysate contamination.
[0937] Four transductants were picked and used to inoculate 5 mL L
Broth and 20 .mu.g/.mu.l chloramphenicol. The cultures were grown
overnight at 30.degree. C. with shaking at 200 rpm. To make genomic
DNA preps of each transductant for PCR analysis, 1.5 mL of
overnight cell culture were centrifuged. The cell pellet was
resuspended with 400 .mu.l Resuspension Buffer (20 mM Tris, 1 mM
EDTA, 50 mM NaCl, pH 7.5) and 4 .mu.l RNase, DNase-free (Roche) was
added. The tubes were incubated at 37.degree. C. for 30 minutes
followed by the addition of 4 .mu.l 10% SDS and 4 .mu.l of 10 mg/ml
Proteinase K stock solution (Sigma-Aldrich). The tubes were
incubated at 37.degree. C. for 1 hour. The cell lysate was
transferred into 2 ml Phase Lock Light Gel tubes (Eppendorf) and
200 .mu.l each of saturated phenol pH7.9 (Ambion Inc.) and
chloroform were added. The tubes were mixed well and
microcentrifuged for 5 minutes. A second extraction was done with
400 .mu.l chloroform and the aqueous layer was transferred to a new
eppendorf tube. The genomic DNA was precipitated by the addition of
1 ml of 100% ethanol and centrifugation for 5 minutes. The genomic
DNA pellet was washed with 1 ml 70% ethanol. The ethanol was
removed and the genomic DNA pellet was allowed to air dry briefly.
The genomic DNA pellet was resuspended with 200 .mu.l TE.
[0938] Using Pfu Ultra II DNA polymerase (Stratagene) and 200
ng/.mu.l of genomic DNA as template, 2 different sets of PCR
reaction tubes were prepared according to manufacturer's protocol.
For set 1, primers MCM130 and GB Cm-Rev (Table 18) were used to
ensure transductants were successfully integrated into the attTn7
locus. PCR parameters for set 1 were 95.degree. C. for 2 minutes
(first cycle only), 95.degree. C. for 25 seconds, 55.degree. C. for
25 seconds, 72.degree. C. for 25 seconds (repeat steps 2-4 for 28
cycles), 72.degree. C. for 1 minute. For set 2, primers MVD For and
MVD Rev (Table 18) were used to ensure that the gi1.2-KKDyI operon
integrated properly. PCR parameters for set 2 were 95.degree. C.
for 2 minutes (first cycle only), 95.degree. C. for 25 seconds,
55.degree. C. for 25 seconds, 72.degree. C. for 10 seconds (repeat
steps 2-4 for 28 cycles), 72.degree. C. for 1 minute. Analysis of
PCR amplicons on a 1.2% E-gel (Invitrogen Corp.) showed that all 4
transductant clones were correct. One was picked and designated as
strain EWL201.
(Ii) Construction of Strain EWL204 (BL21, Loopout-GI1.2-KKDyI)
[0939] The chloramphenicol marker was looped out of strain EWL201
using plasmid pCP20 as described by Datsenko and Wanner (2000)
(Datsenko et al., Proc Natl. Acad. Sci. USA 97:6640-6645, 2000).
One-step inactivation of chromosomal genes in Escherichia coli K-12
using PCR products. (Datsenko et al., PNAS, 97: 6640-6645, 2000).
EWL201 cells were grown in L Broth to midlog phase and then washed
three times in ice-cold, sterile water. An aliquot of 50 .mu.l of
cell suspension was mixed with 1 .mu.l of pCP20 and the cell
suspension mixture was electroporated in a 2 mm cuvette (Invitrogen
Corp.) at 2.5 Volts and 25 uFd using a Gene Pulser Electroporator
(Bio-Rad Inc.). 1 ml of LB was immediately added to the cells, then
transferred to a 14 ml polypropylene tube (Sarstedt) with a metal
cap. Cells were allowed to recover by growing for 1 hour at
30.degree. C. Transformants were selected on L Agar and 20
.mu.g/.mu.l chloramphenicol and 50 .mu.g/.mu.l carbenicillin and
incubated at 30.degree. C. overnight. The next day, a single clone
was grown in 10 ml L Broth and 50 .mu.g/.mu.l carbenicillin at
30.degree. C. until early log phase. The temperature of the growing
culture was then shifted to 42.degree. C. for 2 hours. Serial
dilutions were made, the cells were then spread onto LA plates (no
antibiotic selection), and incubated overnight at 30.degree. C. The
next day, 20 colonies were picked and patched onto L Agar (no
antibiotics) and LA and 20 .mu.g/.mu.l chloramphenicol plates.
Plates were then incubated overnight at 30.degree. C. Cells able to
grow on LA plates, but not LA and 20 .mu.g/.mu.l chloramphenicol
plates, were deemed to have the chloramphenicol marker looped out
(picked one and designated as strain EWL204).
(Iii) Construction of Plasmid pEWL230 (pTrc P. alba)
[0940] Generation of a synthetic gene encoding Populus alba
isoprene synthase (P. alba HGS) was outsourced to DNA2.0 Inc.
(Menlo Park, Calif.) based on their codon optimization method for
E. coli expression. The synthetic gene was custom cloned into
plasmid pET24a (Novagen brand, EMD Biosciences, Inc.) and delivered
lyophilized (FIGS. 152, 153A-B; SEQ ID NO:43).
[0941] A PCR reaction was performed to amplify the P. alba isoprene
synthase (P. alba HGS) gene using pET24 P. alba HGS as the
template, primers MCM182 and MCM192, and Herculase II Fusion DNA
polymerase (Stratagene) according to manufacturer's protocol. PCR
conditions were as follows: 95.degree. C. for 2 minutes (first
cycle only), 95.degree. C. for 25 seconds, 55.degree. C. for 20
seconds, 72.degree. C. for 1 minute, repeat for 25 cycles, with
final extension at 72.degree. C. for 3 minutes. The P. alba
isoprene synthase PCR product was purified using QIAquick PCR
Purification Kit (Qiagen Inc.).
[0942] P. alba isoprene synthase PCR product was then digested in a
20 .mu.l reaction containing 1 .mu.l BspHI endonuclease (New
England Biolabs) with 2 .mu.l 10.times.NEB Buffer 4. The reaction
was incubated for 2 hours at 37.degree. C. The digested PCR
fragment was then purified using the QIAquick PCR Purification Kit.
A secondary restriction digest was performed in a 20 .mu.l reaction
containing 1 .mu.l PstI endonuclease (Roche) with 2 .mu.l 10.times.
Buffer H. The reaction was incubated for 2 hours at 37.degree. C.
The digested PCR fragment was then purified using the QIAquick PCR
Purification Kit. Plasmid pTrcHis2B (Invitrogen Corp.) was digested
in a 20 .mu.l reaction containing 1 .mu.l NcoI endonuclease
(Roche), 1 .mu.l PstI endonuclease, and 2 .mu.l 10.times. Buffer H.
The reaction was incubated for 2 hours at 37.degree. C. The
digested pTrcHis2B vector was gel purified using a 1.2% E-gel
(Invitrogen Corp.) and extracted using the QIAquick Gel Extraction
Kit (Qiagen) (FIG. 154). Using the compatible cohesive ends of
BspHI and NcoI sites, a 20 .mu.l ligation reaction was prepared
containing 5 .mu.l P. alba isoprene synthase insert, 2 .mu.l pTrc
vector, 1 .mu.l T4 DNA ligase (New England Biolabs), 2 .mu.l
10.times. ligase buffer, and 10 .mu.l ddH.sub.2O. The ligation
mixture was incubated at room temperature for 40 minutes. The
ligation mixture was desalted by floating a 0.025 .mu.m
nitrocellulose membrane filter (Millipore) in a petri dish of
ddH.sub.2O and applying the ligation mixture gently on top of the
nitrocellulose membrane filter for 30 minutes at room temperature.
MCM446 cells (see Section II) were grown in LB to midlog phase and
then washed three times in ice-cold, sterile water. An aliquot of
50 .mu.l of cell suspension was mixed with 5 .mu.l of desalted pTrc
P. alba HGS ligation mix. The cell suspension mixture was
electroporated in a 2 mm cuvette at 2.5 Volts and 25 uFd using a
Gene Pulser Electroporator. 1 ml of LB is immediately added to the
cells, then transferred to a 14 ml polypropylene tube (Sarstedt)
with a metal cap. Cells were allowed to recover by growing for 2
hour at 30.degree. C. Transformants were selected on L Agar and 50
.mu.g/.mu.l carbenicillin and 10 mM mevalonic acid and incubated at
30.degree. C. The next day, 6 transformants were picked and grown
in 5 ml L Broth and 50 .mu.g/.mu.l carbenicillin tubes overnight at
30.degree. C. Plasmid preps were performed on the overnight
cultures using QIAquick Spin Miniprep Kit (Qiagen). Due to the use
of BL21 cells for propagating plasmids, a modification of washing
the spin columns with PB Buffer 5.times. and PE Buffer 3.times. was
incorporated to the standard manufacturer's protocol for achieving
high quality plasmid DNA. Plasmids were digested with PstI in a 20
.mu.l reaction to ensure the correct sized linear fragment. All 6
plasmids were the correct size and shipped to Quintara Biosciences
(Berkeley, Calif.) for sequencing with primers MCM65, MCM66, EL1000
(Table 18). DNA sequencing results showed all 6 plasmids were
correct. One plasmid was picked designated as plasmid EWL230 (FIGS.
155, 156A-B; SEQ ID NO:44).
iv) Construction of Plasmid pEWL244 (pTrc P. alba-mMVK)
[0943] A PCR reaction was performed to amplify the Methanosarcina
mazei (M. mazei) MVK gene using MCM376 as the template (see section
(v) below), primers MCM165 and MCM177 (see Table 18), and Pfu Ultra
II Fusion DNA polymerase (Stratagene) according to manufacturer's
protocol. PCR conditions were as follows: 95.degree. C. for 2
minutes (first cycle only), 95.degree. C. for 25 seconds,
55.degree. C. for 25 seconds, 72.degree. C. for 18 seconds, repeat
for 28 cycles, with final extension at 72.degree. C. for 1 minute.
The M. mazei MVK PCR product was purified using QIAquick PCR
Purification Kit (Qiagen Inc.).
[0944] The M. mazei MVK PCR product was then digested in a 40 .mu.l
reaction containing 8 .mu.l PCR product, 2 .mu.l PmeI endonuclease
(New England Biolabs), 4 .mu.l 10.times.NEB Buffer 4, 4 .mu.l
10.times.NEB BSA, and 22 .mu.l of ddH.sub.2O. The reaction was
incubated for 3 hours at 37.degree. C. The digested PCR fragment
was then purified using the QIAquick PCR Purification Kit. A
secondary restriction digest was performed in a 47 .mu.l reaction
containing 2 .mu.l NsiI endonuclease (Roche), 4.7 .mu.l 10.times.
Buffer H, and 40 .mu.l of PmeI digested M. mazei MVK fragment. The
reaction was incubated for 3 hours at 37.degree. C. The digested
PCR fragment was then gel purified using a 1.2% E-gel and extracted
using the QIAquick Gel Extraction Kit. Plasmid EWL230 was digested
in a 40 .mu.l reaction containing 10 .mu.l plasmid, 2 .mu.l PmeI
endonuclease, 4 .mu.l 10.times.NEB Buffer 4, 4 .mu.l 10.times.NEB
BSA, and 20 .mu.l of ddH.sub.2O. The reaction was incubated for 3
hours at 37.degree. C. The digested PCR fragment was then purified
using the QIAquick PCR Purification Kit. A secondary restriction
digest was performed in a 47 .mu.l reaction containing 2 .mu.l PstI
endonuclease, 4.7 .mu.l 10.times. Buffer H, and 40 .mu.l of PmeI
digested EWL230 linear fragment. The reaction was incubated for 3
hours at 37.degree. C. The digested PCR fragment was then gel
purified using a 1.2% E-gel and extracted using the QIAquick Gel
Extraction Kit (FIG. 157). Using the compatible cohesive ends of
NsiI and PstI sites, a 20 .mu.l ligation reaction was prepared
containing 8 .mu.l M. mazei MVK insert, 3 .mu.l EWL230 plasmid, 1
.mu.l T4 DNA ligase, 2 .mu.l 10.times. ligase buffer, and 6 .mu.l
ddH.sub.2O. The ligation mixture was incubated overnight at
16.degree. C. The next day, the ligation mixture was desalted by
floating a 0.025 .mu.m nitrocellulose membrane filter in a petri
dish of ddH.sub.2O and applying the ligation mixture gently on top
of the nitrocellulose membrane filter for 30 minutes at room
temperature. MCM446 cells were grown in LB to midlog phase and then
washed three times in ice-cold, sterile water. An aliquot of 50
.mu.l of cell suspension was mixed with 5 .mu.l of desalted pTrc P.
alba-mMVK ligation mix. The cell suspension mixture was
electroporated in a 2 mm cuvette at 2.5 Volts and 25 uFd using a
Gene Pulser Electroporator. 1 ml of LB is immediately added to the
cells, then the cells are transferred to a 14 ml polypropylene tube
with a metal cap. Cells were allowed to recover by growing for 2
hour at 30.degree. C. Transformants were selected on LA and 50
.mu.g/.mu.l carbenicillin and 5 mM mevalonic acid plates and
incubated at 30.degree. C. The next day, 6 transformants were
picked and grown in 5 ml LB and 50 .mu.g/.mu.l carbenicillin tubes
overnight at 30.degree. C. Plasmid preps were performed on the
overnight cultures using QIAquick Spin Miniprep Kit. Due to the use
of BL21 cells for propagating plasmids, a modification of washing
the spin columns with PB Buffer 5.times. and PE Buffer 3.times. was
incorporated to the standard manufacturer's protocol for achieving
high quality plasmid DNA. Plasmids were digested with PstI in a 20
.mu.l reaction to ensure the correct sized linear fragment. Three
of the 6 plasmids were the correct size and shipped to Quintara
Biosciences for sequencing with primers MCM65, MCM66, EL1000,
EL1003, and EL1006 (Table 18). DNA sequencing results showed all 3
plasmids were correct. One was picked and designated as plasmid
EWL244 (FIGS. 158 and 159A-B; SEQ ID NO:45).
v) Construction of Plasmid MCM376-MVK from M. mazei Archaeal Lower
in pET200D.
[0945] The MVK ORF from the M. mazei archaeal Lower Pathway operon
(FIGS. 160A-C; SEQ ID NO:46) was PCR amplified using primers MCM161
and MCM162 (Table 18) using the Invitrogen Platinum HiFi PCR mix.
45 .mu.L of PCR mix was combined with 1 .mu.L template, 1 .mu.L of
each primer at 10 .mu.M, and 2 .mu.L water. The reaction was cycled
as follows: 94.degree. C. for 2:00 minutes; 30 cycles of 94.degree.
C. for 0:30 minutes, 55.degree. C. for 0:30 minutes and 68.degree.
C. for 1:15 minutes; and then 72.degree. C. for 7:00 minutes, and
4.degree. C. until cool. 3 .mu.L of this PCR reaction was ligated
to Invitrogen pET200D plasmid according to the manufacturer's
protocol. 3 .mu.L of this ligation was introduced into Invitrogen
TOP10 cells, and transformants were selected on LA/kan50. A plasmid
from a transformant was isolated and the insert sequenced,
resulting in MCM376 (FIGS. 161A-C).
vi) Construction of Strain EWL251 (BL21(DE3), Cm-GI1.2-KKDyI, pTrc
P. alba-mMVK)
[0946] MCM331 cells (which contain chromosomal construct gi1.2KKDyI
encoding S. cerevisiae mevalonate kinase, mevalonate phosphate
kinase, mevalonate pyrophosphate decarboxylase, and IPP isomerase)
were grown in LB to midlog phase and then washed three times in
ice-cold, sterile water. Mixed 50 .mu.l of cell suspension with 1
.mu.l of plasmid EWL244. The cell suspension mixture was
electroporated in a 2 mm cuvette at 2.5 Volts and 25 uFd using a
Gene Pulser Electroporator. 1 ml of LB is immediately added to the
cells, and then the cells were transferred to a 14 ml polypropylene
tube with a metal cap. Cells were allowed to recover by growing for
2 hours at 30.degree. C. Transformants were selected on LA and 50
.mu.g/.mu.l carbenicillin and 5 mM mevalonic acid plates and
incubated at 37.degree. C. One colony was selected and designated
as strain EWL251.
vii) Construction of Strain EWL256 (BL21(DE3), Cm-GI1.2-KKDyI, pTrc
P. alba-mMVK, pCL Upper MVA)
[0947] EWL251 cells were grown in LB to midlog phase and then
washed three times in ice-cold, sterile water. Mixed 50 .mu.l of
cell suspension with 1 .mu.l of plasmid MCM82 (comprising pCL
PtrcUpperPathway (also known as "pCL Upper MVA"), encoding E.
faecalis mvaE and mvaS). Plasmid pCL Ptrc Upper Pathway was
constructed as described in Example 8 above. The cell suspension
mixture was electroporated in a 2 mm cuvette at 2.5 Volts and 25
.mu.Fd using a Gene Pulser Electroporator. 1 ml of LB was
immediately added to the cells. Cells were then transferred to a 14
ml polypropylene tube with a metal cap. Cells were allowed to
recover by growing for 2 hours at 30.degree. C. Transformants were
selected on LA and 50 .mu.g/.mu.l carbenicillin and 50 .mu.g/.mu.l
spectinomycin plates and incubated at 37.degree. C. One colony was
picked and designated as strain EWL256.
TABLE-US-00039 TABLE 18 Primer Sequences Primer name Primer
sequence MCM130 ACCAATTGCACCCGGCAGA (SEQ ID NO: 127) GB Cm
GCTAAAGCGCATGCTCCAGAC (SEQ ID NO: 128) Rev MVD GACTGGCCTCAGATGAAAGC
(SEQ ID NO: 129) For MVD CAAACATGTGGCATGGAAAG (SEQ ID NO: 130) Rev
MCM182 GGGCCCGTTTAAACTTTAACTAGACTCTGCAGTTAGCGTTCAAACGGCAGAA (SEQ ID
NO: 131) MCM192 CGCATGCATGTCATGAGATGTAGCGTGTCCACCGAAAA (SEQ ID NO:
132) MCM65 ACAATTTCACACAGGAAACAGC (SEQ ID NO: 133) MCM66
CCAGGCAAATTCTGTTTTATCAG (SEQ ID NO: 106) EL1000
GCACTGTCTTTCCGTCTGCTGC (SEQ ID NO: 134) MCM165
GCGAACGATGCATAAAGGAGGTAAAAAAACATGGTATCCTGTTCTGCGCCGGG TAAGATTTACCTG
(SEQ ID NO: 122) MCM177
GGGCCCGTTTAAACTTTAACTAGACTTTAATCTACTTTCAGACCTTGC (SEQ ID NO: 123)
EL1003 GATAGTAACGGCTGCGCTGCTACC (SEQ ID NO: 137) EL1006
GACAGCTTATCATCGACTGCACG (SEQ ID NO: 138) MCM161
CACCATGGTATCCTGTTCTGCG (SEQ ID NO: 120) MCM162
TTAATCTACTTTCAGACCTTGC (SEQ ID NO: 121)
viii) Construction of Strain RM111608-2 (Cm-GI1.2-KKDyI, pTrc P.
alba-mMVK, pCL Upper MVA, pBBRCMPGI1.5-pgl)
[0948] The BL21 strain of E. coli producing isoprene (EWL256) was
constructed with constitutive expression of the ybhE gene (encoding
E. coli 6-phosphogluconolactonase) on a replicating plasmid
pBBR1MCS5(Gentamycin) (obtained from Dr. K. Peterson, Louisiana
State University).
[0949] FRT-based recombination cassettes, and plasmids for
Red/ET-mediated integration and antibiotic marker loopout were
obtained from Gene Bridges GmbH (Germany). Procedures using these
materials were carried out according to Gene Bridges protocols.
Primers Pgl-F (SEQ ID NO:139) and PglGI1.5-R (SEQ ID NO:140) were
used to amplify the resistance cassette from the FRT-gb2-Cm-FRT
template using Stratagene Herculase II Fusion kit according to the
manufacturer's protocol. The PCR reaction (50 .mu.L final volume)
contained: 5 .mu.L buffer, 1 .mu.L template DNA (FRT-gb2-Cm-F from
Gene Bridges), 10 pmols of each primer, and 1.5 .mu.L 25 mM dNTP
mix, made to 50 .mu.L with dH.sub.2O. The reaction was cycled as
follows: 1.times.2 minutes, 95.degree. C. then 30 cycles of (30
seconds at 95.degree. C.; 30 seconds at 63.degree. C.; 3 minutes at
72.degree. C.).
[0950] The resulting PCR product was purified using the QiaQick PCR
purification kit (Qiagen) and electroporated into electrocompetent
MG1655 cells harboring the pRed-ET recombinase-containing plasmid
as follows. Cells were prepared by growing in 5 mLs of L broth to
and OD600-0.6 at 30.degree. C. The cells were induced for
recombinase expression by the addition of 4% arabinose and allowed
to grow for 30 minutes at 30.degree. C. followed by 30 minutes of
growth at 37.degree. C. An aliquot of 1.5 mLs of the cells was
washed 3-4 times in ice cold dH.sub.2O. The final cell pellet was
resuspended in 40 .mu.L of ice cold dH.sub.2O and 2-5 .mu.L of the
PCR product was added. The electroporation was carried out in 1-mm
gap cuvettes, at 1.3 kV in a Gene Pulser Electroporator (Bio-Rad
Inc.). Cells were recovered for 1-2 hours at 30.degree. C. and
plated on L agar containing chloramphenicol (5 .mu.g/mL). Five
transformants were analyzed by PCR and sequencing using primers
flanking the integration site (2 primer sets: pgl and 49 rev and 3'
EcoRV-pglstop; Bottom Pgb2 and Top GB's CMP (946)). A correct
transformant was selected and this strain was designated MG1655
GI1.5-pgl::CMP.
[0951] The chromosomal DNA of MG1655 GI1.5-pgl::CMP was used as
template to generate a PCR fragment containing the
FRT-CMP-FRT-GI1.5-ybhE construct. This construct was cloned into
pBBR1MCS5(Gentamycin) as follows. The fragment, here on referred to
as CMP-GI1.5-pgl, was amplified using the 5' primer Pglconfirm-F
(SEQ ID NO:141) and 3' primer 3' EcoRV-pglstop (SEQ ID NO:142). The
resulting fragment was cloned using the Invitrogen TOPO-Blunt
cloning kit into the plasmid vector pCR-Blunt II-TOPO as suggested
from the manufacturer. The NsiI fragment harboring the
CMP-GI1.5-pgl fragment was cloned into the PstI site of pBBR1MCS5
(Gentamycin). A 20 .mu.l ligation reaction was prepared containing
5 .mu.l CMP-GI1.5-pgl insert, 2 .mu.l pBBR1MCS5 (Gentamycin)
vector, 1 .mu.l T4 DNA ligase (New England Biolabs), 2 .mu.l
10.times. ligase buffer, and 10 .mu.l ddH.sub.2O. The ligation
mixture was incubated at room temperature for 40 minutes then 2-4
.mu.L were electroporated into electrocompetent Top10 cells
(Invitrogen) using the parameters disclosed above. Transformants
were selected on L agar containing 10 .mu.g/ml chloramphenicol and
5 .mu.g/ml Gentamycin. The sequence of the selected clone was
determined using a number of the primers described above as well as
with the in-house T3 and Reverse primers provided by Sequetech, CA.
This plasmid was designated pBBRCMPGI1.5-pgl (FIGS. 162, 163A-B and
SEQ ID NO:48).
[0952] Plasmid pBBRCMPGI1.5-pgl was electroporated into EWL256, as
described herein and transformants were plated on L agar containing
Chloramphenicol (10 .mu.g/mL), Gentamycin (5 .mu.g/mL),
spectinomycin (50 .mu.g/mL), and carbenicillin (50 .mu.g/mL). One
transformant was selected and designated strain RM111608-2.
Primers:
TABLE-US-00040 [0953] Pgl-F (SEQ ID NO: 139) 5'-
ACCGCCAAAAGCGACTAATTTTAGCTGTTACAGTCAGTTGAATTAACCCT
CACTAAAGGGCGGCCGC-3' PglGI1.5-R (SEQ ID NO: 140) 5'-
GCTGGCGATATAAACTGTTTGCTTCATGAATGCTCCTTTGGGTTACCTCC
GGGAAACGCGGTTGATTTGTTTAGTGGTTGAATTATTTGCTCAGGATGTG
GCATAGTCAAGGGCGTGACGGCTCGCTAATACGACTCACTATAGGGCTCG AG-3' 3'
EcoRV-pglstop: (SEQ ID NO: 142) 5'-CTT GAT ATC TTA GTG TGC GTT AAC
CAC CAC (SEQ ID NO: 136) pgl + 49 rev: CGTGAATTTGCTGGCTCTCAG (SEQ
ID NO: 135) Bottom Pgb2: GGTTTAGTTCCTCACCTTGTC (SEQ ID NO: 92) Top
GB's CMP (946): ACTGAAACGTTTTCATCGCTC Pglconfirm-F (SEQ ID NO: 141)
5'-ACCGCCAAAAGCGACTAATTTTAGCT-3'
Example 24
Improvement of Isoprene Production by Constitutive Expression of
ybhE (pgl) in E. coli
[0954] This example shows production of isoprene in a strain
constitutively expressing E. coli ybhE (pgl) compared to a control
strain expressing ybhE at wild-type levels (i.e., EWL256). The gene
ybhE (pgl) encodes E. coli 6-phosphogluconolactonase that
suppresses posttranslational gluconylation of heterologously
expressed proteins and improves product solubility and yield while
also improving biomass yield and flux through the pentose phosphate
pathway (Aon et al., Applied and Environmental Microbiology, 74(4):
950-958, 2008).
i) Small Scale Analysis
[0955] Media Recipe (per liter fermentation media):
K.sub.2HPO.sub.4 13.6 g, KH.sub.2PO.sub.4 13.6 g,
MgSO.sub.4*7H.sub.2O 2 g, citric acid monohydrate 2 g, ferric
ammonium citrate 0.3 g, (NH.sub.4).sub.2SO.sub.4 3.2 g, yeast
extract 1 g, 1000.times. Trace Metals Solution 1 ml. All of the
components were added together and dissolved in diH.sub.2O. The pH
was adjusted to 6.8 with ammonium hydroxide (30%) and brought to
volume. Media was filter-sterilized with a 0.22 micron filter.
Glucose 5.0 g and antibiotics were added after sterilization and pH
adjustment.
[0956] 1000.times. Trace Metal Solution (per liter fermentation
media): Citric Acid*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl
10 g, FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4 5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, NaMoO.sub.4*2H.sub.2O 100 mg. Each
component is dissolved one at a time in diH.sub.2O. The pH is
adjusted to 3.0 with HCl/NaOH, and then the solution is brought to
volume and filter-sterilized with a 0.22 micron filter.
(a) Experimental Procedure
[0957] Isoprene production was analyzed by growing the strains in a
Cellerator.TM. from MicroReactor Technologies, Inc. The working
volume in each of the 24 wells was 4.5 mL. The temperature was
maintained at 30.degree. C., the pH setpoint was 7.0, the oxygen
flow setpoint was 20 sccm and the agitation rate was 800 rpm. An
inoculum of E. coli strain taken from a frozen vial was streaked
onto an LB broth agar plate (with antibiotics) and incubated at
30.degree. C. A single colony was inoculated into media with
antibiotics and grown overnight. The bacteria were diluted into 4.5
mL of media with antibiotics to reach an optical density of 0.05
measured at 550 nm.
[0958] Off-gas analysis of isoprene was performed using a gas
chromatograph-mass spectrometer (GC-MS) (Agilent) headspace assay.
Sample preparation was as follows: 100 .mu.L of whole broth was
placed in a sealed GC vial and incubated at 30.degree. C. for a
fixed time of 30 minutes. Following a heat kill step, consisting of
incubation at 70.degree. C. for 5 minutes, the sample was loaded on
the GC.
[0959] Optical density (OD) at a wavelength of 550 nm was obtained
using a microplate reader (Spectramax) during the course of the
run. Specific productivity was obtained by dividing the isoprene
concentration (.mu.g/L) by the OD reading and the time (hour).
[0960] The two strains EWL256 and RM11608-2 were assessed at 200
and 400 .mu.M IPTG induction levels. Samples were analyzed for
isoprene production and cell growth (OD550) at 1, 2.5, 4.75, and 8
hours post-induction. Samples were done in duplicate.
(b) Results
[0961] The experiment demonstrated that at 2 different
concentrations of IPTG the strain expressing the ybhE (pgl) had a
dramatic 2-3 fold increase in specific productivity of isoprene
compared to the control strain.
Ii) Isoprene Fermentation from E. Coli Expressing Cm-GI1.2-KKDyI,
M. mazei Mevalonate Kinase, P. alba Isoprene Synthase, and ybhE
(pgl) (RM111608-2) and Grown in Fed-Batch Culture at the 15-L
Scale
[0962] Medium Recipe (per liter fermentation medium):
K.sub.2HPO.sub.4 7.5 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid
monohydrate 2 g, ferric ammonium citrate 0.3 g, yeast extract 0.5
g, 1000.times. Modified Trace Metal Solution 1 ml. All of the
components were added together and dissolved in diH.sub.2O. This
solution was autoclaved. The pH was adjusted to 7.0 with ammonium
hydroxide (30%) and q.s. to volume. Glucose 10 g, thiamine*HCl 0.1
g, and antibiotics were added after sterilization and pH
adjustment.
[0963] 1000.times. Modified trace Metal Solution: Citric
Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30 g, NaCl 10 g,
FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, NaMoO.sub.4*2H.sub.2O 100 mg. Each
component is dissolved one at a time in Di H.sub.2O, pH to 3.0 with
HCl/NaOH, then q.s. to volume and filter sterilized with a 0.22
micron filter
[0964] Fermentation was performed in a 15-L bioreactor with BL21
(DE3) E. coli cells containing the upper mevalonic acid (MVA)
pathway (pCL Upper), the integrated lower MVA pathway (gi1.2KKDyI),
high expression of mevalonate kinase from M. mazei and isoprene
synthase from P. alba (pTrcAlba-mMVK), and high expression of E.
coli pgl (pBBR-pgl). This experiment was carried out to monitor
isoprene formation from glucose at the desired fermentation pH 7.0
and temperature 34.degree. C. A frozen vial of the E. coli strain
was thawed and inoculated into tryptone-yeast extract medium. After
the inoculum grew to OD 1.0, measured at 550 nm, 500 mL was used to
inoculate a 15-L bioreactor bringing the initial volume to 5-L.
[0965] Glucose was fed at an exponential rate until cells reached
the stationary phase. After this time the glucose feed was
decreased to meet metabolic demands. The total amount of glucose
delivered to the bioreactor during the 40 hour (59 hour)
fermentation was 3.1 kg (4.2 kg at 59 hour). Induction was achieved
by adding IPTG. The IPTG concentration was brought to 110 .mu.M
when the optical density at 550 nm (OD.sub.550) reached a value of
4. The IPTG concentration was raised to 192 .mu.M when OD.sub.550
reached 150. The OD.sub.550 profile within the bioreactor over time
is shown in FIG. 164A. The isoprene level in the off gas from the
bioreactor was determined using a Hiden mass spectrometer. The
isoprene titer increased over the course of the fermentation to a
maximum value of 33.2 g/L at 40 hours (48.6 g/L at 59 hours) (FIG.
164B). The isoprene titer increased over the course of the
fermentation to a maximum value of 40.0 g/L at 40 hours (60.5 g/L
at 59 hours) (FIG. 164C). The total amount of isoprene produced
during the 40-hour (59-hour) fermentation was 281.3 g (451.0 g at
59 hours) and the time course of production is shown in FIG. 164D.
The time course of volumetric productivity is shown in FIG. 164E
and shows that an average rate of 1.0 g/L/hr was maintained between
0 and 40 hours (1.4 g/L/hour between 19 and 59 hour). The metabolic
activity profile, as measured by CER, is shown in FIG. 164F. The
molar yield of utilized carbon that went into producing isoprene
during fermentation was 19.6% at 40 hours (23.6% at 59 hours). The
weight percent yield of isoprene from glucose was 8.9% at 40 hours
(10.7% at 59 hours).
Example 25
Co-Production of Isoprene and Hydrogen in E. coli Strains
Expressing M. mazei Mevalonate Kinase, P. alba Isoprene Synthase,
pCL Upper MVA (E. faecalis mvaE and mvaS) and ybhE (pgl)
Collection and Analysis of Fermentation Off-Gas for Hydrogen and
Isoprene Levels
[0966] Fermentations were performed using strains RM111608-2 (E.
coli BL21 (DE3), pCL Upper MVA, cmR-gi1.2-yKKDyI, pTrcAlba-mMVK,
pBBR cmR-gi1.5-pgl) and EWL 256 (E. coli BL21 (DE3), pCL Upper MVA,
cmR-gi1.2-yKKDyI, pTrcAlba-mMVK). Construction of bacterial strains
is described in Example 23 above.
[0967] Large scale production of isoprene from E. coli was
determined from a fed-batch culture of E. coli strains EWL256 and
RM111608-2 expressing M. mazei mevalonate kinase, P. alba isoprene
synthase, pCL Upper MVA (E. faecalis mvaE and mvaS) and either
constitutively expressing ybhE (pgl) (RM111608-2) or normally
expressing ybhE (pgl) (EWL256). This experiment demonstrates that
growing cells in the presence of glucose resulted in the
co-production of isoprene and hydrogen.
[0968] The recipe for the fermentation medium (TM2) per liter of
TM2 fermentation medium was as follows: K.sub.2HPO.sub.4 13.6 g,
KH.sub.2PO.sub.4 13.6 g, MgSO.sub.4*7H.sub.2O 2 g, citric acid
monohydrate 2 g, ferric ammonium citrate 0.3 g,
(NH.sub.4).sub.2SO.sub.4 3.2 g, yeast extract 5 g, 1000.times.
Modified Trace Metal Solution 1 ml. 1000.times. Modified Trace
Metal Solution: Citric Acids*H.sub.2O 40 g, MnSO.sub.4*H.sub.2O 30
g, NaCl 10 g, FeSO.sub.4*7H.sub.2O 1 g, CoCl.sub.2*6H.sub.2O 1 g,
ZnSO.sub.4*7H.sub.2O 1 g, CuSO.sub.4*5H.sub.2O 100 mg,
H.sub.3BO.sub.3 100 mg, NaMoO.sub.4*2H.sub.2O 100 mg. For the
1000.times. Modified Trace Metal Solution, each component is
dissolved one at a time in Di H.sub.2O, pH to 3.0 with HCl/NaOH,
then brought to final volume in distilled water and filter
sterilized with a 0.22 micron (.mu.m) filter (this solution is not
autoclaved). For the TM2 fermentation medium, all of the components
were added together, dissolved in diH.sub.2O, the pH was adjusted
to 6.8 with potassium hydroxide (KOH), q.s. to volume, and the
medium was filter sterilized with a 0.22 micron (.mu.m) filter.
Glucose was sourced from Cargill as 99DE (dextrose equivalent), 71%
DS (dry solids) syrup.
[0969] Fermentations were performed in 15-L bioreactors with E.
coli strains EWL256 or RM111608-2, containing the upper mevalonic
acid (MVA) pathway (pCL Upper MVA), the integrated lower MVA
pathway (cmR-gi1.2-yKKDyI), mevalonate kinase from M. mazei and
isoprene synthase from P. alba (pTrcAlba-mMVK), and constitutively
expressing ybhE (pgl) (RM111608-2) or normally expressing ybhE
(pgl) (EWL256). This experiment was carried out to monitor isoprene
formation from glucose at the desired fermentation conditions (pH
7.0 and temperature 34.degree. C.).
[0970] An inoculum of the appropriate E. coli strain taken from a
frozen vial was prepared in peptone-yeast extract medium. After the
inoculum grew to OD.sub.550=0.6, 600 mL was used to inoculate a
15-L bioreactor containing TM2 medium. Glucose was fed at an
exponential rate until cells reached the stationary phase. After
this time the glucose feed was decreased to meet metabolic demands.
The total amount of glucose delivered to the bioreactor during the
67 hour fermentation was 3.9 kg. Induction was achieved by adding
isopropyl-beta-D-1-thiogalactopyranoside (IPTG). The IPTG
concentration was brought to 102 .mu.M when the optical density at
550 nm (OD.sub.550) reached a value of 9. The IPTG concentration
was raised to 192 .mu.M when OD.sub.550 reached 140. At various
times after inoculation, samples were removed and the amount of
isoprene produced was determined as described below. Levels of
hydrogen, nitrogen, oxygen, carbon dioxide, and isoprene in the off
gas from the bioreactor were determined using a Hiden HPR-20 mass
spectrometer as discussed below.
[0971] Samples of fermentation off-gas from 15-L bioreactors were
collected into 20 mL glass headspace vials by sparging the vials at
1 L.sub.offgas/min for 10 seconds and sealed with metal screw caps
fitted with teflon-coated septa (Agilent, Calif.). The vials were
analyzed within 30 minutes of collection.
[0972] Analysis of the two samples was performed by infusion into a
Hiden HPR-20 mass spectrometer (Hiden Analytics, U.K.) at a rate of
4 scc/min (4 mL/min) by placing the inlet tube of the mass
spectrometer into the uncapped headspace vials for 1-2 minutes. The
HPR-20 instrument was configured to scan masses corresponding to
hydrogen (m/z 2), nitrogen (m/z 28), oxygen (m/z 32), carbon
dioxide (m/z 44) and isoprene (m/z 67). The Faraday detector was
used for masses 28, 32, 44 and 67. The SEM detector was used for
hydrogen (m/z 2). Detector response was measured in arbitrary units
of pressure (Torr). Absolute hydrogen levels were estimated by
comparison to an authentic hydrogen gas standard. Results were
recorded using MASsoft V 6.21.0.51 software (Hiden Analytics,
United Kingdom).
Results
[0973] Off-gas samples were taken from two fermentation runs and
analyzed as described above:
[0974] A) Strain RM111608-2 (E. coli BL21 (DE3), pCL upper,
cmR-gi1.2-yKKDyI, pTrcAlba-mMVK, pBBR cmR-gi1.5-pgl). Sample was
taken at 64.8 hours into the run during which time the fermentation
was being run anaerobically with a nitrogen sparge at 1 vvm.
[0975] B) Strain EWL256 (E. coli BL21 (DE3), pCL upper,
cmR-gi1.2-yKKDyI, pTrcAlba-mMVK). Sample was taken at 34.5 hours
into the run during which time the fermentation was being run
aerobically with an air sparge at 1 vvm.
[0976] The results are depicted in FIGS. 165A-B. In both cases low
levels of hydrogen were detected, in addition to isoprene, oxygen
and carbon dioxide. The baseline reading for hydrogen was
0.95.times.10.sup.-8 Torr. Both Sample A and B gave reading of
around 1.3.times.10.sup.-8 Torr. Based on a comparison to a
hydrogen standard, the amount of hydrogen present in the off-gas
for samples A and B was estimated to be less than 10 ppmv (parts
per million volume) but above the baseline. As shown in FIGS.
165A-B, both samples A and B also contained significant amounts of
isoprene and carbon dioxide.
Example 26
Co-Production of Isoprene and Hydrogen in E. Coli Strains
Expressing M. mazei Mevalonate Kinase, P. alba Isoprene Synthase,
pCL Upper MVA (E. faecalis mvaE and mvaS) and ybhE (pgl)
Collection and Analysis of Fermentation Off-Gas for Hydrogen and
Isoprene Levels
[0977] The objective of this experiment is co-produce hydrogen and
isoprene in an engineered strain of E. coli. For this purpose, a
portion of the hyc operon encoding E. coli hydrogenase-3 will be
expressed in strain EWL256 [BL21 (DE3), pCL upper,
cmR-gi1.2-yKKDyI, pTrcAlba-mMVK], prepared as described herein,
although any of the bacterial strains described herein, such as
RM111608-2, can be similarly modified. An expression construct
comprising hyc operon genes hycB (gi|16130631), hycC (gi|16130630),
hycD (gi|16130629), hycE (gi|16130628), hycF (gi|16130627), and
hycG (gi|16130626) is prepared by standard cloning methods known in
the art based upon publicly available gene sequences, and
introduced into strain EWL256 to produce new strain
EWL256+Hyd-3.
[0978] The impact of additional mutations on co-production of
hydrogen and isoprene is assessed alone or in combination in
EWL256+Hyd-3, by introducing genes involved in the maturation or
regulation of hydrogenase-3 (e.g., hycH (gi|16130625) and hycI
(gi|16130624)), by inactivating or deleting genes involved in
hydrogen uptake or transport (e.g., E. coli hydrogenase-1 (hya
operon) and hydrogenase-2 (hyb operon)) or related proteins (e.g.,
formate dehydrogenase (fdhF (gi|16130624)), repressor of formate
lyase (hycA (gi|16130632)), formate dehydrogenase N, alpha subunit
(fdnG (gi|16129433)), formate dehydrogenase O, large subunit (fdoG
(gi|16131734)), nitrate reductase (narG (gi|16129187)), fumarate
reductase regulator (fnr (gi|16129295)), and acetyl-coenzyme A
synthetase (acs (gi|16131895))), by activating genes involved in
upregulation of hydrogenases (e.g., activator of formate hydrogen
lyase (fhlA (gi|16130638)), by inactivating or deleting genes
involved in the production of fermentation side products (e.g.,
lactate dehydrogenase (ldhA (gi|16129341)), fumarate reductase
membrane protein (frdC (gi|16131977)), alcohol dehydrogenase (adhE
(gi|16129202)), pyruvate oxidase (poxB (gi|16128839)), pyruvate
dehydrogenase E1 component ackA/pta (aceE (gi|16128107)), formate
dehydrogenase regulatory protein (hycA (gi|16130632)), and formate
transporters A and B (FocA (gi|16128871) and FocB (gi|16130417)),
or by expression of heterologous genes involved in hydrogen
metabolism (e.g., glyceraldehyde-3-phosphate dehydrogenase from
Clostridium acetobutylicum (gapC (gi|15893997)).
[0979] Fermentations are performed using engineered variants of
strain EWL 256+Hyd-3 (BL21 (DE3), pCL upper, cmR-gi1.2-yKKDyI,
pTrcAlba-mMVK and hycB-F), modified to comprise one or more
additional mutations as described herein, either alone or in
combination, essentially as described in Example 25 above.
Co-production of hydrogen and isoprene is assessed by analysis of
off-gas samples essentially as described above. Strains are
selected for further analysis based upon the rate of isoprene and
hydrogen co-production.
[0980] Unless defined otherwise, the meanings of all technical and
scientific terms used herein are those commonly understood by one
of skill in the art to which this invention belongs. Singleton, et
al., Dictionary of Microbiology and Molecular Biology, 2nd ed.,
John Wiley and Sons, New York (1994), and Hale & Marham, The
Harper Collins Dictionary of Biology, Harper Perennial, N.Y. (1991)
provide one of skill with a general dictionary of many of the terms
used in this invention. It is to be understood that this invention
is not limited to the particular methodology, protocols, and
reagents described, as these may vary. One of skill in the art will
also appreciate that any methods and materials similar or
equivalent to those described herein can also be used to practice
or test the invention.
Example 27
Production of Isoprene or Mevalonate from Fatty Acid or Palm Oil in
E. coli fadR atoC LS5218 Containing the Upper or Upper and Lower
Mevalonic Acid Pathway Plus Kudzu Isoprene Synthase
[0981] Escherichia coli fadR atoC strain LS5218 (#6966) was
obtained from the Coli Genetic Stock Center. FadR encodes a
transcription repressor that negatively regulates expression of the
genes encoding fatty acid degradation enzymes (Campbell et al., J.
Bacteriol. 183: 5982-5990, 2001). AtoC is a response regulator in a
two-component regulatory system wherein AtoS regulates acetolactate
metabolism. The fadR atoC strain allows constitutive expression of
the fatty acid degradation genes and incorporates long chain fatty
acids into long-chain-length polyhydroxyalkanoates. When palm oil
is used as a carbon source for either mevalonate or isoprene
production, the palm oil was converted to glycerol plus fatty acid.
Methods for this are well known in the art, and it can be done
either enzymatically by incubation with a lipase (for example
Porcine pancreatic lipase, Candida rugosa lipase, or other similar
lipases) or chemically by saponification with a base such as sodium
hydroxide.
i) E. coli fadR atoC Strain Expressing the Upper Mevalonic Acid
Pathway
[0982] Strain WW4 was created by electroporating
pCLPtrcUpperPathway into LS5218 using standard methods (Sambrooke
et al., Molecular Cloning: A Laboratory Manual, 2.sup.nd ed., Cold
Spring Harbor, 1989). Incorporation of the plasmid was demonstrated
by the production of mevalonic acid (MVA) when cells were cultured
in TM3 medium supplemented with either C12 fatty acid (FA) or palm
oil as the carbon source. To demonstrate production of MVA by WW4
from fatty acid, cells from an overnight culture were diluted 1 to
100 into 5 mL of modified TM3 medium (TM3 without yeast extract)
supplemented with 0.25% C12 FA (Sigma cat #L9755). The first sign
of MVA production (24 mg/L) was apparent after overnight incubation
at 30.degree. C. of the IPTG induced culture. Production increased
over three days with the final level of 194 mg/L of MVA produced.
To demonstrate production of MVA by WW4 from oil, cells from an
overnight culture were diluted 1 to 100 into modified TM3 medium
supplemented with 200 mg of digested palm oil per 5 mL of TM3
medium. The first sign of MVA production (50 mg/L) was apparent
after overnight incubation of the IPTG induced culture at
30.degree. C. Production increased over three days with a final
level of 500 mg/L of MVA produced.
ii) E. coli fadR atoC Strain Expressing the Upper and Lower MVA
Pathway Plus Kudzu Isoprene Synthase
[0983] Escherichia coli strain WW4 (LS5218 fadR atoC
pCLPtrcUpperPathway) was transformed with pMCM118 [pTrcKKDyIkIS] to
yield WW10. The incorporation of the plasmid was demonstrated by
evidence of production of isoprene when the strain was cultured in
TM3 and glucose and induced with IPTG (100, 300, or 900 .mu.M). The
strain was relatively sensitive to IPTG and showed a significant
growth defect even at 100 .mu.M IPTG. These results are shown in
FIG. 70A.
[0984] To test isoprene production from dodecanoic acid, WW10 was
cultured overnight in L broth containing spectinomycin (50
.mu.g/ml), and kanamycin (50 .mu.g/ml) at 37 C with shaking at 200
rpm. The cells were washed with modified TM3 medium by
centrifugation and resuspension in their original culture volume
with this medium. The washed and resuspended cells from this
starter culture were diluted 1 to 100 and 1 to 10 into 5 mL of
modified TM3 medium containing 0.125% C12 Fatty Acid (Sigma cat
#L9755).
[0985] To demonstrate production of mevalonate from palm oil, the
oil was predigested with lipase at 37.degree. C. and 250 rpm for
several days to release the fatty acids (evidence of hydrolysis was
judged by the foam formed when tubes were shaken).
[0986] In addition, a culture was set up by diluting the washed
cells at 1 to 10 into modified TM3 medium contained in test tubes
with palm oil. A further tube was set up by the addition of 0.125%
C12FA to the remainder (2.5 mL) of the washed cells without further
dilution (bioconversion). After 3.75 hours of growth at 30.degree.
C. with shaking at 250 rpm all of the cultures were induced by the
addition of 50 .mu.M IPTG. Incubation was continued for 4 hours
after which time 200 .mu.L of each of the cultures was assayed for
isoprene accumulation with a modified head space assay (1 hour
accumulation at 30.degree. C. with shaking at 500 rpm). An
additional isoprene assay was conducted by a 12 hour incubation of
the assay glass block prior to GCMS analysis. Incubation of the
induced cultures was continued overnight and 200 .mu.L aliquots
were again assayed for isoprene production (1 hour, 30 deg, 500 rpm
Shel-Lab shaker) the following morning. Analysis of these cultures
showed the production of significant levels of isoprene. The
highest levels of isoprene were observed in the culture which was
seeded at 1/10 dilution from the overnight starter culture after it
had been incubated and induced overnight. This result suggests that
this culture continued to grow and increase in cell density. These
results are shown in FIG. 70B. Cell density could not be measured
directly because the fatty acid suspension had a turbid appearance.
Cell density of this culture was therefore determined by plating an
aliquot of the culture and showed 8.times.10.sup.7 colony forming
units. This corresponds approximately to an OD.sub.600 of 0.1.
Nevertheless, this culture provided significant isoprene
production; no isoprene is observed for similar strains without the
pathway described in this example.
Example 28
Expression of Isoprene-Synthase from Plant in Streptomyces sp.
[0987] The gene for isoprene synthase Kudzu was obtained from
plasmid pJ201:19813. Plasmid pJ201:19813 encodes isoprene synthase
from Pueraia lobata (Kudzu plant) and was codon-optimized for
Pseudomonas fluorescens, Pseudomonas putida, Rhodopseudomonas
palustris and Corynebacterium (FIGS. 79A-79C (SEQ ID NO:123)).
Digestion of plasmid pJ201:19813 with restriction enzymes NdeI and
BamHI liberated gene iso19813 that was ligated into the
Streptomyces-E. coli shuttle vector pUWL201PW (Doumith et al., Mol.
Gen. Genet. 264: 477-485, 2000; FIG. 71) to generate pUWL201_iso.
Successful cloning was verified by restriction analysis of
pUWL201_iso. Expression of isoprene synthase iso19813 was under
control of the erm-promoter which allows for constitutive
expression in Streptomycetes species, but not for expression in E.
coli.
[0988] PUWL201PW (no insert) and pUWL201_iso were introduced in
Streptomyces albus J1074 (Sanchez et al., Chem. Biol. 9:519-531,
2002) by transformation of protoplasts as described by Hopwood et
al., The John innes foundation, Norwich, 1985.
[0989] A 200 .mu.l aliquot of protoplast suspensions was
transformed with 1.9 .mu.g pUWL201PW or 2.9 .mu.g pUWL201_iso.
After incubation overnight at 28.degree. C. on non-selective
R5-agarplates, positive transformants were selected by further
incubation for 4 days in R3-overlay agar containing thiostrepton
(250 .mu.g/ml). Thiostrepton resistant transformants were examined
for presence of the pUWL-plasmids by plasmid preparation using
Plasmid Mini Kit (Qiagen). Prepared plasmid DNA was reintroduced in
E. coli DH5.alpha. to generate sufficient amounts of plasmid DNA to
be analyzed by restriction analysis. Positive transformants were
selected on ampicillin-containing L-agar plates and insert analysis
was done by digestion of plasmid DNA with NdeI and BamHI
endonucleases. Isoprene synthase was identified as a 1.7 kb
fragment in positive pUWL201 iso clones while in the control
strains (pUWL201PW) no such fragment was observed.
[0990] Wild type strain and transformants of S. albus containing
control plasmid pUWL201PW or isoprene synthase encoding pUWL201_iso
were analyzed for isoprene formation. Strains were cultivated in
duplicate on solid media (tryptic soy broth agar, TSB; 2.5 ml) in
presence or absence of thiostrepton (200 .mu.g/ml) and incubated
for 4 days at 28.degree. C. in sealed head-space vials (total
volume 20 ml). 500 .mu.l head-space samples (end point
measurements) were analyzed by GC-MS in SIM-mode and isoprene was
identified according to reference retention times and molecular
masses (67 m/z). Isoprene present in head-space samples was
quantified by previously generated calibration curves. While
wild-type S. albus and control strains harboring pUWL201PW produced
isoprene in concentrations slightly higher than the detection limit
(0.04-0.07 ppm), S. albus harboring pUWL201_iso produced isoprene
in at least tenfold excess compared to controls (0.75 ppm; FIG.
72). The results demonstrate successful expression of plant-derived
isoprene synthase in a prokaryotic organism of the Actinomycetes
group.
Example 29
Recovery of Bioisoprene.TM.
[0991] Bioisoprene.TM. was recovered from a set of four 14-L scale
fermentations in a two-step operation involving stripping of
isoprene from the fermentation off-gas stream by adsorption to
activated carbon, followed by off-line steam desorption and
condensation to give liquid Bioisoprene.TM. (FIGS. 166A and 166B).
The total amount of Bioisoprene.TM. produced by the four fermentors
was 1150 g (16.9 mol), of which 953 g (14 mol, 83%) was adsorbed by
the carbon filters. Following the steam desorption/condensation
step, the amount of liquid Bioisoprene.TM. recovered was 810 g,
corresponding to an overall recovery yield of 70%. The recovered
Bioisoprene.TM. was analyzed for the presence of impurities.
Analysis and Impurity Profile of Bioisoprene.TM. Liquid
[0992] Recovered Bioisoprene.TM. liquid was analyzed by GC/MS and
gas chromatography/flame ionization detection (GC/FID) to determine
the nature and levels of impurities. The product was determined to
be >99.5% pure and contained several dominant impurities in
addition to many minor components. The GC/FID chromatogram is
depicted in FIG. 167, and the typical levels of impurities are
shown in Table 19. The impurity profile was similar to other
Bioisoprene.TM. batches produced on this scale.
TABLE-US-00041 TABLE 19 Summary of the nature and levels of
impurities seen in several batches of Bioisoprene .TM.. Retention
Time (min) Compound GC/MS GC/FID Conc. Range Ethanol 1.59 11.89
<50 ppm Acetone 1.624 12.673 <100 ppm Methacrolein 1.851
15.369 <200 ppm Methyl vinyl ketone 1.923 16.333 <20 ppm
Ethyl acetate 2.037 17.145 100 to 800 ppm 3-Methyl-1,3- 2.27 18.875
50 to 500 ppm pentadiene Methyl vinyl oxirane 2.548 19.931 <100
ppm Isoprenol 2.962 21.583 <500 ppm 3-methyl-1-butanol 2.99
21.783 <50 ppm 3-hexen-1-ol 4.019 24.819 <100 ppm Isopentenyl
acetate 4.466 25.733 200 to 1000 ppm 3-hexen-1-yl acetate 5.339
27.223 <400 ppm limonene 5.715 27.971 <500 ppm Other cyclics
5.50-6.50 27.5-28.0 <200 ppm
Purification of Bioisoprene.TM. by Treatment with Adsorbents
[0993] Adsorbents are widely used by industry for the removal of
trace impurities from hydrocarbon feedstocks. Suitable adsorbents
include zeolite, alumina and silica-based materials.
Bioisoprene.TM. can be substantially purified by passage over
silica gel, and to a lesser extent with alumina. FIG. 168 shows the
GC/FID chromatograms of a Bioisoprene.TM. sample before (A) and
after treatment with alumina (B) or silica (C). The Selexsorb.TM.
adsorbent products from BASF is one of the adsorbents of choice for
the removal of polar impurities from Bioisoprene.TM. Specifically,
the Selexsorb CD and CDX products are preferred given their proven
utility for removal of polar impurities from isoprene and butadiene
feedstocks.
Example 30
Chemical Transformations of Bioisoprene.TM.
[0994] Chemicals and solvents were used as received from Sigma
Aldrich Corp (WI, USA). BioIsoprene.TM. was produced by
fermentation of E. coli BL21 strains expressing Isoprene synthase
and a heterologous mevalonic acid (MVA) isoprene precursor
biosynthetic pathway. Bioisoprene was recovered from fermentation
off-gas by adsorption to activated carbon, followed by steam
desorption and condensation to obtain crude, liquid Bioisoprene.
Bioisoprene was purified by fractional distillation immediately
before use.
.sup.1H NMR Analysis
[0995] Proton (.sup.1H) nuclear magnetic resonance (NMR) spectra
were recorded on a Varian VNMRS 500 MHz NMR system. All NMR spectra
are referenced to tetramethylsilane (TMS, O ppm) or chloroform
(CHCl.sub.3, 7.26 ppm) and peak frequencies are recorded in ppm
unless otherwise specified. Samples were run in either deuterated
chloroform (CDCl.sub.3) or methanol (CD.sub.3OD).
GC/MS Analysis
[0996] The analysis was performed using an Agilent 6890 GC/MS
system interfaced with a CTC Analytics (Switzerland) CombiPAL
autosampler operating in headspace mode. An Agilent HP-5MS GC/MS
column (30 m.times.0.25 mm; 0.25 .mu.m film thickness) was used for
separation of analytes. The autosampler was set up to inject 1
.mu.L of a liquid sample from a 10 .mu.L liquids syringe. The GC/MS
method utilized helium as the carrier gas at a flow of 1 mL/minute.
The injection port was held at 250.degree. C. with a split ratio of
100:1. The oven program began at 50.degree. C. for 2 minutes,
increasing to 225.degree. C. at a rate of 25.degree. C./min.
followed by a 1 minute hold for a total run time of 10 minutes. The
Agilent 5793N mass selective detector was run in scan mode from m/z
29 to 500. A solvent delay of 1.5 minutes was employed. Under these
conditions isoprene (2-methyl-1,3-butadiene) was observed to elute
at 0.675 minutes.
GC/FID Analysis
[0997] The analysis was performed using an Agilent 6890 GC/FID
system interfaced with a CTC Analytics (Switzerland) CombiPAL
autosampler operating in liquids mode. An Agilent DB-Petro GC
column (100 m.times.0.25 mm; 0.50 .mu.m film thickness) was used
for separation of analytes. The autosampler was set up to inject 1
.mu.L of a liquid sample from a 10 .mu.L liquids syringe. The
GC/FID method utilized helium as the carrier gas at a flow of 1
mL/minute. The injection port was held at 200.degree. C. with a
split ratio of 50:1. The oven program began at 50.degree. C. for 15
minutes, increasing to 250.degree. C. at a rate of 25.degree.
C./min. followed by a 10 minute hold for a total run time of 33
minutes. The FID detector was held at 280.degree. C. in Constant
makeup mode with a hydrogen flow of 35 mL/min and air flow of 250
mL/min. Under these conditions isoprene (2-methyl-1,3-butadiene)
was observed to elute at 13.54 minutes.
I. Preparation of Cyclic Dimers of Isoprene Through Thermal
Diels-Alder Cycloaddition
[0998] Isoprene (1.02 g, 0.015 mole) was heated at 150.degree. C.
for 24 hours in the presence of 2,6-di-tert-butyl-4-methylphenol
(0.165 g, 0.05 mole) acting as an inhibitor of thermal
polymerization. The reaction was carried out in a sealed
thick-walled glass reaction vessel that was dried in the vacuum
oven for 24 hours prior to the reaction. The reaction mixture was
stirred with a magnetic stirrer. The progress of the reaction was
monitored by gas chromatography with mass-spectrometer detector
(GC-MS). After the reaction was finished, the resulting mixture of
isomers was purified using silica gel chromatography with hexane as
the eluent. Following concentration on a rotary vacuum evaporator
the product was characterized by GC-MS and .sup.1H-NMR. GC-MS:
product A: 5.17, 5.19 min; product B: 5.72, 5.74 min; product C,
6.11 min. .sup.1H-NMR (CDCl.sub.3) .delta.: 5.8 (m); 5.4 (m); 4.95
(m); 2.4-1.2 (m).
II. Preparation of Isoprene Oligomers Through Pd-Catalyzed
Oligomerization
[0999] Isoprene (2.03 g, 0.03 mole) was mixed with isopropanol
(1.79 g, 0.03 mole) in a sealed thick-walled glass reaction vessel.
Prior to the reaction the glass chamber was dried in a vacuum oven
for 24 hours. Transfer of all reagents was done under inert
nitrogen atmosphere. Palladium acetylacetonate (0.55 mg, 0.06
mmole) and triphenylphosphine (1.49 mg, 0.19 mmol) were added to
the reaction mixture. The reaction chamber was then heated to
100.degree. C. for 24 hours with mixing provided via magnetic
stirrer. The course of the reaction was analyzed by GC-MS. Once the
reaction was finished the products were isolated by silica gel
column chromatography using hexane as the eluent. The final
products were characterized by GC-MS and .sup.1H-NMR spectroscopy.
GC-MS: product A: 5.54 min; product B: 6.6 min; product C, 6.85
min.
III. Hydrogenation of Unsaturated Compounds
[1000] The mixture of isomers obtained in Example 2 (1.36 g, 0.01
mole) is put in a glass chamber equipped with magnetic stirrer and
containing a hydrogenation catalyst (Pd/C, 5 wt %) (0.21 g, 0.1
mmol). All glassware is vacuum dried prior to carrying out the
experiments. Hydrogen gas is introduced into the system and the
pressure is kept at 3 atm. After several hours the reaction mixture
Pd/C is filtered from the reaction mixture and the products are
separated using silica gel chromatography. Final analysis is done
using GC-MS and NMR.
IV. Preparation of Ethoxylated Derivatives of Isoprene
[1001] Isoprene (0.982 g, 0.014 mole) was mixed with absolute
ethanol (0.665 g, 0.014 mol) in a thick glass wall chamber equipped
with magnetic stirrer. A catalytic amount of concentrated sulfuric
acid was added to the reaction mixture, followed by stirring
overnight at 85.degree. C. The progress of the reaction was
monitored by GC-MS. After 16 hours of heating the GC-MS trace
revealed the presence of a mixture of isomers with following
retention times: product A: 2.66 min m/z.sup.+=99; product B: 3.88
m/z.sup.+=99, 114; product C, 5.41 min, m/z.sup.+=87, 99, 114.
V. Conversion of Isoprene to C10 Cyclic Dimers Using a Ruthenium
Catalyst
##STR00017##
[1003] The conversion of isoprene into C10 cyclic dimers has been
achieved in excellent yield using a ruthenium catalyst to a mixture
of dimethyl-cyclooctadienes (Itoh, Kenji; Masuda, Katsuyuki;
Fukahori, Takahiko; Nakano, Katsumasa; Aoki, Katsuyuki; Nagashima,
Hideo, Organometallics (1994), 13(3), 1020-9.) Conversions higher
than 95% are reported at very moderate temperatures (as low as
60.degree. C.). The catalyst, a pentamethylcyclopentadienyl-based
ruthenium organometallic compound, can be prepared in two easy
steps using ruthenium chloride (RuCl.sub.3) and
pentamethylcyclopentadiene (C.sub.5Me.sub.5H) as starting
materials. For the dimerization reaction the catalyst is activated
with silver triflate (AgOTf) to produce the active species, but
other activators could be used as well.
VI. Conversion of Isoprene to C15 Trimers Using a Chromium
Catalyst
##STR00018##
[1005] Conversion of isoprene into the C15 trimers can be carried
out using a chromium catalyst with a P--N--P ligand,
N,N-bis(diarylphosphino)amine. The catalyst is prepared in situ and
it is activated using MAO, as described in Bowen, L.; Charernsuk,
M.; Wass, D. F. Chem. Commun. (2007) 2835-2837. The reported
conversion of isoprene into the C15 trimers, consisting in a
mixture (3:1) of linear and cyclic products, is as high as 95% at
moderate temperatures (70.degree. C.). Tetramers are identified as
the major other product in every case.
VII. Hydrogenation of Isoprene
[1006] Isoprene (10 mL of a 10% solution in absolute ethanol (v/v))
was hydrogenated to 2-methylbutane (isopentane) in a continuous
manner using an H-cube hydrogenation instrument (ThalesNano,
Princeton, N.J., U.S.A.). The isoprene solution was pumped at 0.5
mL/min through a 10% Pd/C catalyst cartridge held at 70.degree. C.
Hydrogen gas was introduced using "full mode" at 1 atm pressure.
The product was collected and analyzed by .sup.1H NMR and GC/FID
which confirmed the conversion of isoprene to 2-methylbutane in
over 90% yield, in addition to minor amounts of partially
hydrogenated mono-olefins. .sup.1H NMR (500 MHz, CDCl.sub.3):
.delta.0.8 (m, 9H, CH.sub.3); 1.12 (m, 2H, CH.sub.2); 1.37 (m, 1H,
CH). GC/FID: 2-methylbutane; retention time=12.69 minutes.
VIII. Partial Hydrogenation of Isoprene
[1007] BioIsoprene.TM. product (50 mL, 0.5 mol) was mixed with
toluene (200 mL) and partially hydrogenated over a 5% Pd/C catalyst
on an Midi-Cube hydrogenation instrument (ThalesNano, Budapest,
Hungary) at 40.degree. C. and 5 bar hydrogen pressure. Substrate
flow rate was 10 mL/min and hydrogen was delivered at 125 mL/min (5
mmol/min). The product stream was recycled through the instrument
for a period of 2 hours after which time an aliquot of the product
was analyzed by GC/MS and GC/FID which showed that the majority of
the starting material had been converted to a mixture of
isoamylenes (2-methyl-1-butene, 2-methyl-2-butene and
3-methyl-1-butene), in addition to isopentane and some unreacted
isoprene (FIG. 170).
IX. Selective Hydrogenation of BioIsoprene.TM. Product
[1008] BioIsoprene.TM. product is selectively hydrogenated under
the conditions cited in the above example using an eggshell
Pd/.delta.-Al.sub.2O.sub.3 catalyst giving a mixture of isoamylenes
where 2-methyl-2-butene is the dominant product accounting for
>50% of the total isoamylenes and 3-methyl-1-butene is the minor
product accounting for <25% of the total isoamylene products as
determined by GC/MS analysis. The amount of isopentane and residual
isoprene account for <10% of the total product stream. A similar
result is obtained when a sulfided palladium on carbon catalyst is
used to perform the reaction.
X. Partial Hydrogenation of BioIsoprene.TM. Product in the Gas
Phase
[1009] A dry gas stream containing BioIsoprene.TM. product is mixed
with a slight excess of hydrogen gas (mol/mol) and the gaseous
mixture passed over a heterogenous hydrogenation catalyst, such as
a Group IB-promoted palladium catalyst with high pore volume as
described in US Pat. Appl. 20090203520, to produce a mixture of
isoamylenes and one or more impurities derived from the
fermentation process from which the BioIsoprene.TM. product was
originally derived. The conversion is carried out at pressures
ranging from 0.5 to 200 bar, and temperatures from 0.degree. C. to
200.degree. C.
XI. Dimerization of Isoamylenes with a Solid Acid Catalyst
[1010] 2-Methyl-2-butene (1.5 mL) and toluene (4 mL) were stirred
at room temperature with Amberlyst 15 acid resin (186 mg) for 12 h
at room temperature. An aliquot (500 uL) was removed from the
reaction mixture and transferred to a GC vial. Analysis of the
mixture was performed by GC/MS (FIG. 171) and revealed the partial
conversion to C10 dimers (diisoamlylenes) suitable as
BioIsofuel.TM. components.
[1011] The products of the dimerization reaction (diisoamylenes,
C10 dimate) are optionally fully hydrogenated under conditions
described in Example 30, part VII, or through conditions known in
the art for the hydrogenation of olefins to isoparaffins [for
example, see Marichonna (2001)].
XII. Oligomerization of BioIsoprene.TM. Product with a Solid Acid
Catalyst
##STR00019##
[1012] A mixture of BioIsoprene.TM. monomer, 2-methyl-2-butene (1.5
mL) and toluene (4 mL) was stirred at room temperature with
Amberlyst 15 acid resin (186 mg) for 12 h at room temperature. An
aliquot (500 uL) was removed from the reaction mixture and
transferred to a GC vial. Analysis of the mixture was performed by
GC/MS (FIG. 172) and revealed a complex mixture of products
consisting of isoprene, linear, cyclic and aromatic C10, C15 and
higher oligomers.
XIII. Continuous Oligomerization of BioIsoprene.TM. Product with a
Solid Acid Catalyst
[1013] BioIsoprene.TM. monomer is continuously converted into C10
dimers and C15 trimers in a dimerization reactor containing
Amberlyst 15 ion exchange resin or an equivalent catalyst. The
BioIsoprene.TM. feed stream comprises BioIsoprene.TM. monomer and
optionally C5 derivatives of BioIsoprene.TM. and a co-solvent. The
process is conducted at temperatures ranging from 20 to 200.degree.
C. and pressures from 0.5 to 200 bar. The products of the
dimerization step are fractionated in a first fractionation column
to separate unreacted isoprene from higher (>C5) oligomers. The
C5 fraction is returned to the dimerization reactor and the heavy
>C5 fraction is introduced into a second fractionation column in
which the desired C10/C15 fraction is collected from the overhead
stream. The bottom fraction consisting of >C15 oligomers is fed
into a heavy recycle reactor containing a metathesis catalyst such
as the Grubbs 2.sup.nd generation catalyst. The metathesis catalyst
converts a portion of the higher oligomer fraction into lighter
components by olefin cross-metathesis reactions that are
subsequently fed into fractionation column #1 as depicted in FIG.
173.
[1014] Overall, the process results in conversion of BioIsoprene
monomer into C10 dimer and C15 trimer BioIsofuel.TM. precursors
which are then subjected to partial or complete hydrogenation under
conditions described in example 30, section VII. The resulting
partially or fully saturated compounds are suitable as
BioIsofuel.TM. compositions and as BioIsofuel.TM. blendstocks.
Example 31
.sup.13C/.sup.12C Isotope Analysis
[1015] .sup.13C analysis can be done by loading 0.5 to 1.0 mg
samples into tin cups for carbon isotopic analysis using a Costech
ECS4010 Elemental Analyzer as an inlet for a ThermoFinnigan Delta
Plus XP isotope ratio mass spectrometer. Samples are dropped into a
cobaltous/cobaltic oxide combustion reactor at 1020.degree. C. with
combustion gases being passed in a helium stream at 85 mL/min
through a copper reactor (650.degree. C.) to convert NO.sub.x to
N.sub.2. CO.sub.2 and N.sub.2 are separated using a 3-m SA
molecular sieve column. Then, .sup.13C/.sup.12C ratios are
calibrated to the VPDB scale using two laboratory standards
(Acetanilide B, -29.52.+-.0.02 .Salinity.m and cornstarch A,
-11.01.+-.0.02.Salinity.) which have been carefully calibrated to
the VPDB scale by off-line combustion and dual-inlet analysis using
the 2-standard approach of T. B. Coplen et al, New Guidelines for
.delta..sup.13C Measurements, Anal. Chem., 78, 2439-2441 (2006).
The teachings of Coplen are incorporated herein by reference for
the purpose of teaching the technique for determining
.delta..sup.13C values.
[1016] U.S. Provisional Patent Application No. 61/133,521 filed on
Jun. 30, 2008 and WO 2010/05525 A1 list .delta..sup.13C values for
feedstock and polymers of isoprene derived from various sources,
including ones listed in Table 20.
TABLE-US-00042 TABLE 20 Sample .delta..sup.13C Palm oil -30.00
Yeast extract -25.70 Commercial polyisoprene from extractive
distillation -23.83 Sugar from softwood pulp -23.00 Polyisoprene
from Isoprene Sample B (emulsion polymerization) -19.67 Invert
Sugar -15.37 Polyisoprene from Isoprene Sample A (Neodymium
catalyst) -14.85 Glucose from bagasse -13.00 Glucose from corn
stover -11.20 Cornstarch -11.10 Glucose -10.73
Example 32
Exemplary Fuel Properties
[1017] Table 21 lists fuel properties of certain compounds that can
be made from isoprene using methods described herein.
TABLE-US-00043 TABLE 21 Vapor Lower Higher Boiling pressure
.DELTA.Hc Heating Heating MW point Density (Torr, (kcal/ Value
Value Octane Formula (g/mol) (.degree. C.) (g/cm.sup.3) 25.degree.
C.)* mol) (kBtu/gal) (kBtu/gal) (Cetane) .alpha.-Limonene
C.sub.10H.sub.16 ##STR00020## 136.23 177 0.8477 1.54 1474 130.6
137.9 88 1-Methyl-4- isopropylcyclo- hexane C.sub.10H.sub.20
##STR00021## 140.27 170.2 0.8060 2.16 1561 126.5 134.9 75
2,7-dimethyl- ,(4E)- 2,4,6- Octatriene C.sub.10H.sub.16
##STR00022## 136.23 186.4* 0.782 0.915 1481 121.1 127.8 110
2,7-dimethyl- octane C.sub.10H.sub.22 ##STR00023## 142.28 160 0.728
3.35 1620 116.5 124.7 97 3,7-dimethyl- 1,5 cyclo- octadiene
C.sub.10H.sub.16 ##STR00024## 136.23 182.7* 0.860 1.09 1490 134.0
141.4 95 1,5- Dimethylcyclo- octene (BIF-10) C.sub.10H.sub.18
##STR00025## 138.25 178.5* 0.830 1.33 1545 131.6 139.4 90 1,5-
Dimethylcyclo- octane C.sub.10H.sub.20 ##STR00026## 140.27 158.5
0.800 1.39 1560 125.4 133.8 85 2,6,11- Trimethyldo- decane
C.sub.15H.sub.32 ##STR00027## 212.41 247.8* 0.766 0.0396 2400 121.7
130.1 (65) Cyclododecane, 1,4,8-trimethyl C.sub.15H.sub.30
##STR00028## 210.40 278.0* 0.850 7.38E-3 2380 135.7 144.6 (40)
BIF-15 C.sub.15H.sub.31.5 3:1 mixture of linear and cyclic C15
211.9 255.4 0.787 0.0315 2395 125.2 133.7 (58.8)
[1018] The headings provided herein are not limitations of the
various aspects or embodiments of the invention which can be had by
reference to the specification as a whole.
[1019] All publications, patent applications, and patents cited in
this specification are herein incorporated by reference as if each
individual publication, patent application, or patent were
specifically and individually indicated to be incorporated by
reference. In particular, all publications cited herein are
expressly incorporated herein by reference for the purpose of
describing and disclosing compositions and methodologies which
might be used in connection with the invention. Although the
foregoing invention has been described in some detail by way of
illustration and example for purposes of clarity of understanding,
it will be readily apparent to those of ordinary skill in the art
in light of the teachings of this invention that certain changes
and modifications may be made thereto without departing from the
spirit or scope of the appended claims.
TABLE-US-00044 APPENDIX 1 Exemplary 1-deoxy-D-xylulose-5-phosphate
synthase nucleic acids and polypeptides ATH: AT3G21500(DXPS1)
AT4G15560(CLA1) HIQ: CGSHiGG_01080 AT5G11380(DXPS3) HDU:
HD0441(dxs) OSA: 4338768 4340090 4342614 HSO: HS_0905(dxs) CME:
CMF089C PMU: PM0532(dxs) PFA: MAL13P1.186 MSU: MS1059(dxs) TAN:
TA20470 APL: APL_0207(dxs) TPV: TP01_0516 XFA: XF2249 ECO:
b0420(dxs) XFT: PD1293(dxs) ECJ: JW0410(dxs) XCC: XCC2434(dxs) ECE:
Z0523(dxs) XCB: XC_1678 ECS: ECs0474 XCV: XCV2764(dxs) ECC:
c0531(dxs) XAC: XAC2565(dxs) ECI: UTI89_C0443(dxs) XOO:
XOO2017(dxs) ECP: ECP_0479 XOM: XOO_1900(XOO1900) ECV:
APECO1_1590(dxs) VCH: VC0889 ECW: EcE24377A_0451(dxs) VVU: VV1_0315
ECX: EcHS_A0491 VVY: VV0868 STY: STY0461(dxs) VPA: VP0686 STT:
t2441(dxs) VFI: VF0711 SPT: SPA2301(dxs) PPR: PBPRA0805 SEC:
SC0463(dxs) PAE: PA4044(dxs) STM: STM0422(dxs) PAU: PA14_11550(dxs)
YPE: YPO3177(dxs) PAP: PSPA7_1057(dxs) YPK: y1008(dxs) PPU:
PP_0527(dxs) YPM: YP_0754(dxs) PST: PSPTO_0698(dxs) YPA: YPA_2671
PSB: Psyr_0604 YPN: YPN_0911 PSP: PSPPH_0599(dxs) YPP: YPDSF_2812
PFL: PFL_5510(dxs) YPS: YPTB0939(dxs) PFO: Pfl_5007 YPI:
YpsIP31758_3112(dxs) PEN: PSEEN0600(dxs) SFL: SF0357(dxs) PMY:
Pmen_3844 SFX: S0365(dxs) PAR: Psyc_0221(dxs) SFV: SFV_0385(dxs)
PCR: Pcryo_0245 SSN: SSON_0397(dxs) ACI: ACIAD3247(dxs) SBO:
SBO_0314(dxs) SON: SO_1525(dxs) SDY: SDY_0310(dxs) SDN: Sden_2571
ECA: ECA1131(dxs) SFR: Sfri_2790 PLU: plu3887(dxs) SAZ: Sama_2436
BUC: BU464(dxs) SBL: Sbal_1357 BAS: BUsg448(dxs) SLO: Shew_2771
WBR: WGLp144(dxs) SHE: Shewmr4_2731 SGL: SG0656 SHM: Shewmr7_2804
KPN: KPN_00372(dxs) SHN: Shewana3_2901 BFL: Bfl238(dxs) SHW:
Sputw3181_2831 BPN: BPEN_244(dxs) ILO: IL2138(dxs) HIN: HI1439(dxs)
CPS: CPS_1088(dxs) HIT: NTHI1691(dxs) PHA: PSHAa2366(dxs) HIP:
CGSHiEE_04795 PAT: Patl_1319 SDE: Sde_3381 HAR: HEAR0279(dxs) PIN:
Ping_2240 MMS: mma_0331 MAQ: Maqu_2438 NEU: NE1161(dxs) MCA:
MCA0817(dxs) NET: Neut_1501 FTU: FTT1018c(dxs) NMU: Nmul_A0236 FTF:
FTF1018c(dxs) EBA: ebA4439(dxs) FTW: FTW_0925(dxs) AZO:
azo1198(dxs) FTL: FTL_1072 DAR: Daro_3061 FTH: FTH_1047(dxs) TBD:
Tbd_0879 FTA: FTA_1131(dxs) MFA: Mfla_2133 FTN: FTN_0896(dxs) HPY:
HP0354(dxs) NOC: Noc_1743 HPJ: jhp0328(dxs) AEH: Mlg_1381 HPA:
HPAG1_0349 HCH: HCH_05866(dxs) HHE: HH0608(dxs) CSA: Csal_0099 HAC:
Hac_0968(dxs) ABO: ABO_2166(dxs) WSU: WS1996 AHA: AHA_3321(dxs)
TDN: Tmden_0475 BCI: BCI_0275(dxs) CJE: Cj0321(dxs) RMA: Rmag_0386
CJR: CJE0366(dxs) VOK: COSY_0360(dxs) CJJ: CJJ81176_0343(dxs) NME:
NMB1867 CJU: C8J_0298(dxs) NMA: NMA0589(dxs) CJD:
JJD26997_1642(dxs) NMC: NMC0352(dxs) CFF: CFF8240_0264(dxs) NGO:
NGO0036 CCV: CCV52592_1671(dxs) CCV52592_1722 CVI: CV_2692(dxs)
CHA: CHAB381_1297(dxs) RSO: RSc2221(dxs) CCO: CCC13826_1594(dxs)
REU: Reut_A0882 ABU: Abu_2139(dxs) REH: H16_A2732(dxs) NIS:
NIS_0391(dxs) RME: Rmet_2615 SUN: SUN_2055(dxs) BMA: BMAA0330(dxs)
GSU: GSU0686(dxs-1) GSU1764(dxs-2) BMV: BMASAVP1_1512(dxs) GME:
Gmet_1934 Gmet_2822 BML: BMA10299_1706(dxs) PCA: Pcar_1667 BMN:
BMA10247_A0364(dxs) PPD: Ppro_1191 Ppro_2403 BXE: Bxe_B2827 DVU:
DVU1350(dxs) BUR: Bcep18194_B2211 DVL: Dvul_1718 BCN: Bcen_4486
DDE: Dde_2200 BCH: Bcen2424_3879 LIP: LI0408(dsx) BAM: Bamb_3250
DPS: DP2700 BPS: BPSS1762(dxs) ADE: Adeh_1097 BPM:
BURPS1710b_A0842(dxs) MXA: MXAN_4643(dxs) BPL:
BURPS1106A_A2392(dxs) SAT: SYN_02456 BPD: BURPS668_A2534(dxs) SFU:
Sfum_1418 BTE: BTH_II0614(dxs) PUB: SAR11_0611(dxs) BPE:
BP2798(dxs) MLO: mlr7474 BPA: BPP2464(dxs) MES: Meso_0735 BBR:
BB1912(dxs) SME: SMc00972(dxs) RFR: Rfer_2875 ATU: Atu0745(dxs)
POL: Bpro_1747 ATC: AGR_C_1351 PNA: Pnap_1501 RET: RHE_CH00913(dxs)
AJS: Ajs_1038 RLE: RL0973(dxs) MPT: Mpe_A2631 BME: BMEI1498 BMF:
BAB1_0462(dxs) GKA: GK2392 BMS: BR0436(dxs) GTN: GTNG_2322 BMB:
BruAb1_0458(dxs) LMO: lmo1365(tktB) BOV: BOV_0443(dxs) LMF:
LMOf2365_1382(dxs) BJA: bll2651(dxs) LIN: lin1402(tktB) BRA:
BRADO2161(dxs) LWE: lwe1380(tktB) BBT: BBta_2479(dxs) LLA:
L108911(dxsA) L123365(dxsB) RPA: RPA0952(dxs) LLC: LACR_1572
LACR_1843 RPB: RPB_4460 LLM: llmg_0749(dxsB) RPC: RPC_1149 SAK:
SAK_0263 RPD: RPD_4305 LPL: lp_2610(dxs) RPE: RPE_1067 LJO: LJ0406
NWI: Nwi_0633 LAC: LBA0356 NHA: Nham_0778 LSL: LSL_0209(dxs) BHE:
BH04350(dxs) LGA: LGAS_0350 BQU: BQ03540(dxs) STH: STH1842 BBK:
BARBAKC583_0400(dxs) CAC: CAC2077 CA_P0106(dxs) CCR: CC_2068 CPE:
CPE1819 SIL: SPO0247(dxs) CPF: CPF_2073(dxs) SIT: TM1040_2920 CPR:
CPR_1787(dxs) RSP: RSP_0254(dxsA) RSP_1134(dxs) CTC: CTC01575 JAN:
Jann_0088 Jann_0170 CNO: NT01CX_1983 RDE: RD1_0101(dxs)
RD1_0548(dxs) CTH: Cthe_0828 MMR: Mmar10_0849 CDF: CD1207(dxs) HNE:
HNE_1838(dxs) CBO: CBO1881(dxs) ZMO: ZMO1234(dxs) ZMO1598(dxs) CBA:
CLB_1818(dxs) NAR: Saro_0161 CBH: CLC_1825(dxs) SAL: Sala_2354 CBF:
CLI_1945(dxs) ELI: ELI_12520 CKL: CKL_1231(dxs) GOX: GOX0252 CHY:
CHY_1985(dxs) GBE: GbCGDNIH1_0221 GbCGDNIH1_2404 DSY: DSY2348 RRU:
Rru_A0054 Rru_A2619 DRM: Dred_1078 MAG: amb2904 PTH: PTH_1196(dxs)
MGM: Mmc1_1048 SWO: Swol_0582 SUS: Acid_1783 CSC: Csac_1853 BSU:
BG11715(dxs) TTE: TTE1298(dxs) BHA: BH2779 MTA: Moth_1511 BAN:
BA4400(dxs) MPE: MYPE730 BAR: GBAA4400(dxs) MGA: MGA_1268(dxs) BAA:
BA_4853 MTU: Rv2682c(dxs1) Rv3379c(dxs2) BAT: BAS4081 MTC:
MT2756(dxs) BCE: BC4176(dxs) MBO: Mb2701c(dxs1) Mb3413c(dxs2) BCA:
BCE_4249(dxs) MLE: ML1038(dxs) BCZ: BCZK3930(dxs) MPA:
MAP2803c(dxs) BTK: BT9727_3919(dxs) MAV: MAV_3577(dxs) BTL:
BALH_3785(dxs) MSM: MSMEG_2776(dxs) BLI: BL01523(dxs) MMC:
Mmcs_2208 BLD: BLi02598(dxs) CGL: NCgl1827(cgl1902) BCL:
ABC2462(dxs) CGB: cg2083(dxs) BAY: RBAM_022600 CEF: CE1796 BPU:
BPUM_2159 CDI: DIP1397(dxs) CJK: jk1078(dxs) AVA: Ava_4532 NFA:
nfa37410(dxs) PMA: Pro0928(dxs) RHA: RHA1_ro06843 PMM: PMM0907(Dxs)
SCO: SCO6013(SC1C3.01) SCO6768(SC6A5.17) PMT: PMT0685(dxs) SMA:
SAV1646(dxs1) SAV2244(dxs2) PMN: PMN2A_0300 TWH: TWT484 PMI:
PMT9312_0893 TWS: TW280(Dxs) PMB: A9601_09541(dxs) LXX:
Lxx10450(dxs) PMC: P9515_09901(dxs) CMI: CMM_1660(dxsA) PMF:
P9303_15371(dxs) AAU: AAur_1790(dxs) PMG: P9301_09521(dxs) PAC:
PPA1062 PMH: P9215_09851 TFU: Tfu_1917 PMJ: P9211_08521 FRA:
Francci3_1326 PME: NATL1_09721(dxs) FAL: FRAAL2088(dxs) TER:
Tery_3042 ACE: Acel_1393 BTH: BT_1403 BT_4099 SEN: SACE_1815(dxs)
SACE_4351 BFR: BF0873 BF4306 BLO: BL1132(dxs) BFS: BF0796(dxs)
BF4114 BAD: BAD_0513(dxs) PGI: PG2217(dxs) FNU: FN1208 FN1464 CHU:
CHU_3643(dxs) RBA: RB2143(dxs) GFO: GFO_3470(dxs) CTR: CT331(dxs)
FPS: FP0279(dxs) CTA: CTA_0359(dxs) CTE: CT0337(dxs) CMU: TC0608
CPH: Cpha266_0671 CPN: CPn1060(tktB_2) PVI: Cvib_0498 CPA: CP0790
PLT: Plut_0450 CPJ: CPj1060(tktB_2) DET: DET0745(dxs) CPT: CpB1102
DEH: cbdb_A720(dxs) CCA: CCA00304(dxs) DRA: DR_1475 CAB:
CAB301(dxs) DGE: Dgeo_0994 CFE: CF0699(dxs) TTH: TTC1614 PCU:
pc0619(dxs) TTJ: TTHA0006 TPA: TP0824 AAE: aq_881 TDE: TDE1910(dxs)
TMA: TM1770 LIL: LA3285(dxs) PMO: Pmob_1001 LIC: LIC10863(dxs) LBJ:
LBJ_0917(dxs) LBL: LBL_0932(dxs) SYN: sll1945(dxs) SYW:
SYNW1292(Dxs) SYC: syc1087_c(dxs) SYF: Synpcc7942_0430 SYD:
Syncc9605_1430 SYE: Syncc9902_1069 SYG: sync_1410(dxs) SYR:
SynRCC307_1390(dxs) SYX: SynWH7803_1223(dxs) CYA: CYA_1701(dxs)
CYB: CYB_1983(dxs) TEL: tll0623 GVI: gll0194 ANA: alr0599 Exemplary
acetyl-CoA-acetyltransferase nucleic acids and polypeptides HSA:
38(ACAT1) 39(ACAT2) STM: STM3019(yqeF) PTR: 451528(ACAT1) SFL:
SF2854(yqeF) MCC: 707653(ACAT1) 708750(ACAT2) SFX: S3052(yqeF) MMU:
110446(Acat1) 110460(Acat2) SFV: SFV_2922(yqeF) RNO: 25014(Acat1)
SSN: SSON_2283(atoB) SSON_3004(yqeF) CFA: 484063(ACAT2)
489421(ACAT1) SBO: SBO_2736(yqeF) GGA: 418968(ACAT1)
421587(RCJMB04_34i5) ECA: ECA1282(atoB) XLA: 379569(MGC69098)
414622(MGC81403) ENT: Ent638_3299 414639(MGC81256) SPE: Spro_0592
444457(MGC83664) HIT: NTHI0932(atoB) XTR: 394562(acat2) XCC:
XCC1297(atoB) DRE: 30643(acat2) XCB: XC_2943 SPU: 759502(LOC759502)
XCV: XCV1401(thlA) DME: Dmel_CG10932 Dmel_CG9149 XAC: XAC1348(atoB)
CEL: T02G5.4 T02G5.7 T02G5.8(kat-1) XOO: XOO1881(atoB) ATH:
AT5G48230(ACAT2/EMB1276) XOM: XOO_1778(XOO1778) OSA: 4326136
4346520 VCH: VCA0690 CME: CMA042C CME087C VCO: VC0395_0630 SCE:
YPL028W(ERG10) VVU: VV2_0494 VV2_0741 AGO: AGOS_ADR165C VVY:
VVA1043 VVA1210 PIC: PICST_31707(ERG10) VPA: VPA0620 VPA1123
VPA1204 CAL: CaO19.1591(erg10) PPR: PBPRB1112 PBPRB1840 CGR:
CAGL0L12364g PAE: PA2001(atoB) PA2553 PA3454 PA3589 SPO:
SPBC215.09c PA3925 MGR: MGG_01755 MGG_13499 PAU: PA14_38630(atoB)
ANI: AN1409.2 PPU: PP_2051(atoB) PP_2215(fadAx) PP_3754 AFM:
AFUA_6G14200 AFUA_8G04000 PP_4636 AOR: AO090103000012
AO090103000406 PPF: Pput_2009 Pput_2403 Pput_3523 Pput_4498 CNE:
CNC05280 PST: PSPTO_0957(phbA-1) PSPTO_3164(phbA-2) UMA: UM03571.1
PSB: Psyr_0824 Psyr_3031 DDI: DDB_0231621 PSP: PSPPH_0850(phbA1)
PSPPH_2209(phbA2) PFA: PF14_0484 PFL: PFL_1478(atoB-2) PFL_2321
PFL_3066 TET: TTHERM_00091590 TTHERM_00277470 PFL_4330(atoB-2)
PFL_5283 TTHERM_00926980 PFO: Pfl_1269 Pfl_1739 Pfl_2074 Pfl_2868
TCR: 511003.60 PEN: PSEEN3197 PSEEN3547(fadAx) ECO: b2224(atoB)
PSEEN4635(phbA) ECJ: JW2218(atoB) JW5453(yqeF) PMY: Pmen_1138
Pmen_2036 Pmen_3597 ECE: Z4164(yqeF) Pmen_3662 Pmen_3820 ECS:
ECs3701 PAR: Psyc_0252 Psyc_1169 ECC: c2767(atoB) c3441(yqeF) PCR:
Pcryo_0278 Pcryo_1236 Pcryo_1260 ECI: UTI89_C2506(atoB)
UTI89_C3247(yqeF) PRW: PsycPRwf_2011 ECP: ECP_2268 ECP_2857 ACI:
ACIAD0694 ACIAD1612 ACIAD2516(atoB) ECV: APECO1_3662(yqeF)
APECO1_4335(atoB) SON: SO_1677(atoB)
APECO1_43352(atoB) SDN: Sden_1943 ECX: EcHS_A2365 SFR: Sfri_1338
Sfri_2063 STY: STY3164(yqeF) SAZ: Sama_1375 STT: t2929(yqeF) SBL:
Sbal_1495 SPT: SPA2886(yqeF) SBM: Shew185_1489 SEC: SC2958(yqeF)
SBN: Sbal195_1525 SLO: Shew_1667 Shew_2858 BXE: Bxe_A2273 Bxe_A2335
Bxe_A2342 SPC: Sputcn32_1397 Bxe_A4255 Bxe_B0377 Bxe_B0739 SSE:
Ssed_1473 Ssed_3533 Bxe_C0332 Bxe_C0574 Bxe_C0915 SPL: Spea_2783
BVI: Bcep1808_0519 Bcep1808_1717 SHE: Shewmr4_2597 Bcep1808_2877
Bcep1808_3594 SHM: Shewmr7_2664 Bcep1808_4015 Bcep1808_5507
Bcep1808_5644 SHN: Shewana3_2771 BUR: Bcep18194_A3629
Bcep18194_A5080 SHW: Sputw3181_2704 Bcep18194_A5091 ILO: IL0872
Bcep18194_A6102 Bcep18194_B0263 CPS: CPS_1605 CPS_2626
Bcep18194_B1439 PHA: PSHAa0908 PSHAa1454(atoB) Bcep18194_C6652
Bcep18194_C6802 PSHAa1586(atoB) Bcep18194_C6874 PAT: Patl_2923
Bcep18194_C7118 Bcep18194_C7151 SDE: Sde_3149 Bcep18194_C7332 PIN:
Ping_0659 Ping_2401 BCN: Bcen_1553 Bcen_1599 Bcen_2158 Bcen_2563
MAQ: Maqu_2117 Maqu_2489 Maqu_2696 Bcen_2998 Bcen_6289 Maqu_3162
BCH: Bcen2424_0542 Bcen2424_1790 CBU: CBU_0974 Bcen2424_2772
Bcen2424_5368 LPN: lpg1825(atoB) Bcen2424_6232 Bcen2424_6276 LPF:
lpl1789 BAM: Bamb_0447 Bamb_1728 Bamb_2824 LPP: lpp1788 Bamb_4717
Bamb_5771 Bamb_5969 NOC: Noc_1891 BPS: BPSL1426 BPSL1535(phbA)
BPSL1540 AEH: Mlg_0688 Mlg_2706 BPM: BURPS1710b_2325(bktB) HHA:
Hhal_1685 BURPS1710b_2330(phbA) HCH: HCH_05299
BURPS1710b_2453(atoB-2) CSA: Csal_0301 Csal_3068 BPL:
BURPS1106A_2197(bktB) ABO: ABO_0648(fadAx) BURPS1106A_2202(phbA)
MMW: Mmwyl1_0073 Mmwyl1_3021 Mmwyl1_3053 BPD: BURPS668_2160(bktB)
BURPS668_2165(phbA) Mmwyl1_3097 Mmwyl1_4182 BTE: BTH_I2144
BTH_I2256 BTH_I2261 AHA: AHA_2143(atoB) PNU: Pnuc_0927 CVI:
CV_2088(atoB) CV_2790(phaA) BPE: BP0447 BP0668 BP2059 RSO:
RSc0276(atoB) RSc1632(phbA) RSc1637(bktB) BPA: BPP0608 BPP1744
BPP3805 BPP4216 RSc1761(RS02948) BPP4361 REU: Reut_A0138 Reut_A1348
Reut_A1353 BBR: BB0614 BB3364 BB4250 BB4804 BB4947 Reut_B4561
Reut_B4738 RFR: Rfer_0272 Rfer_1000 Rfer_1871 Rfer_2273 Reut_B5587
Reut_C5943 Reut_C6062 Rfer_2561 Rfer_2594 REH: H16_A0170 H16_A0867
H16_A0868 Rfer_3839 H16_A0872 H16_A1297 POL: Bpro_1577 Bpro_2140
Bpro_3113 Bpro_4187 H16_A1438(phaA) H16_A1445(bktB) H16_A1528 PNA:
Pnap_0060 Pnap_0458 Pnap_0867 Pnap_1159 H16_A1713 H16_A1720
Pnap_2136 Pnap_2804 H16_A1887 H16_A2148 H16_B0380 H16_B0381 AAV:
Aave_0031 Aave_2478 Aave_3944 Aave_4368 H16_B0406 H16_B0662 AJS:
Ajs_0014 Ajs_0124 Ajs_1931 Ajs_2073 H16_B0668 H16_B0759 H16_B1369
H16_B1771 Ajs_2317 Ajs_3548 RME: Rmet_0106 Rmet_1357 Rmet_1362
Rmet_5156 Ajs_3738 Ajs_3776 BMA: BMA1316 BMA1321(phbA) BMA1436 VEI:
Veis_1331 Veis_3818 Veis_4193 BMV: BMASAVP1_A1805(bktB) DAC:
Daci_0025 Daci_0192 Daci_3601 Daci_5988 BMASAVP1_A1810(phbA) MPT:
Mpe_A1536 Mpe_A1776 Mpe_A1869 BML: BMA10299_A0086(phbA)
BMA10299_A0091 Mpe_A3367 BMN: BMA10247_1076(bktB) HAR:
HEAR0577(phbA) BMA10247_1081(phbA) MMS: mma_0555 NEU: NE2262(bktB)
NET: Neut_0610 RPC: RPC_0504 RPC_0636 RPC_0641 RPC_0832 EBA:
ebA5202 p2A409(tioL) RPC_1050 RPC_2005 AZO: azo0464(fadA1)
azo0469(fadA2) azo2172(thlA) RPC_2194 RPC_2228 DAR: Daro_0098
Daro_3022 RPD: RPD_0306 RPD_0320 RPD_3105 RPD_3306 HPA: HPAG1_0675
RPE: RPE_0168 RPE_0248 RPE_3827 HAC: Hac_0958(atoB) NWI: Nwi_3060
GME: Gmet_1719 Gmet_2074 Gmet_2213 XAU: Xaut_3108 Xaut_4665
Gmet_2268 Gmet_3302 CCR: CC_0510 CC_0894 CC_3462 GUR: Gura_3043
SIL: SPO0142(bktB) SPO0326(phbA) SPO0773 BBA: Bd0404(atoB) Bd2095
SPO3408 DOL: Dole_0671 Dole_1778 Dole_2160 Dole_2187 SIT:
TM1040_0067 TM1040_2790 TM1040_3026 ADE: Adeh_0062 Adeh_2365
TM1040_3735 AFW: Anae109_0064 Anae109_1504 RSP: RSP_0745 RSP_1354
RSP_3184 MXA: MXAN_3791 RSH: Rsph17029_0022 Rsph17029_2401 SAT:
SYN_02642 Rsph17029_3179 Rsph17029_3921 SFU: Sfum_2280 Sfum_3582
RSQ: Rsph17025_0012 Rsph17025_2466 RPR: RP737 Rsph17025_2833 RCO:
RC1134 RC1135 JAN: Jann_0262 Jann_0493 Jann_4050 RFE: RF_0163(paaJ)
RDE: RD1_0025 RD1_0201(bktB) RD1_3394(phbA) RBE: RBE_0139(paaJ)
PDE: Pden_2026 Pden_2663 Pden_2870 Pden_2907 RAK: A1C_05820
Pden_4811 Pden_5022 RBO: A1I_07215 DSH: Dshi_0074 Dshi_3066
Dshi_3331 RCM: A1E_04760 MMR: Mmar10_0697 PUB: SAR11_0428(thlA)
HNE: HNE_2706 HNE_3065 HNE_3133 MLO: mlr3847 NAR: Saro_0809
Saro_1069 Saro_1222 Saro_2306 MES: Meso_3374 Saro_2349 PLA:
Plav_1573 Plav_2783 SAL: Sala_0781 Sala_1244 Sala_2896 Sala_3158
SME: SMa1450 SMc03879(phbA) SWI: Swit_0632 Swit_0752 Swit_2893
Swit_3602 SMD: Smed_0499 Smed_3117 Smed_5094 Swit_4887 Swit_5019
Smed_5096 Swit_5309 ATU: Atu2769(atoB) Atu3475 ELI: ELI_01475
ELI_06705 ELI_12035 ATC: AGR_C_5022(phbA) AGR_L_2713 GBE:
GbCGDNIH1_0447 RET: RHE_CH04018(phbAch) ACR: Acry_1847 Acry_2256
RHE_PC00068(ypc00040) RHE_PF00014(phbAf) RRU: Rru_A0274 Rru_A1380
Rru_A1469 Rru_A1946 RLE: RL4621(phaA) pRL100301 pRL120369 Rru_A3387
BME: BMEI0274 BMEII0817 MAG: amb0842 BMF: BAB1_1783(phbA-1)
BAB2_0790(phbA-2) MGM: Mmc1_1165 BMS: BR1772(phbA-1)
BRA0448(phbA-2) ABA: Acid345_3239 BMB: BruAb1_1756(phbA-1)
BruAb2_0774(phbA-2) BSU: BG11319(mmgA) BG13063(yhfS) BOV:
BOV_1707(phbA-1) BHA: BH1997 BH2029 BH3801(mmgA) OAN: Oant_1130
Oant_3107 Oant_3718 Oant_4020 BAN: BA3687 BA4240 BA5589 BJA:
bll0226(atoB) bll3949 bll7400 bll7819 BAR: GBAA3687 GBAA4240
GBAA5589 blr3724(phbA) BAA: BA_0445 BA_4172 BA_4700 BRA:
BRADO0562(phbA) BRADO0983(pimB) BAT: BAS3418 BAS3932 BAS5193
BRADO3110 BRADO3134(atoB) BCE: BC3627 BC4023 BC5344 BBT: BBta_3558
BBta_3575(atoB) BBta_5147(pimB) BCA: BCE_3646 BCE_4076 BCE_5475
BBta_7072(pimB) BCZ: BCZK3329(mmgA) BCZK3780(thl) BBta_7614(phbA)
BCZK5044(atoB) RPA: RPA0513(pcaF) RPA0531 RPA3715(pimB) BCY:
Bcer98_2722 Bcer98_3865 RPB: RPB_0509 RPB_0525 RPB_1748 BTK:
BT9727_3379(mmgA) BT9727_3765(thl) BTL: BALH_3262(mmgA)
BALH_3642(fadA) BT9727_5028(atoB) BALH_4843(atoB) LJO: LJ1609 BLI:
BL03925(mmgA) LAC: LBA0626(thiL) BLD: BLi03968(mmgA) LSA: LSA1486
BCL: ABC0345 ABC2989 ABC3617 LDB: Ldb0879 ABC3891(mmgA) LBU:
LBUL_0804 BAY: RBAM_022450 LBR: LVIS_2218 BPU: BPUM_2374(yhfS)
BPUM_2941 BPUM_3373 LCA: LSEI_1787 OIH: OB0676 OB0689 OB2632 OB3013
LGA: LGAS_1374 GKA: GK1658 GK3397 LRE: Lreu_0052 SAU: SA0342
SA0534(vraB) EFA: EF1364 SAV: SAV0354 SAV0576(vraB) OOE: OEOE_0529
SAM: MW0330 MW0531(vraB) STH: STH2913 STH725 STH804 SAR:
SAR0351(thl) SAR0581 CAC: CAC2873 CA_P0078(thiL) SAS: SAS0330
SAS0534 CPE: CPE2195(atoB) SAC: SACOL0426 SACOL0622(atoB) CPF:
CPF_2460 SAB: SAB0304(th1) SAB0526 CPR: CPR_2170 SAA: SAUSA300_0355
SAUSA300_0560(vraB) CTC: CTC00312 SAO: SAOUHSC_00336 SAOUHSC_00558
CNO: NT01CX_0538 NT01CX_0603 SAJ: SaurJH9_0402 CDF: CD1059(thlA1)
CD2676(thlA2) SAH: SaurJH1_0412 CBO: CBO3200(thl) SEP: SE0346
SE2384 CBE: Cbei_0411 Cbei_3630 SER: SERP0032 SERP0220 CKL:
CKL_3696(thlA1) CKL_3697(thlA2) SHA: SH0510(mvaC) SH2417
CKL_3698(thlA3) SSP: SSP0325 SSP2145 AMT: Amet_4630 LMO: lmo1414
AOE: Clos_0084 Clos_0258 LMF: LMOf2365_1433 CHY: CHY_1288
CHY_1355(atoB) CHY_1604 LIN: lin1453 CHY_1738 LWE: lwe1431 DSY:
DSY0632 DSY0639 DSY1567 DSY1710 LLA: L11745(thiL) L25946(fadA)
DSY2402 DSY3302 LLC: LACR_1665 LACR_1956 DRM: Dred_0400 Dred_1491
Dred_1784 Dred_1892 LLM: llmg_0930(thiL) SWO: Swol_0308 Swol_0675
Swol_0789 Swol_1486 SPY: SPy_0140 SPy_1637(atoB) Swol_1934
Swol_2051 SPZ: M5005_Spy_0119 M5005_Spy_0432 TTE: TTE0549(paaJ)
M5005_Spy_1344(atoB) MTA: Moth_1260 SPM: spyM18_0136
spyM18_1645(atoB) MTU: Rv1135A Rv1323(fadA4) Rv3546(fadA5) SPG:
SpyM3_0108 SpyM3_1378(atoB) MTC: MT1365(phbA) SPS: SPs0110 SPs0484
MBO: Mb1167 Mb1358(fadA4) Mb3576(fadA5) SPH: MGAS10270_Spy0121
MGAS10270_Spy0433 Mb3586c(fadA6) MGAS10270_Spy1461(atoB) MBB:
BCG_1197 BCG_1385(fadA4) SPI: MGAS10750_Spy0124 MGAS10750_Spy0452
BCG_3610(fadA5) BCG_3620c(fadA6) MGAS10750_Spy1453(atoB) MLE:
ML1158(fadA4) SPJ: MGAS2096_Spy0123 MGAS2096_Spy0451 MPA:
MAP2407c(fadA3) MAP2436c(fadA4) MGAS2096_Spy1365(atoB) MAV:
MAV_1544 MAV_1573 MAV_1863 SPK: MGAS9429_Spy0121 MGAS9429_Spy0431
MAV_5081 MGAS9429_Spy1339(atoB) MSM: MSMEG_2224 MSMEG_4920 SPF:
SpyM50447(atoB2) MUL: MUL_0357 SPA: M6_Spy0166 M6_Spy0466
M6_Spy1390 MVA: Mvan_1976 Mvan_1988 Mvan_4305 SPB: M28_Spy0117
M28_Spy0420 Mvan_4677 Mvan_4891 M28_Spy1385(atoB) MGI: Mflv_1347
Mflv_1484 Mflv_2040 Mflv_2340 SAK: SAK_0568 Mflv_4356 Mflv_4368
MMC: Mmcs_1758 Mmcs_1769 Mmcs_3796 FJO: Fjoh_4612 Mmcs_3864 FPS:
FP0770 FP1586 FP1725 MKM: Mkms_0251 Mkms_1540 Mkms_1805 RRS:
RoseRS_3911 RoseRS_4348 Mkms_1816 Mkms_2836 Mkms_3159 RCA:
Rcas_0702 Rcas_3206 Mkms_3286 Mkms_3869 Mkms_3938 Mkms_4227 HAU:
Haur_0522 Mkms_4411 Mkms_4580 DRA: DR_1072 DR_1428 DR_1960 DR_2480
Mkms_4724 Mkms_4764 Mkms_4776 DR_A0053 MJL: Mjls_0231 Mjls_1739
Mjls_1750 Mjls_2819 DGE: Dgeo_0755 Dgeo_1305 Dgeo_1441 Dgeo_1883
Mjls_3119 Mjls_3235 TTH: TTC0191 TTC0330 Mjls_3800 Mjls_3850
Mjls_4110 Mjls_4383 TTJ: TTHA0559 Mjls_4705 Mjls_4876 TME:
Tmel_1134 Mjls_5018 Mjls_5063 Mjls_5075 FNO: Fnod_0314 CGL:
NCgl2309(cgl2392) PMO: Pmob_0515 CGB: cg2625(pcaF) HMA:
rrnAC0896(acaB3) rrnAC2815(aca2) CEF: CE0731 CE2295 rrnAC3497(yqeF)
CJK: jk1543(fadA3) rrnB0240(aca1) rrnB0242(acaB2) rrnB0309(acaB1)
NFA: nfa10750(fadA4) TAC: Ta0582 RHA: RHA1_ro01455 RHA1_ro01623
TVO: TVN0649 RHA1_ro01876 RHA1_ro02517(catF) PTO: PTO1505
RHA1_ro03022 RHA1_ro03024 RHA1_ro03391 APE: APE_2108 RHA1_ro03892
SSO: SSO2377(acaB-4) RHA1_ro04599 RHA1_ro05257 RHA1_ro08871 STO:
ST0514 SCO: SCO5399(SC8F4.03) SAI: Saci_0963 Saci_1361(acaB1) SMA:
SAV1384(fadA5) SAV2856(fadA1) MSE: Msed_0656 ART: Arth_1160
Arth_2986 Arth_3268 Arth_4073 PAI: PAE1220 NCA: Noca_1371 Noca_1797
Noca_1828 Noca_2764 PIS: Pisl_0029 Pisl_1301 Noca_4142 PCL:
Pcal_0781 TFU: Tfu_1520 Tfu_2394 PAS: Pars_0309 Pars_1071 FRA:
Francci3_3687 CMA: Cmaq_1941 FRE: Franean1_1044 Franean1_2711
Franean1_2726 Franean1_3929 Franean1_4037 Franean1_4577 FAL:
FRAAL2514 FRAAL2618 FRAAL5910(atoB) ACE: Acel_0626 Acel_0672 SEN:
SACE_1192(mmgA) SACE_2736(fadA6) SACE_4011(catF) SACE_6236(fadA4)
STP: Strop_3610 SAQ: Sare_1316 Sare_3991 RXY: Rxyl_1582 Rxyl_1842
Rxyl_2389 Rxyl_2530 FNU: FN0495 BGA: BG0110(fadA) BAF:
BAPKO_0110(fadA) LIL: LA0457(thiL1) LA0828(thiL2) LA4139(fadA) LIC:
LIC10396(phbA) LBJ: LBJ_2862(paaJ-4) LBL: LBL_0209(paaJ-4) SYN:
slr1993(phaA) SRU: SRU_1211(atoB) SRU_1547 CHU: CHU_1910(atoB) GFO:
GFO_1507(atoB) Exemplary HMG-CoA synthase nucleic acids and
polypeptides HSA: 3157(HMGCS1) 3158(HMGCS2) MXA: MXAN_3948(tac)
MXAN_4267(mvaS) PTR: 457169(HMGCS2) 461892(HMGCS1) BSU:
BG10926(pksG) MCC: 702553(HMGCS1) 713541(HMGCS2) OIH: OB2248 MMU:
15360(Hmgcs2) 208715(Hmgcs1) SAU: SA2334(mvaS) RNO: 24450(Hmgcs2)
29637(Hmgcs1) SAV: SAV2546(mvaS) CFA: 479344(HMGCS1) 607923(HMGCS2)
SAM: MW2467(mvaS) BTA: 407767(HMGCS1) SAR: SAR2626(mvaS) SSC:
397673(CH242-38B5.1) SAS: SAS2432 GGA: 396379(HMGCS1) SAC:
SACOL2561 XLA: 380091(hmgcs1) 447204(MGC80816) SAB: SAB2420(mvaS)
DRE: 394060(hmgcs1) SAA: SAUSA300_2484 SPU: 578259(LOC578259) SAO:
SAOUHSC_02860 DME: Dmel_CG4311(Hmgs) SAJ: SaurJH9_2569 CEL: F25B4.6
SAH: SaurJH1_2622 ATH: AT4G11820(BAP1) SEP: SE2110 OSA: 4331418
4347614 SER: SERP2122 CME: CMM189C SHA: SH0508(mvaS) SCE:
YML126C(ERG13) SSP: SSP0324 AGO: AGOS_ADL356C LMO: lmo1415 PIC:
PICST_83020 LMF: LMOf2365_1434(mvaS) CAL: CaO19_7312(CaO19.7312)
LIN: lin1454 CGR: CAGL0H04081g LWE: lwe1432(mvaS) SPO:
SPAC4F8.14c(hcs) LLA: L13187(hmcM) MGR: MGG_01026 LLC: LACR_1666
ANI: AN4923.2 LLM: llmg_0929(hmcM) AFM: AFUA_3G10660 AFUA_8G07210
SPY: SPy_0881(mvaS.2) AOR: AO090003000611 AO090010000487 SPZ:
M5005_Spy_0687(mvaS.1) CNE: CNC05080 CNG02670 SPM:
spyM18_0942(mvaS2)
UMA: UM05362.1 SPG: SpyM3_0600(mvaS.2) ECU: ECU10_0510 SPS: SPs1253
DDI: DDBDRAFT_0217522 DDB_0219924(hgsA) SPH:
MGAS10270_Spy0745(mvaS1) TET: TTHERM_00691190 SPI:
MGAS10750_Spy0779(mvaS1) TBR: Tb927.8.6110 SPJ:
MGAS2096_Spy0759(mvaS1) YPE: YPO1457 SPK: MGAS9429_Spy0743(mvaS1)
YPK: y2712(pksG) SPF: SpyM51121(mvaS) YPM: YP_1349(pksG) SPA:
M6_Spy0704 YPA: YPA_0750 SPB: M28_Spy0667(mvaS.1) YPN: YPN_2521
SPN: SP_1727 YPP: YPDSF_1517 SPR: spr1571(mvaS) YPS: YPTB1475 SPD:
SPD_1537(mvaS) CBD: COXBU7E912_1931 SAG: SAG1316 TCX: Tcr_1719 SAN:
gbs1386 DNO: DNO_0799 SAK: SAK_1347 BMA: BMAA1212 SMU: SMU.943c
BPS: BPSS1002 STC: str0577(mvaS) BPM: BURPS1710b_A2613 STL:
stu0577(mvaS) BPL: BURPS1106A_A1384 STE: STER_0621 BPD:
BURPS668_A1470 SSA: SSA_0338(mvaS) BTE: BTH_II1670 SSU: SSU05_1641
SSV: SSU98_1652 OOE: OEOE_0968 SGO: SGO_0244 LME: LEUM_1184 LPL:
lp_2067(mvaS) NFA: nfa22120 LJO: LJ1607 SEN: SACE_4570(pksG) LAC:
LBA0628(hmcS) BBU: BB0683 LSA: LSA1484(mvaS) BGA: BG0706 LSL:
LSL_0526 BAF: BAPKO_0727 LDB: Ldb0881(mvaS) FJO: Fjoh_0678 LBU:
LBUL_0806 HAL: VNG1615G(mvaB) LBR: LVIS_1363 HMA: rrnAC1740(mvaS)
LCA: LSEI_1785 HWA: HQ2868A(mvaB) LGA: LGAS_1372 NPH:
NP2608A(mvaB_1) NP4836A(mvaB_2) LRE: Lreu_0676 PPE: PEPE_0868 EFA:
EF1363 Exemplary hydroxymethylglutaryl-CoA reductase nucleic acids
and polypeptides HSA: 3156(HMGCR) PAT: Patl_0427 PTR: 471516(HMGCR)
CBU: CBU_0030 CBU_0610 MCC: 705479(HMGCR) CBD: COXBU7E912_0151 MMU:
15357(Hmgcr) COXBU7E912_0622(hmgA) RNO: 25675(Hmgcr) TCX: Tcr_1717
CFA: 479182(HMGCR) DNO: DNO_0797 BTA: 407159(HMGCR) CVI: CV_1806
GGA: 395145(RCJMB04_14m24) SUS: Acid_5728 Acid_6132 SPU:
373355(LOC373355) SAU: SA2333(mvaA) DME: Dmel_CG10367(Hmgcr) SAV:
SAV2545(mvaA) CEL: F08F8.2 SAM: MW2466(mvaA) OSA: 4347443 SAB:
SAB2419c(mvaA) SCE: YLR450W(HMG2) YML075C(HMG1) SEP: SE2109 AGO:
AGOS_AER152W LWE: lwe0819(mvaA) CGR: CAGL0L11506g LLA: L10433(mvaA)
SPO: SPCC162.09c(hmg1) LLC: LACR_1664 ANI: AN3817.2 LLM:
llmg_0931(mvaA) AFM: AFUA_1G11230 AFUA_2G03700 SPY:
SPy_0880(mvaS.1) AOR: AO090103000311 AO090120000217 SPM:
spyM18_0941(mvaS1) CNE: CNF04830 SPG: SpyM3_0599(mvaS.1) UMA:
UM03014.1 SPS: SPs1254 ECU: ECU10_1720 SPH: MGAS10270_Spy0744 DDI:
DDB_0191125(hmgA) DDB_0215357(hmgB) SPI: MGAS10750_Spy0778 TBR:
Tb927.6.4540 SPJ: MGAS2096_Spy0758 TCR: 506831.40 509167.20 SPK:
MGAS9429_Spy0742 LMA: LmjF30.3190 SPA: M6_Spy0703 VCH: VCA0723 SPN:
SP_1726 VCO: VC0395_0662 SAG: SAG1317 VVU: VV2_0117 SAN: gbs1387
VVY: VVA0625 STC: str0576(mvaA) VPA: VPA0968 STL: stu0576(mvaA)
VFI: VFA0841 STE: STER_0620 SSA: SSA_0337(mvaA) HAL: VNG1875G(mvaA)
LPL: lp_0447(mvaA) HMA: rrnAC3412(mvaA) LJO: LJ1608 HWA:
HQ3215A(hmgR) LSL: LSL_0224 NPH: NP0368A(mvaA_2) NP2422A(mvaA_1)
LBR: LVIS_0450 TAC: Ta0406m LGA: LGAS_1373 TVO: TVN1168 EFA: EF1364
PTO: PTO1143 NFA: nfa22110 PAB: PAB2106(mvaA) BGA: BG0708(mvaA)
PFU: PF1848 SRU: SRU_2422 TKO: TK0914 FPS: FP2341 RCI:
RCIX1027(hmgA) RCIX376(hmgA) MMP: MMP0087(hmgA) APE: APE_1869 MMQ:
MmarC5_1589 IHO: Igni_0476 MAC: MA3073(hmgA) HBU: Hbut_1531 MBA:
Mbar_A1972 SSO: SSO0531 MMA: MM_0335 STO: ST1352 MBU: Mbur_1098
SAI: Saci_1359 MHU: Mhun_3004 PAI: PAE2182 MEM: Memar_2365 PIS:
Pisl_0814 MBN: Mboo_0137 PCL: Pcal_1085 MTH: MTH562 PAS: Pars_0796
MST: Msp_0584(hmgA) MSI: Msm_0227 MKA: MK0355(HMG1) AFU:
AF1736(mvaA) Exemplary mevalonate kinase nucleic acids and
polypeptides HSA: 4598(MVK) TET: TTHERM_00637680 MCC: 707645(MVK)
TBR: Tb927.4.4070 MMU: 17855(Mvk) TCR: 436521.9 509237.10 RNO:
81727(Mvk) LMA: LmjF31.0560 CFA: 486309(MVK) CBU: CBU_0608 CBU_0609
BTA: 505792(MVK) CBD: COXBU7E912_0620(mvk) GGA: 768555(MVK) LPN:
lpg2039 DRE: 492477(zgc: 103473) LPF: lpl2017 SPU:
585785(LOC585785) LPP: lpp2022 DME: Dmel_CG33671 BBA: Bd1027(lmbP)
Bd1630(mvk) OSA: 4348331 MXA: MXAN_5019(mvk) SCE: YMR208W(ERG12)
OIH: OB0225 AGO: AGOS_AER335W SAU: SA0547(mvaK1) PIC:
PICST_40742(ERG12) SAV: SAV0590(mvaK1) CGR: CAGL0F03861g SAM:
MW0545(mvaK1) SPO: SPAC13G6.11c SAR: SAR0596(mvaK1) MGR: MGG_06946
SAS: SAS0549 ANI: AN3869.2 SAC: SACOL0636(mvk) AFM: AFUA_4G07780
SAB: SAB0540(mvaK1) AOR: AO090023000793 SAA: SAUSA300_0572(mvk)
CNE: CNK01740 SAO: SAOUHSC_00577 ECU: ECU09_1780 SEP: SE0361 DDI:
DDBDRAFT_0168621 SER: SERP0238(mvk) SHA: SH2402(mvaK1) LCA:
LSEI_1491 SSP: SSP2122 LGA: LGAS_1033 LMO: lmo0010 LRE: Lreu_0915
LMF: LMOf2365_0011 PPE: PEPE_0927 LIN: lin0010 EFA: EF0904(mvk)
LWE: lwe0011(mvk) OOE: OEOE_1100 LLA: L7866(yeaG) LME: LEUM_1385
LLC: LACR_0454 NFA: nfa22070 LLM: llmg_0425(mvk) BGA: BG0711 SPY:
SPy_0876(mvaK1) BAF: BAPKO_0732 SPZ: M5005_Spy_0682(mvaK1) FPS:
FP0313 SPM: spyM18_0937(mvaK1) MMP: MMP1335 SPG: SpyM3_0595(mvaK1)
MAE: Maeo_0775 SPS: SPs1258 MAC: MA0602(mvk) SPH:
MGAS10270_Spy0740(mvaK1) MBA: Mbar_A1421 SPI:
MGAS10750_Spy0774(mvaK1) MMA: MM_1762 SPJ: MGAS2096_Spy0753(mvaK1)
MBU: Mbur_2395 SPK: MGAS9429_Spy0737(mvaK1) MHU: Mhun_2890 SPF:
SpyM51126(mvaK1) MEM: Memar_1812 SPA: M6_Spy0699 MBN: Mboo_2213
SPB: M28_Spy0662(mvaK1) MST: Msp_0858(mvk) SPN: SP_0381 MSI:
Msm_1439 SPR: spr0338(mvk) MKA: MK0993(ERG12) SPD: SPD_0346(mvk)
HAL: VNG1145G(mvk) SAG: SAG1326 HMA: rrnAC0077(mvk) SAN: gbs1396
HWA: HQ2925A(mvk) SAK: SAK_1357(mvk) NPH: NP2850A(mvk) SMU: SMU.181
PTO: PTO1352 STC: str0559(mvaK1) PHO: PH1625 STL: stu0559(mvaK1)
PAB: PAB0372(mvk) STE: STER_0598 PFU: PF1637(mvk) SSA:
SSA_0333(mvaK1) TKO: TK1474 SSU: SSU05_0289 RCI: LRC399(mvk) SSV:
SSU98_0285 APE: APE_2439 SGO: SGO_0239(mvk) HBU: Hbut_0877 LPL:
lp_1735(mvaK1) SSO: SSO0383 LJO: LJ1205 STO: ST2185 LAC:
LBA1167(mvaK) SAI: Saci_2365(mvk) LSA: LSA0908(mvaK1) MSE:
Msed_1602 LSL: LSL_0685(eRG) PAI: PAE3108 LDB: Ldb0999(mvk) PIS:
Pisl_0467 LBU: LBUL_0906 PCL: Pcal_1835 LBR: LVIS_0858 Exemplary
phosphomevalonate kinase nucleic acids and polypeptides HSA:
10654(PMVK) CFA: 612251(PMVK) PTR: 457350(PMVK) BTA: 513533(PMVK)
MCC: 717014(PMVK) DME: Dmel_CG10268 MMU: 68603(Pmvk) ATH: AT1G31910
OSA: 4332275 SPS: SPs1256 SCE: YMR220W(ERG8) SPH:
MGAS10270_Spy0742(mvaK2) AGO: AGOS_AER354W SPI:
MGAS10750_Spy0776(mvaK2) PIC: PICST_52257(ERG8) SPJ:
MGAS2096_Spy0755(mvaK2) CGR: CAGL0F03993g SPK:
MGAS9429_Spy0739(mvaK2) SPO: SPAC343.01c SPF: SpyM51124(mvaK2) MGR:
MGG_05812 SPA: M6_Spy0701 ANI: AN2311.2 SPB: M28_Spy0664(mvaK2)
AFM: AFUA_5G10680 SPN: SP_0383 AOR: AO090010000471 SPR:
spr0340(mvaK2) CNE: CNM00100 SPD: SPD_0348(mvaK2) UMA: UM00760.1
SAG: SAG1324 DDI: DDBDRAFT_0184512 SAN: gbs1394 TBR: Tb09.160.3690
SAK: SAK_1355 TCR: 507913.20 508277.140 SMU: SMU.938 LMA:
LmjF15.1460 STC: str0561(mvaK2) MXA: MXAN_5017 STL: stu0561(mvaK2)
OIH: OB0227 STE: STER_0600 SAU: SA0549(mvaK2) SSA: SSA_0335(mvaK2)
SAV: SAV0592(mvaK2) SSU: SSU05_0291 SAM: MW0547(mvaK2) SSV:
SSU98_0287 SAR: SAR0598(mvaK2) SGO: SGO_0241 SAS: SAS0551 LPL:
lp_1733(mvaK2) SAC: SACOL0638 LJO: LJ1207 SAB: SAB0542(mvaK2) LAC:
LBA1169 SAA: SAUSA300_0574 LSA: LSA0906(mvaK2) SAO: SAOUHSC_00579
LSL: LSL_0683 SAJ: SaurJH9_0615 LDB: Ldb0997(mvaK) SEP: SE0363 LBU:
LBUL_0904 SER: SERP0240 LBR: LVIS_0860 SHA: SH2400(mvaK2) LCA:
LSEI_1092 SSP: SSP2120 LGA: LGAS_1035 LMO: lmo0012 LRE: Lreu_0913
LMF: LMOf2365_0013 PPE: PEPE_0925 LIN: lin0012 EFA: EF0902 LWE:
lwe0013 NFA: nfa22090 LLA: L10014(yebA) BGA: BG0710 LLC: LACR_0456
BAF: BAPKO_0731 LLM: llmg_0427 NPH: NP2852A SPY: SPy_0878(mvaK2)
SSO: SSO2988 SPZ: M5005_Spy_0684(mvaK2) STO: ST0978 SPM:
spyM18_0939 SAI: Saci_1244 SPG: SpyM3_0597(mvaK2) Exemplary
diphosphomevalonate decarboxylase nucleic acids and polypeptides
HSA: 4597(MVD) CFA: 489663(MVD) PTR: 468069(MVD) GGA: 425359(MVD)
MCC: 696865(MVD) DME: Dmel_CG8239 MMU: 192156(Mvd) SCE:
YNR043W(MVD1) RNO: 81726(Mvd) AGO: AGOS_AGL232C PIC: PICST_90752
SPH: MGAS10270_Spy0741(mvaD) CGR: CAGL0C03630g SPI:
MGAS10750_Spy0775(mvaD) SPO: SPAC24C9.03 SPJ:
MGAS2096_Spy0754(mvaD) MGR: MGG_09750 SPK: MGAS9429_Spy0738(mvaD)
ANI: AN4414.2 SPF: SpyM51125(mvaD) AFM: AFUA_4G07130 SPA:
M6_Spy0700 AOR: AO090023000862 SPB: M28_Spy0663(mvaD) CNE: CNL04950
SPN: SP_0382 UMA: UM05179.1 SPR: spr0339(mvd1) DDI:
DDBDRAFT_0218058 SPD: SPD_0347(mvaD) TET: TTHERM_00849200 SAG:
SAG1325(mvaD) TBR: Tb10.05.0010 Tb10.61.2745 SAN: gbs1395 TCR:
507993.330 511281.40 SAK: SAK_1356(mvaD) LMA: LmjF18.0020 SMU:
SMU.937 CBU: CBU_0607(mvaD) STC: str0560(mvaD) CBD:
COXBU7E912_0619(mvaD) STL: stu0560(mvaD) LPN: lpg2040 STE:
STER_0599 LPF: lpl2018 SSA: SSA_0334(mvaD) LPP: lpp2023 SSU:
SSU05_0290 TCX: Tcr_1734 SSV: SSU98_0286 DNO: DNO_0504(mvaD) SGO:
SGO_0240(mvaD) BBA: Bd1629 LPL: lp_1734(mvaD) MXA: MXAN_5018(mvaD)
LJO: LJ1206 OIH: OB0226 LAC: LBA1168(mvaD) SAU: SA0548(mvaD) LSA:
LSA0907(mvaD) SAV: SAV0591(mvaD) LSL: LSL_0684 SAM: MW0546(mvaD)
LDB: Ldb0998(mvaD) SAR: SAR0597(mvaD) LBU: LBUL_0905 SAS: SAS0550
LBR: LVIS_0859 SAC: SACOL0637(mvaD) LCA: LSEI_1492 SAB:
SAB0541(mvaD) LGA: LGAS_1034 SAA: SAUSA300_0573(mvaD) LRE:
Lreu_0914 SAO: SAOUHSC_00578 PPE: PEPE_0926 SAJ: SaurJH9_0614 EFA:
EF0903(mvaD)
SAH: SaurJH1_0629 LME: LEUM_1386 SEP: SE0362 NFA: nfa22080 SER:
SERP0239(mvaD) BBU: BB0686 SHA: SH2401(mvaD) BGA: BG0709 SSP:
SSP2121 BAF: BAPKO_0730 LMO: lmo0011 GFO: GFO_3632 LMF:
LMOf2365_0012(mvaD) FPS: FP0310(mvaD) LIN: lin0011 HAU: Haur_1612
LWE: lwe0012(mvaD) HAL: VNG0593G(dmd) LLA: L9089(yeaH) HMA:
rrnAC1489(dmd) LLC: LACR_0455 HWA: HQ1525A(mvaD) LLM:
llmg_0426(mvaD) NPH: NP1580A(mvaD) SPY: SPy_0877(mvaD) PTO: PTO0478
PTO1356 SPZ: M5005_Spy_0683(mvaD) SSO: SSO2989 SPM:
spyM18_0938(mvd) STO: ST0977 SPG: SpyM3_0596(mvaD) SAI:
Saci_1245(mvd) SPS: SPs1257 MSE: Msed_1576 Exemplary isopentenyl
phosphate kinases (IPK) nucleic acids and polypeptides
Methanobacterium thermoautotrophicum Picrophilus torridus DSM9790
(IG-57) gi|48477569 gi|2621082 Pyrococcus abyssi gi|14520758
Methanococcus jannaschii DSM 2661 gi|1590842; Pyrococcus horikoshii
OT3 gi|3258052 Methanocaldococcus jannaschii gi|1590842
Archaeoglobus fulgidus DSM4304 gi|2648231 Methanothermobacter
thermautotrophicus gi|2621082 Exemplary isopentenyl-diphosphate
Delta-isomerase (IDI) nucleic acids and polypeptides HSA:
3422(IDI1) 91734(IDI2) STY: STY3195 PTR: 450262(IDI2) 450263(IDI1)
STT: t2957 MCC: 710052(LOC710052) 721730(LOC721730) SPT:
SPA2907(idi) MMU: 319554(Idi1) SEC: SC2979(idi) RNO: 89784(Idi1)
STM: STM3039(idi) GGA: 420459(IDI1) SFL: SF2875(idi) XLA:
494671(LOC494671) SFX: S3074 XTR: 496783(idi2) SFV: SFV_2937 SPU:
586184(LOC586184) SSN: SSON_3042 SSON_3489(yhfK) CEL:
K06H7.9(idi-1) SBO: SBO_3103 ATH: AT3G02780(IPP2) SDY: SDY_3193
OSA: 4338791 4343523 ECA: ECA2789 CME: CMB062C PLU: plu3987 SCE:
YPL117C(IDI1) ENT: Ent638_3307 AGO: AGOS_ADL268C SPE: Spro_2201
PIC: PICST_68990(IDI1) VPA: VPA0278 CGR: CAGL0J06952g VFI: VF0403
SPO: SPBC106.15(idi1) PPR: PBPRA0469(mvaD) ANI: AN0579.2 PEN:
PSEEN4850 AFM: AFUA_6G11160 CBU: CBU_0607(mvaD) AOR: AO090023000500
CBD: COXBU7E912_0619(mvaD) CNE: CNA02550 LPN: lpg2051 UMA:
UM04838.1 LPF: lpl2029 ECU: ECU02_0230 LPP: lpp2034 DDI:
DDB_0191342(ipi) TCX: Tcr_1718 TET: TTHERM_00237280 TTHERM_00438860
HHA: Hhal_1623 TBR: Tb09.211.0700 DNO: DNO_0798 TCR: 408799.19
510431.10 EBA: ebA5678 p2A143 LMA: LmjF35.5330 DVU: DVU1679(idi)
EHI: 46.t00025 DDE: Dde_1991 ECO: b2889(idi) LIP: LI1134 ECJ:
JW2857(idi) BBA: Bd1626 ECE: Z4227 AFW: Anae109_4082 ECS: ECs3761
MXA: MXAN_5021(fni) ECC: c3467 RPR: RP452 ECI: UTI89_C3274 RTY:
RT0439(idi) ECP: ECP_2882 RCO: RC0744 ECV: APECO1_3638 RFE:
RF_0785(fni) ECW: EcE24377A_3215(idi) RBE: RBE_0731(fni) ECX:
EcHS_A3048 RAK: A1C_04190 RBO: A1I_04755 SPZ: M5005_Spy_0685 RCM:
A1E_02555 SPM: spyM18_0940 RRI: A1G_04195 SPG: SpyM3_0598 MLO:
mlr6371 SPS: SPs1255 RET: RHE_PD00245(ypd00046) SPH:
MGAS10270_Spy0743 XAU: Xaut_4134 SPI: MGAS10750_Spy0777 SIL:
SPO0131 SPJ: MGAS2096_Spy0756 SIT: TM1040_3442 SPK:
MGAS9429_Spy0740 RSP: RSP_0276 SPF: SpyM51123(fni) RSH:
Rsph17029_1919 SPA: M6_Spy0702 RSQ: Rsph17025_1019 SPB: M28_Spy0665
JAN: Jann_0168 SPN: SP_0384 RDE: RD1_0147(idi) SPR: spr0341(fni)
DSH: Dshi_3527 SPD: SPD_0349(fni) BSU: BG11440(ypgA) SAG: SAG1323
BAN: BA1520 SAN: gbs1393 BAR: GBAA1520 SAK: SAK_1354(fni) BAA:
BA_2041 SMU: SMU.939 BAT: BAS1409 STC: str0562(idi) BCE: BC1499
STL: stu0562(idi) BCA: BCE_1626 STE: STER_0601 BCZ: BCZK1380(fni)
SSA: SSA_0336 BCY: Bcer98_1222 SGO: SGO_0242 BTK: BT9727_1381(fni)
LPL: lp_1732(idi1) BTL: BALH_1354 LJO: LJ1208 BLI: BL02217(fni)
LAC: LBA1171 BLD: BLi02426 LSA: LSA0905(idi) BAY: RBAM_021020(fni)
LSL: LSL_0682 BPU: BPUM_2020(fni) LDB: Ldb0996(fni) OIH: OB0537
LBU: LBUL_0903 SAU: SA2136(fni) LBR: LVIS_0861 SAV: SAV2346(fni)
LCA: LSEI_1493 SAM: MW2267(fni) LGA: LGAS_1036 SAR: SAR2431(fni)
LRE: Lreu_0912 SAS: SAS2237 EFA: EF0901 SAC: SACOL2341(fni) OOE:
OEOE_1103 SAB: SAB2225c(fni) STH: STH1674 SAA: SAUSA300_2292(fni)
CBE: Cbei_3081 SAO: SAOUHSC_02623 DRM: Dred_0474 SEP: SE1925 SWO:
Swol_1341 SER: SERP1937(fni-2) MTA: Moth_1328 SHA: SH0712(fni) MTU:
Rv1745c(idi) SSP: SSP0556 MTC: MT1787(idi) LMO: lmo1383 MBO:
Mb1774c(idi) LMF: LMOf2365_1402(fni) MBB: BCG_1784c(idi) LIN:
lin1420 MPA: MAP3079c LWE: lwe1399(fni) MAV: MAV_3894(fni) LLA:
L11083(yebB) MSM: MSMEG_1057(fni) MSMEG_2337(fni) LLC: LACR_0457
MUL: MUL_0380(idi2) LLM: llmg_0428(fni) MVA: Mvan_1582 Mvan_2176
SPY: SPy_0879 MGI: Mflv_1842 Mflv_4187 MMC: Mmcs_1954 TTJ: TTHB110
MKM: Mkms_2000 MJA: MJ0862 MIL: Mjls_1934 MMP: MMP0043 CGL:
NCgl2223(cgl2305) MMQ: MmarC5_1637 CGB: cg2531(idi) MMX:
MmarC6_0906 CEF: CE2207 MMZ: MmarC7_1040 CDI: DIP1730(idi) MAE:
Maeo_1184 NFA: nfa19790 nfa22100 MVN: Mevan_1058 RHA: RHA1_ro00239
MAC: MA0604(idi) SCO: SCO6750(SC5F2A.33c) MBA: Mbar_A1419 SMA:
SAV1663(idi) MMA: MM_1764 LXX: Lxx23810(idi) MBU: Mbur_2397 CMI:
CMM_2889(idiA) MTP: Mthe_0474 AAU: AAur_0321(idi) MHU: Mhun_2888
PAC: PPA2115 MLA: Mlab_1665 FRA: Francci3_4188 MEM: Memar_1814 FRE:
Franean1_5570 MBN: Mboo_2211 FAL: FRAAL6504(idi) MTH: MTH48 KRA:
Krad_3991 MST: Msp_0856(fni) SEN: SACE_2627(idiB_2) SACE_5210(idi)
MSI: Msm_1441 STP: Strop_4438 MKA: MK0776(lldD) SAQ: Sare_4564
Sare_4928 AFU: AF2287 RXY: Rxyl_0400 HAL: VNG1818G(idi)
VNG6081G(crt_1) BBU: BB0684 VNG6445G(crt_2) VNG7060 VNG7149 BGA:
BG0707 HMA: rrnAC3484(idi) SYN: sll1556 HWA: HQ2772A(idiA)
HQ2847A(idiB) SYC: syc2161_c NPH: NP0360A(idiB_1) NP4826A(idiA)
SYF: Synpcc7942_1933 NP5124A(idiB_2) CYA: CYA_2395(fni) TAC: Ta0102
CYB: CYB_2691(fni) TVO: TVN0179 TEL: tll1403 PTO: PTO0496 ANA:
all4591 PHO: PH1202 AVA: Ava_2461 Ava_B0346 PAB: PAB1662 TER:
Tery_1589 PFU: PF0856 SRU: SRU_1900(idi) TKO: TK1470 CHU:
CHU_0674(idi) RCI: LRC397(fni) GFO: GFO_2363(idi) APE: APE_1765.1
FJO: Fjoh_0269 SMR: Smar_0822 FPS: FP1792(idi) IHO: Igni_0804 CTE:
CT0257 HBU: Hbut_0539 CCH: Cag_1445 SSO: SSO0063 CPH: Cpha266_0385
STO: ST2059 PVI: Cvib_1545 SAI: Saci_0091 PLT: Plut_1764 MSE:
Msed_2136 RRS: RoseRS_2437 PAI: PAE0801 RCA: Rcas_2215 PIS:
Pisl_1093 HAU: Haur_4687 PCL: Pcal_0017 DRA: DR_1087 PAS: Pars_0051
DGE: Dgeo_1381 TPE: Tpen_0272 TTH: TT_P0067
Sequence CWU 1
1
14211701DNAArtificial SequenceSynthetic Construct 1atgtgtgcga
cctcttctca atttactcag attaccgagc ataattcccg tcgttccgca 60aactatcagc
caaacctgtg gaatttcgaa ttcctgcaat ccctggagaa cgacctgaaa
120gtggaaaagc tggaggagaa agcgaccaaa ctggaggaag aagttcgctg
catgatcaac 180cgtgtagaca cccagccgct gtccctgctg gagctgatcg
acgatgtgca gcgcctgggt 240ctgacctaca aatttgaaaa agacatcatt
aaagccctgg aaaacatcgt actgctggac 300gaaaacaaaa agaacaaatc
tgacctgcac gcaaccgctc tgtctttccg tctgctgcgt 360cagcacggtt
tcgaggtttc tcaggatgtt tttgagcgtt tcaaggataa agaaggtggt
420ttcagcggtg aactgaaagg tgacgtccaa ggcctgctga gcctgtatga
agcgtcttac 480ctgggtttcg agggtgagaa cctgctggag gaggcgcgta
ccttttccat cacccacctg 540aagaacaacc tgaaagaagg cattaatacc
aaggttgcag aacaagtgag ccacgccctg 600gaactgccat atcaccagcg
tctgcaccgt ctggaggcac gttggttcct ggataaatac 660gaaccgaaag
aaccgcatca ccagctgctg ctggagctgg cgaagctgga ttttaacatg
720gtacagaccc tgcaccagaa agagctgcaa gatctgtccc gctggtggac
cgagatgggc 780ctggctagca aactggattt tgtacgcgac cgcctgatgg
aagtttattt ctgggcactg 840ggtatggcgc cagacccgca gtttggtgaa
tgtcgcaaag ctgttactaa aatgtttggt 900ctggtgacga tcatcgatga
cgtgtatgac gtttatggca ctctggacga actgcaactg 960ttcaccgatg
ctgtagagcg ctgggacgtt aacgctatta acaccctgcc ggactatatg
1020aaactgtgtt tcctggcact gtacaacacc gttaacgaca cgtcctattc
tattctgaaa 1080gagaaaggtc ataacaacct gtcctatctg acgaaaagct
ggcgtgaact gtgcaaagcc 1140tttctgcaag aggcgaaatg gtccaacaac
aaaattatcc cggctttctc caagtacctg 1200gaaaacgcca gcgtttcctc
ctccggtgta gcgctgctgg cgccgtctta cttttccgta 1260tgccagcagc
aggaagacat ctccgaccac gcgctgcgtt ccctgaccga cttccatggt
1320ctggtgcgtt ctagctgcgt tatcttccgc ctgtgcaacg atctggccac
ctctgcggcg 1380gagctggaac gtggcgagac taccaattct atcattagct
acatgcacga aaacgatggt 1440accagcgagg aacaggcccg cgaagaactg
cgtaaactga tcgacgccga atggaaaaag 1500atgaatcgtg aacgcgttag
cgactccacc ctgctgccta aagcgttcat ggaaatcgca 1560gttaacatgg
cacgtgtttc ccactgcacc taccagtatg gcgatggtct gggtcgccca
1620gactacgcga ctgaaaaccg catcaaactg ctgctgattg accctttccc
gattaaccag 1680ctgatgtatg tctaactgca g 170126080DNAArtificial
SequenceSynthetic Construct 2gtttgacagc ttatcatcga ctgcacggtg
caccaatgct tctggcgtca ggcagccatc 60ggaagctgtg gtatggctgt gcaggtcgta
aatcactgca taattcgtgt cgctcaaggc 120gcactcccgt tctggataat
gttttttgcg ccgacatcat aacggttctg gcaaatattc 180tgaaatgagc
tgttgacaat taatcatccg gctcgtataa tgtgtggaat tgtgagcgga
240taacaatttc acacaggaaa cagcgccgct gagaaaaagc gaagcggcac
tgctctttaa 300caatttatca gacaatctgt gtgggcactc gaccggaatt
atcgattaac tttattatta 360aaaattaaag aggtatatat taatgtatcg
attaaataag gaggaataaa ccatgtgtgc 420gacctcttct caatttactc
agattaccga gcataattcc cgtcgttccg caaactatca 480gccaaacctg
tggaatttcg aattcctgca atccctggag aacgacctga aagtggaaaa
540gctggaggag aaagcgacca aactggagga agaagttcgc tgcatgatca
accgtgtaga 600cacccagccg ctgtccctgc tggagctgat cgacgatgtg
cagcgcctgg gtctgaccta 660caaatttgaa aaagacatca ttaaagccct
ggaaaacatc gtactgctgg acgaaaacaa 720aaagaacaaa tctgacctgc
acgcaaccgc tctgtctttc cgtctgctgc gtcagcacgg 780tttcgaggtt
tctcaggatg tttttgagcg tttcaaggat aaagaaggtg gtttcagcgg
840tgaactgaaa ggtgacgtcc aaggcctgct gagcctgtat gaagcgtctt
acctgggttt 900cgagggtgag aacctgctgg aggaggcgcg taccttttcc
atcacccacc tgaagaacaa 960cctgaaagaa ggcattaata ccaaggttgc
agaacaagtg agccacgccc tggaactgcc 1020atatcaccag cgtctgcacc
gtctggaggc acgttggttc ctggataaat acgaaccgaa 1080agaaccgcat
caccagctgc tgctggagct ggcgaagctg gattttaaca tggtacagac
1140cctgcaccag aaagagctgc aagatctgtc ccgctggtgg accgagatgg
gcctggctag 1200caaactggat tttgtacgcg accgcctgat ggaagtttat
ttctgggcac tgggtatggc 1260gccagacccg cagtttggtg aatgtcgcaa
agctgttact aaaatgtttg gtctggtgac 1320gatcatcgat gacgtgtatg
acgtttatgg cactctggac gaactgcaac tgttcaccga 1380tgctgtagag
cgctgggacg ttaacgctat taacaccctg ccggactata tgaaactgtg
1440tttcctggca ctgtacaaca ccgttaacga cacgtcctat tctattctga
aagagaaagg 1500tcataacaac ctgtcctatc tgacgaaaag ctggcgtgaa
ctgtgcaaag cctttctgca 1560agaggcgaaa tggtccaaca acaaaattat
cccggctttc tccaagtacc tggaaaacgc 1620cagcgtttcc tcctccggtg
tagcgctgct ggcgccgtct tacttttccg tatgccagca 1680gcaggaagac
atctccgacc acgcgctgcg ttccctgacc gacttccatg gtctggtgcg
1740ttctagctgc gttatcttcc gcctgtgcaa cgatctggcc acctctgcgg
cggagctgga 1800acgtggcgag actaccaatt ctatcattag ctacatgcac
gaaaacgatg gtaccagcga 1860ggaacaggcc cgcgaagaac tgcgtaaact
gatcgacgcc gaatggaaaa agatgaatcg 1920tgaacgcgtt agcgactcca
ccctgctgcc taaagcgttc atggaaatcg cagttaacat 1980ggcacgtgtt
tcccactgca cctaccagta tggcgatggt ctgggtcgcc cagactacgc
2040gactgaaaac cgcatcaaac tgctgctgat tgaccctttc ccgattaacc
agctgatgta 2100tgtctaactg cagctggtac catatgggaa ttcgaagctt
tctagaacaa aaactcatct 2160cagaagagga tctgaatagc gccgtcgacc
atcatcatca tcatcattga gtttaaacgg 2220tctccagctt ggctgttttg
gcggatgaga gaagattttc agcctgatac agattaaatc 2280agaacgcaga
agcggtctga taaaacagaa tttgcctggc ggcagtagcg cggtggtccc
2340acctgacccc atgccgaact cagaagtgaa acgccgtagc gccgatggta
gtgtggggtc 2400tccccatgcg agagtaggga actgccaggc atcaaataaa
acgaaaggct cagtcgaaag 2460actgggcctt tcgttttatc tgttgtttgt
cggtgaacgc tctcctgagt aggacaaatc 2520cgccgggagc ggatttgaac
gttgcgaagc aacggcccgg agggtggcgg gcaggacgcc 2580cgccataaac
tgccaggcat caaattaagc agaaggccat cctgacggat ggcctttttg
2640cgtttctaca aactcttttt gtttattttt ctaaatacat tcaaatatgt
atccgctcat 2700gagacaataa ccctgataaa tgcttcaata atattgaaaa
aggaagagta tgagtattca 2760acatttccgt gtcgccctta ttcccttttt
tgcggcattt tgccttcctg tttttgctca 2820cccagaaacg ctggtgaaag
taaaagatgc tgaagatcag ttgggtgcac gagtgggtta 2880catcgaactg
gatctcaaca gcggtaagat ccttgagagt tttcgccccg aagaacgttt
2940tccaatgatg agcactttta aagttctgct atgtggcgcg gtattatccc
gtgttgacgc 3000cgggcaagag caactcggtc gccgcataca ctattctcag
aatgacttgg ttgagtactc 3060accagtcaca gaaaagcatc ttacggatgg
catgacagta agagaattat gcagtgctgc 3120cataaccatg agtgataaca
ctgcggccaa cttacttctg acaacgatcg gaggaccgaa 3180ggagctaacc
gcttttttgc acaacatggg ggatcatgta actcgccttg atcgttggga
3240accggagctg aatgaagcca taccaaacga cgagcgtgac accacgatgc
ctgtagcaat 3300ggcaacaacg ttgcgcaaac tattaactgg cgaactactt
actctagctt cccggcaaca 3360attaatagac tggatggagg cggataaagt
tgcaggacca cttctgcgct cggcccttcc 3420ggctggctgg tttattgctg
ataaatctgg agccggtgag cgtgggtctc gcggtatcat 3480tgcagcactg
gggccagatg gtaagccctc ccgtatcgta gttatctaca cgacggggag
3540tcaggcaact atggatgaac gaaatagaca gatcgctgag ataggtgcct
cactgattaa 3600gcattggtaa ctgtcagacc aagtttactc atatatactt
tagattgatt taaaacttca 3660tttttaattt aaaaggatct aggtgaagat
cctttttgat aatctcatga ccaaaatccc 3720ttaacgtgag ttttcgttcc
actgagcgtc agaccccgta gaaaagatca aaggatcttc 3780ttgagatcct
ttttttctgc gcgtaatctg ctgcttgcaa acaaaaaaac caccgctacc
3840agcggtggtt tgtttgccgg atcaagagct accaactctt tttccgaagg
taactggctt 3900cagcagagcg cagataccaa atactgtcct tctagtgtag
ccgtagttag gccaccactt 3960caagaactct gtagcaccgc ctacatacct
cgctctgcta atcctgttac cagtggctgc 4020tgccagtggc gataagtcgt
gtcttaccgg gttggactca agacgatagt taccggataa 4080ggcgcagcgg
tcgggctgaa cggggggttc gtgcacacag cccagcttgg agcgaacgac
4140ctacaccgaa ctgagatacc tacagcgtga gctatgagaa agcgccacgc
ttcccgaagg 4200gagaaaggcg gacaggtatc cggtaagcgg cagggtcgga
acaggagagc gcacgaggga 4260gcttccaggg ggaaacgcct ggtatcttta
tagtcctgtc gggtttcgcc acctctgact 4320tgagcgtcga tttttgtgat
gctcgtcagg ggggcggagc ctatggaaaa acgccagcaa 4380cgcggccttt
ttacggttcc tggccttttg ctggcctttt gctcacatgt tctttcctgc
4440gttatcccct gattctgtgg ataaccgtat taccgccttt gagtgagctg
ataccgctcg 4500ccgcagccga acgaccgagc gcagcgagtc agtgagcgag
gaagcggaag agcgcctgat 4560gcggtatttt ctccttacgc atctgtgcgg
tatttcacac cgcatatggt gcactctcag 4620tacaatctgc tctgatgccg
catagttaag ccagtataca ctccgctatc gctacgtgac 4680tgggtcatgg
ctgcgccccg acacccgcca acacccgctg acgcgccctg acgggcttgt
4740ctgctcccgg catccgctta cagacaagct gtgaccgtct ccgggagctg
catgtgtcag 4800aggttttcac cgtcatcacc gaaacgcgcg aggcagcaga
tcaattcgcg cgcgaaggcg 4860aagcggcatg catttacgtt gacaccatcg
aatggtgcaa aacctttcgc ggtatggcat 4920gatagcgccc ggaagagagt
caattcaggg tggtgaatgt gaaaccagta acgttatacg 4980atgtcgcaga
gtatgccggt gtctcttatc agaccgtttc ccgcgtggtg aaccaggcca
5040gccacgtttc tgcgaaaacg cgggaaaaag tggaagcggc gatggcggag
ctgaattaca 5100ttcccaaccg cgtggcacaa caactggcgg gcaaacagtc
gttgctgatt ggcgttgcca 5160cctccagtct ggccctgcac gcgccgtcgc
aaattgtcgc ggcgattaaa tctcgcgccg 5220atcaactggg tgccagcgtg
gtggtgtcga tggtagaacg aagcggcgtc gaagcctgta 5280aagcggcggt
gcacaatctt ctcgcgcaac gcgtcagtgg gctgatcatt aactatccgc
5340tggatgacca ggatgccatt gctgtggaag ctgcctgcac taatgttccg
gcgttatttc 5400ttgatgtctc tgaccagaca cccatcaaca gtattatttt
ctcccatgaa gacggtacgc 5460gactgggcgt ggagcatctg gtcgcattgg
gtcaccagca aatcgcgctg ttagcgggcc 5520cattaagttc tgtctcggcg
cgtctgcgtc tggctggctg gcataaatat ctcactcgca 5580atcaaattca
gccgatagcg gaacgggaag gcgactggag tgccatgtcc ggttttcaac
5640aaaccatgca aatgctgaat gagggcatcg ttcccactgc gatgctggtt
gccaacgatc 5700agatggcgct gggcgcaatg cgcgccatta ccgagtccgg
gctgcgcgtt ggtgcggata 5760tctcggtagt gggatacgac gataccgaag
acagctcatg ttatatcccg ccgtcaacca 5820ccatcaaaca ggattttcgc
ctgctggggc aaaccagcgt ggaccgcttg ctgcaactct 5880ctcagggcca
ggcggtgaag ggcaatcagc tgttgcccgt ctcactggtg aaaagaaaaa
5940ccaccctggc gcccaatacg caaaccgcct ctccccgcgc gttggccgat
tcattaatgc 6000agctggcacg acaggtttcc cgactggaaa gcgggcagtg
agcgcaacgc aattaatgtg 6060agttagcgcg aattgatctg
608037404DNAArtificial SequenceSynthetic Construct 3ttctcatgtt
tgacagctta tcatcgataa gctttaatgc ggtagtttat cacagttaaa 60ttgctaacgc
agtcaggcac cgtgtatgaa atctaacaat gcgctcatcg tcatcctcgg
120caccgtcacc ctggatgctg taggcatagg cttggttatg ccggtactgc
cgggcctctt 180gcgggatatc cggatatagt tcctcctttc agcaaaaaac
ccctcaagac ccgtttagag 240gccccaaggg gttatgctag ttattgctca
gcggtggcag cagccaactc agcttccttt 300cgggctttgt tagcagccgg
atccctgcag ttagacatac atcagctggt taatcgggaa 360agggtcaatc
agcagcagtt tgatgcggtt ttcagtcgcg tagtctgggc gacccagacc
420atcgccatac tggtaggtgc agtgggaaac acgtgccatg ttaactgcga
tttccatgaa 480cgctttaggc agcagggtgg agtcgctaac gcgttcacga
ttcatctttt tccattcggc 540gtcgatcagt ttacgcagtt cttcgcgggc
ctgttcctcg ctggtaccat cgttttcgtg 600catgtagcta atgatagaat
tggtagtctc gccacgttcc agctccgccg cagaggtggc 660cagatcgttg
cacaggcgga agataacgca gctagaacgc accagaccat ggaagtcggt
720cagggaacgc agcgcgtggt cggagatgtc ttcctgctgc tggcatacgg
aaaagtaaga 780cggcgccagc agcgctacac cggaggagga aacgctggcg
ttttccaggt acttggagaa 840agccgggata attttgttgt tggaccattt
cgcctcttgc agaaaggctt tgcacagttc 900acgccagctt ttcgtcagat
aggacaggtt gttatgacct ttctctttca gaatagaata 960ggacgtgtcg
ttaacggtgt tgtacagtgc caggaaacac agtttcatat agtccggcag
1020ggtgttaata gcgttaacgt cccagcgctc tacagcatcg gtgaacagtt
gcagttcgtc 1080cagagtgcca taaacgtcat acacgtcatc gatgatcgtc
accagaccaa acattttagt 1140aacagctttg cgacattcac caaactgcgg
gtctggcgcc atacccagtg cccagaaata 1200aacttccatc aggcggtcgc
gtacaaaatc cagtttgcta gccaggccca tctcggtcca 1260ccagcgggac
agatcttgca gctctttctg gtgcagggtc tgtaccatgt taaaatccag
1320cttcgccagc tccagcagca gctggtgatg cggttctttc ggttcgtatt
tatccaggaa 1380ccaacgtgcc tccagacggt gcagacgctg gtgatatggc
agttccaggg cgtggctcac 1440ttgttctgca accttggtat taatgccttc
tttcaggttg ttcttcaggt gggtgatgga 1500aaaggtacgc gcctcctcca
gcaggttctc accctcgaaa cccaggtaag acgcttcata 1560caggctcagc
aggccttgga cgtcaccttt cagttcaccg ctgaaaccac cttctttatc
1620cttgaaacgc tcaaaaacat cctgagaaac ctcgaaaccg tgctgacgca
gcagacggaa 1680agacagagcg gttgcgtgca ggtcagattt gttctttttg
ttttcgtcca gcagtacgat 1740gttttccagg gctttaatga tgtctttttc
aaatttgtag gtcagaccca ggcgctgcac 1800atcgtcgatc agctccagca
gggacagcgg ctgggtgtct acacggttga tcatgcagcg 1860aacttcttcc
tccagtttgg tcgctttctc ctccagcttt tccactttca ggtcgttctc
1920cagggattgc aggaattcga aattccacag gtttggctga tagtttgcgg
aacgacggga 1980attatgctcg gtaatctgag taaattgaga agaggtcgca
cacatatgac gaccttcgat 2040atggccgctg ctgtgatgat gatgatgatg
atgatgatga tggcccatgg tatatctcct 2100tcttaaagtt aaacaaaatt
atttctagag gggaattgtt atccgctcac aattccccta 2160tagtgagtcg
tattaatttc gcgggatcga gatctcgatc ctctacgccg gacgcatcgt
2220ggccggcatc accggcgcca caggtgcggt tgctggcgcc tatatcgccg
acatcaccga 2280tggggaagat cgggctcgcc acttcgggct catgagcgct
tgtttcggcg tgggtatggt 2340ggcaggcccc gtggccgggg gactgttggg
cgccatctcc ttgcatgcac cattccttgc 2400ggcggcggtg ctcaacggcc
tcaacctact actgggctgc ttcctaatgc aggagtcgca 2460taagggagag
cgtcgagatc ccggacacca tcgaatggcg caaaaccttt cgcggtatgg
2520catgatagcg cccggaagag agtcaattca gggtggtgaa tgtgaaacca
gtaacgttat 2580acgatgtcgc agagtatgcc ggtgtctctt atcagaccgt
ttcccgcgtg gtgaaccagg 2640ccagccacgt ttctgcgaaa acgcgggaaa
aagtggaagc ggcgatggcg gagctgaatt 2700acattcccaa ccgcgtggca
caacaactgg cgggcaaaca gtcgttgctg attggcgttg 2760ccacctccag
tctggccctg cacgcgccgt cgcaaattgt cgcggcgatt aaatctcgcg
2820ccgatcaact gggtgccagc gtggtggtgt cgatggtaga acgaagcggc
gtcgaagcct 2880gtaaagcggc ggtgcacaat cttctcgcgc aacgcgtcag
tgggctgatc attaactatc 2940cgctggatga ccaggatgcc attgctgtgg
aagctgcctg cactaatgtt ccggcgttat 3000ttcttgatgt ctctgaccag
acacccatca acagtattat tttctcccat gaagacggta 3060cgcgactggg
cgtggagcat ctggtcgcat tgggtcacca gcaaatcgcg ctgttagcgg
3120gcccattaag ttctgtctcg gcgcgtctgc gtctggctgg ctggcataaa
tatctcactc 3180gcaatcaaat tcagccgata gcggaacggg aaggcgactg
gagtgccatg tccggttttc 3240aacaaaccat gcaaatgctg aatgagggca
tcgttcccac tgcgatgctg gttgccaacg 3300atcagatggc gctgggcgca
atgcgcgcca ttaccgagtc cgggctgcgc gttggtgcgg 3360atatctcggt
agtgggatac gacgataccg aagacagctc atgttatatc ccgccgttaa
3420ccaccatcaa acaggatttt cgcctgctgg ggcaaaccag cgtggaccgc
ttgctgcaac 3480tctctcaggg ccaggcggtg aagggcaatc agctgttgcc
cgtctcactg gtgaaaagaa 3540aaaccaccct ggcgcccaat acgcaaaccg
cctctccccg cgcgttggcc gattcattaa 3600tgcagctggc acgacaggtt
tcccgactgg aaagcgggca gtgagcgcaa cgcaattaat 3660gtaagttagc
tcactcatta ggcaccggga tctcgaccga tgcccttgag agccttcaac
3720ccagtcagct ccttccggtg ggcgcggggc atgactatcg tcgccgcact
tatgactgtc 3780ttctttatca tgcaactcgt aggacaggtg ccggcagcgc
tctgggtcat tttcggcgag 3840gaccgctttc gctggagcgc gacgatgatc
ggcctgtcgc ttgcggtatt cggaatcttg 3900cacgccctcg ctcaagcctt
cgtcactggt cccgccacca aacgtttcgg cgagaagcag 3960gccattatcg
ccggcatggc ggccgacgcg ctgggctacg tcttgctggc gttcgcgacg
4020cgaggctgga tggccttccc cattatgatt cttctcgctt ccggcggcat
cgggatgccc 4080gcgttgcagg ccatgctgtc caggcaggta gatgacgacc
atcagggaca gcttcaagga 4140tcgctcgcgg ctcttaccag cctaacttcg
atcactggac cgctgatcgt cacggcgatt 4200tatgccgcct cggcgagcac
atggaacggg ttggcatgga ttgtaggcgc cgccctatac 4260cttgtctgcc
tccccgcgtt gcgtcgcggt gcatggagcc gggccacctc gacctgaatg
4320gaagccggcg gcacctcgct aacggattca ccactccaag aattggagcc
aatcaattct 4380tgcggagaac tgtgaatgcg caaaccaacc cttggcagaa
catatccatc gcgtccgcca 4440tctccagcag ccgcacgcgg cgcatctcgg
gcagcgttgg gtcctggcca cgggtgcgca 4500tgatcgtgct cctgtcgttg
aggacccggc taggctggcg gggttgcctt actggttagc 4560agaatgaatc
accgatacgc gagcgaacgt gaagcgactg ctgctgcaaa acgtctgcga
4620cctgagcaac aacatgaatg gtcttcggtt tccgtgtttc gtaaagtctg
gaaacgcgga 4680agtcagcgcc ctgcaccatt atgttccgga tctgcatcgc
aggatgctgc tggctaccct 4740gtggaacacc tacatctgta ttaacgaagc
gctggcattg accctgagtg atttttctct 4800ggtcccgccg catccatacc
gccagttgtt taccctcaca acgttccagt aaccgggcat 4860gttcatcatc
agtaacccgt atcgtgagca tcctctctcg tttcatcggt atcattaccc
4920ccatgaacag aaatccccct tacacggagg catcagtgac caaacaggaa
aaaaccgccc 4980ttaacatggc ccgctttatc agaagccaga cattaacgct
tctggagaaa ctcaacgagc 5040tggacgcgga tgaacaggca gacatctgtg
aatcgcttca cgaccacgct gatgagcttt 5100accgcagctg cctcgcgcgt
ttcggtgatg acggtgaaaa cctctgacac atgcagctcc 5160cggagacggt
cacagcttgt ctgtaagcgg atgccgggag cagacaagcc cgtcagggcg
5220cgtcagcggg tgttggcggg tgtcggggcg cagccatgac ccagtcacgt
agcgatagcg 5280gagtgtatac tggcttaact atgcggcatc agagcagatt
gtactgagag tgcaccatat 5340atgcggtgtg aaataccgca cagatgcgta
aggagaaaat accgcatcag gcgctcttcc 5400gcttcctcgc tcactgactc
gctgcgctcg gtcgttcggc tgcggcgagc ggtatcagct 5460cactcaaagg
cggtaatacg gttatccaca gaatcagggg ataacgcagg aaagaacatg
5520tgagcaaaag gccagcaaaa ggccaggaac cgtaaaaagg ccgcgttgct
ggcgtttttc 5580cataggctcc gcccccctga cgagcatcac aaaaatcgac
gctcaagtca gaggtggcga 5640aacccgacag gactataaag ataccaggcg
tttccccctg gaagctccct cgtgcgctct 5700cctgttccga ccctgccgct
taccggatac ctgtccgcct ttctcccttc gggaagcgtg 5760gcgctttctc
atagctcacg ctgtaggtat ctcagttcgg tgtaggtcgt tcgctccaag
5820ctgggctgtg tgcacgaacc ccccgttcag cccgaccgct gcgccttatc
cggtaactat 5880cgtcttgagt ccaacccggt aagacacgac ttatcgccac
tggcagcagc cactggtaac 5940aggattagca gagcgaggta tgtaggcggt
gctacagagt tcttgaagtg gtggcctaac 6000tacggctaca ctagaaggac
agtatttggt atctgcgctc tgctgaagcc agttaccttc 6060ggaaaaagag
ttggtagctc ttgatccggc aaacaaacca ccgctggtag cggtggtttt
6120tttgtttgca agcagcagat tacgcgcaga aaaaaaggat ctcaagaaga
tcctttgatc 6180ttttctacgg ggtctgacgc tcagtggaac gaaaactcac
gttaagggat tttggtcatg 6240agattatcaa aaaggatctt cacctagatc
cttttaaatt aaaaatgaag ttttaaatca 6300atctaaagta tatatgagta
aacttggtct gacagttacc aatgcttaat cagtgaggca 6360cctatctcag
cgatctgtct atttcgttca tccatagttg cctgactccc cgtcgtgtag
6420ataactacga tacgggaggg cttaccatct ggccccagtg ctgcaatgat
accgcgagac 6480ccacgctcac cggctccaga tttatcagca ataaaccagc
cagccggaag ggccgagcgc 6540agaagtggtc ctgcaacttt atccgcctcc
atccagtcta ttaattgttg ccgggaagct 6600agagtaagta gttcgccagt
taatagtttg cgcaacgttg ttgccattgc tgcaggcatc 6660gtggtgtcac
gctcgtcgtt tggtatggct tcattcagct ccggttccca acgatcaagg
6720cgagttacat gatcccccat gttgtgcaaa aaagcggtta gctccttcgg
tcctccgatc 6780gttgtcagaa gtaagttggc cgcagtgtta tcactcatgg
ttatggcagc actgcataat 6840tctcttactg tcatgccatc cgtaagatgc
ttttctgtga ctggtgagta ctcaaccaag 6900tcattctgag aatagtgtat
gcggcgaccg agttgctctt gcccggcgtc aacacgggat 6960aataccgcgc
cacatagcag aactttaaaa gtgctcatca ttggaaaacg ttcttcgggg
7020cgaaaactct caaggatctt accgctgttg agatccagtt cgatgtaacc
cactcgtgca
7080cccaactgat cttcagcatc ttttactttc accagcgttt ctgggtgagc
aaaaacagga 7140aggcaaaatg ccgcaaaaaa gggaataagg gcgacacgga
aatgttgaat actcatactc 7200ttcctttttc aatattattg aagcatttat
cagggttatt gtctcatgag cggatacata 7260tttgaatgta tttagaaaaa
taaacaaata ggggttccgc gcacatttcc ccgaaaagtg 7320ccacctgacg
tctaagaaac cattattatc atgacattaa cctataaaaa taggcgtatc
7380acgaggccct ttcgtcttca agaa 740446266DNAArtificial
SequenceSynthetic Construct 4cccgtcttac tgtcgggaat tcgcgttggc
cgattcatta atgcagctgg cacgacaggt 60ttcccgactg gaaagcgggc agtgagcgca
acgcaattaa tgtgagttag ctcactcatt 120aggcacccca ggctttacac
tttatgcttc cggctcgtat gttgtgtgga attgtgagcg 180gataacaatt
tcacacagga aacagctatg accatgatta cgccaagctt gtatcgatta
240aataaggagg aataaaccat gtgtgcgacc tcttctcaat ttactcagat
taccgagcat 300aattcccgtc gttccgcaaa ctatcagcca aacctgtgga
atttcgaatt cctgcaatcc 360ctggagaacg acctgaaagt ggaaaagctg
gaggagaaag cgaccaaact ggaggaagaa 420gttcgctgca tgatcaaccg
tgtagacacc cagccgctgt ccctgctgga gctgatcgac 480gatgtgcagc
gcctgggtct gacctacaaa tttgaaaaag acatcattaa agccctggaa
540aacatcgtac tgctggacga aaacaaaaag aacaaatctg acctgcacgc
aaccgctctg 600tctttccgtc tgctgcgtca gcacggtttc gaggtttctc
aggatgtttt tgagcgtttc 660aaggataaag aaggtggttt cagcggtgaa
ctgaaaggtg acgtccaagg cctgctgagc 720ctgtatgaag cgtcttacct
gggtttcgag ggtgagaacc tgctggagga ggcgcgtacc 780ttttccatca
cccacctgaa gaacaacctg aaagaaggca ttaataccaa ggttgcagaa
840caagtgagcc acgccctgga actgccatat caccagcgtc tgcaccgtct
ggaggcacgt 900tggttcctgg ataaatacga accgaaagaa ccgcatcacc
agctgctgct ggagctggcg 960aagctggatt ttaacatggt acagaccctg
caccagaaag agctgcaaga tctgtcccgc 1020tggtggaccg agatgggcct
ggctagcaaa ctggattttg tacgcgaccg cctgatggaa 1080gtttatttct
gggcactggg tatggcgcca gacccgcagt ttggtgaatg tcgcaaagct
1140gttactaaaa tgtttggtct ggtgacgatc atcgatgacg tgtatgacgt
ttatggcact 1200ctggacgaac tgcaactgtt caccgatgct gtagagcgct
gggacgttaa cgctattaac 1260accctgccgg actatatgaa actgtgtttc
ctggcactgt acaacaccgt taacgacacg 1320tcctattcta ttctgaaaga
gaaaggtcat aacaacctgt cctatctgac gaaaagctgg 1380cgtgaactgt
gcaaagcctt tctgcaagag gcgaaatggt ccaacaacaa aattatcccg
1440gctttctcca agtacctgga aaacgccagc gtttcctcct ccggtgtagc
gctgctggcg 1500ccgtcttact tttccgtatg ccagcagcag gaagacatct
ccgaccacgc gctgcgttcc 1560ctgaccgact tccatggtct ggtgcgttct
agctgcgtta tcttccgcct gtgcaacgat 1620ctggccacct ctgcggcgga
gctggaacgt ggcgagacta ccaattctat cattagctac 1680atgcacgaaa
acgatggtac cagcgaggaa caggcccgcg aagaactgcg taaactgatc
1740gacgccgaat ggaaaaagat gaatcgtgaa cgcgttagcg actccaccct
gctgcctaaa 1800gcgttcatgg aaatcgcagt taacatggca cgtgtttccc
actgcaccta ccagtatggc 1860gatggtctgg gtcgcccaga ctacgcgact
gaaaaccgca tcaaactgct gctgattgac 1920cctttcccga ttaaccagct
gatgtatgtc taactgcagg tcgactctag aggatccccg 1980ggtaccgagc
tcgaattcac tggccgtcgt tttacaacgt cgtgactggg aaaaccctgg
2040cgttacccaa cttaatcgcc ttgcagcaca tccccctttc gccagctggc
gtaatagcga 2100agaggcccgc accgatcgcc cttcccaaca gttgcgcagc
ctgaatggcg aatggcgcct 2160gatgcggtat tttctcctta cgcatctgtg
cggtatttca caccgcatat ggtgcactct 2220cagtacaatc tgctctgatg
ccgcatagtt aagccagccc cgacacccgc caacacccgc 2280tgacgagctt
agtaaagccc tcgctagatt ttaatgcgga tgttgcgatt acttcgccaa
2340ctattgcgat aacaagaaaa agccagcctt tcatgatata tctcccaatt
tgtgtagggc 2400ttattatgca cgcttaaaaa taataaaagc agacttgacc
tgatagtttg gctgtgagca 2460attatgtgct tagtgcatct aacgcttgag
ttaagccgcg ccgcgaagcg gcgtcggctt 2520gaacgaattg ttagacatta
tttgccgact accttggtga tctcgccttt cacgtagtgg 2580acaaattctt
ccaactgatc tgcgcgcgag gccaagcgat cttcttcttg tccaagataa
2640gcctgtctag cttcaagtat gacgggctga tactgggccg gcaggcgctc
cattgcccag 2700tcggcagcga catccttcgg cgcgattttg ccggttactg
cgctgtacca aatgcgggac 2760aacgtaagca ctacatttcg ctcatcgcca
gcccagtcgg gcggcgagtt ccatagcgtt 2820aaggtttcat ttagcgcctc
aaatagatcc tgttcaggaa ccggatcaaa gagttcctcc 2880gccgctggac
ctaccaaggc aacgctatgt tctcttgctt ttgtcagcaa gatagccaga
2940tcaatgtcga tcgtggctgg ctcgaagata cctgcaagaa tgtcattgcg
ctgccattct 3000ccaaattgca gttcgcgctt agctggataa cgccacggaa
tgatgtcgtc gtgcacaaca 3060atggtgactt ctacagcgcg gagaatctcg
ctctctccag gggaagccga agtttccaaa 3120aggtcgttga tcaaagctcg
ccgcgttgtt tcatcaagcc ttacggtcac cgtaaccagc 3180aaatcaatat
cactgtgtgg cttcaggccg ccatccactg cggagccgta caaatgtacg
3240gccagcaacg tcggttcgag atggcgctcg atgacgccaa ctacctctga
tagttgagtc 3300gatacttcgg cgatcaccgc ttccctcatg atgtttaact
ttgttttagg gcgactgccc 3360tgctgcgtaa catcgttgct gctccataac
atcaaacatc gacccacggc gtaacgcgct 3420tgctgcttgg atgcccgagg
catagactgt accccaaaaa aacagtcata acaagccatg 3480aaaaccgcca
ctgcgccgtt accaccgctg cgttcggtca aggttctgga ccagttgcgt
3540gagcgcatac gctacttgca ttacagctta cgaaccgaac aggcttatgt
ccactgggtt 3600cgtgccttca tccgtttcca cggtgtgcgt cacccggcaa
ccttgggcag cagcgaagtc 3660gaggcatttc tgtcctggct ggcgaacgag
cgcaaggttt cggtctccac gcatcgtcag 3720gcattggcgg ccttgctgtt
cttctacggc aaggtgctgt gcacggatct gccctggctt 3780caggagatcg
gaagacctcg gccgtcgcgg cgcttgccgg tggtgctgac cccggatgaa
3840gtggttcgca tcctcggttt tctggaaggc gagcatcgtt tgttcgccca
gcttctgtat 3900ggaacgggca tgcggatcag tgagggtttg caactgcggg
tcaaggatct ggatttcgat 3960cacggcacga tcatcgtgcg ggagggcaag
ggctccaagg atcgggcctt gatgttaccc 4020gagagcttgg cacccagcct
gcgcgagcag gggaattaat tcccacgggt tttgctgccc 4080gcaaacgggc
tgttctggtg ttgctagttt gttatcagaa tcgcagatcc ggcttcagcc
4140ggtttgccgg ctgaaagcgc tatttcttcc agaattgcca tgattttttc
cccacgggag 4200gcgtcactgg ctcccgtgtt gtcggcagct ttgattcgat
aagcagcatc gcctgtttca 4260ggctgtctat gtgtgactgt tgagctgtaa
caagttgtct caggtgttca atttcatgtt 4320ctagttgctt tgttttactg
gtttcacctg ttctattagg tgttacatgc tgttcatctg 4380ttacattgtc
gatctgttca tggtgaacag ctttgaatgc accaaaaact cgtaaaagct
4440ctgatgtatc tatctttttt acaccgtttt catctgtgca tatggacagt
tttccctttg 4500atatgtaacg gtgaacagtt gttctacttt tgtttgttag
tcttgatgct tcactgatag 4560atacaagagc cataagaacc tcagatcctt
ccgtatttag ccagtatgtt ctctagtgtg 4620gttcgttgtt tttgcgtgag
ccatgagaac gaaccattga gatcatactt actttgcatg 4680tcactcaaaa
attttgcctc aaaactggtg agctgaattt ttgcagttaa agcatcgtgt
4740agtgtttttc ttagtccgtt atgtaggtag gaatctgatg taatggttgt
tggtattttg 4800tcaccattca tttttatctg gttgttctca agttcggtta
cgagatccat ttgtctatct 4860agttcaactt ggaaaatcaa cgtatcagtc
gggcggcctc gcttatcaac caccaatttc 4920atattgctgt aagtgtttaa
atctttactt attggtttca aaacccattg gttaagcctt 4980ttaaactcat
ggtagttatt ttcaagcatt aacatgaact taaattcatc aaggctaatc
5040tctatatttg ccttgtgagt tttcttttgt gttagttctt ttaataacca
ctcataaatc 5100ctcatagagt atttgttttc aaaagactta acatgttcca
gattatattt tatgaatttt 5160tttaactgga aaagataagg caatatctct
tcactaaaaa ctaattctaa tttttcgctt 5220gagaacttgg catagtttgt
ccactggaaa atctcaaagc ctttaaccaa aggattcctg 5280atttccacag
ttctcgtcat cagctctctg gttgctttag ctaatacacc ataagcattt
5340tccctactga tgttcatcat ctgagcgtat tggttataag tgaacgatac
cgtccgttct 5400ttccttgtag ggttttcaat cgtggggttg agtagtgcca
cacagcataa aattagcttg 5460gtttcatgct ccgttaagtc atagcgacta
atcgctagtt catttgcttt gaaaacaact 5520aattcagaca tacatctcaa
ttggtctagg tgattttaat cactatacca attgagatgg 5580gctagtcaat
gataattact agtccttttc ctttgagttg tgggtatctg taaattctgc
5640tagacctttg ctggaaaact tgtaaattct gctagaccct ctgtaaattc
cgctagacct 5700ttgtgtgttt tttttgttta tattcaagtg gttataattt
atagaataaa gaaagaataa 5760aaaaagataa aaagaataga tcccagccct
gtgtataact cactacttta gtcagttccg 5820cagtattaca aaaggatgtc
gcaaacgctg tttgctcctc tacaaaacag accttaaaac 5880cctaaaggct
taagtagcac cctcgcaagc tcgggcaaat cgctgaatat tccttttgtc
5940tccgaccatc aggcacctga gtcgctgtct ttttcgtgac attcagttcg
ctgcgctcac 6000ggctctggca gtgaatgggg gtaaatggca ctacaggcgc
cttttatgga ttcatgcaag 6060gaaactaccc ataatacaag aaaagcccgt
cacgggcttc tcagggcgtt ttatggcggg 6120tctgctatgt ggtgctatct
gactttttgc tgttcagcag ttcctgccct ctgattttcc 6180agtctgacca
cttcggatta tcccgtgaca ggtcattcag actggctaat gcacccagta
6240aggcagcggt atcatcaaca ggctta 626656592DNAArtificial
SequenceSynthetic Construct 5gaattgctcc attttcttct gctatcaaaa
taacagactc gtgattttcc aaacgagctt 60tcaaaaaagc ctctgcccct tgcaaatcgg
atgcctgtct ataaaattcc cgatattggt 120taaacagcgg cgcaatggcg
gccgcatctg atgtctttgc ttggcgaatg ttcatcttat 180ttcttcctcc
ctctcaataa ttttttcatt ctatcccttt tctgtaaagt ttatttttca
240gaatactttt atcatcatgc tttgaaaaaa tatcacgata atatccattg
ttctcacgga 300agcacacgca ggtcatttga acgaattttt tcgacaggaa
tttgccggga ctcaggagca 360tttaacctaa aaaagcatga catttcagca
taatgaacat ttactcatgt ctattttcgt 420tcttttctgt atgaaaatag
ttatttcgag tctctacgga aatagcgaga gatgatatac 480ctaaatagag
ataaaatcat ctcaaaaaaa tgggtctact aaaatattat tccatctatt
540acaataaatt cacagaatag tcttttaagt aagtctactc tgaatttttt
taaaaggaga 600gggtaaagag tgtgtgcgac ctcttctcaa tttactcaga
ttaccgagca taattcccgt 660cgttccgcaa actatcagcc aaacctgtgg
aatttcgaat tcctgcaatc cctggagaac 720gacctgaaag tggaaaagct
ggaggagaaa gcgaccaaac tggaggaaga agttcgctgc 780atgatcaacc
gtgtagacac ccagccgctg tccctgctgg agctgatcga cgatgtgcag
840cgcctgggtc tgacctacaa atttgaaaaa gacatcatta aagccctgga
aaacatcgta 900ctgctggacg aaaacaaaaa gaacaaatct gacctgcacg
caaccgctct gtctttccgt 960ctgctgcgtc agcacggttt cgaggtttct
caggatgttt ttgagcgttt caaggataaa 1020gaaggtggtt tcagcggtga
actgaaaggt gacgtccaag gcctgctgag cctgtatgaa 1080gcgtcttacc
tgggtttcga gggtgagaac ctgctggagg aggcgcgtac cttttccatc
1140acccacctga agaacaacct gaaagaaggc attaatacca aggttgcaga
acaagtgagc 1200cacgccctgg aactgccata tcaccagcgt ctgcaccgtc
tggaggcacg ttggttcctg 1260gataaatacg aaccgaaaga accgcatcac
cagctgctgc tggagctggc gaagctggat 1320tttaacatgg tacagaccct
gcaccagaaa gagctgcaag atctgtcccg ctggtggacc 1380gagatgggcc
tggctagcaa actggatttt gtacgcgacc gcctgatgga agtttatttc
1440tgggcactgg gtatggcgcc agacccgcag tttggtgaat gtcgcaaagc
tgttactaaa 1500atgtttggtc tggtgacgat catcgatgac gtgtatgacg
tttatggcac tctggacgaa 1560ctgcaactgt tcaccgatgc tgtagagcgc
tgggacgtta acgctattaa caccctgccg 1620gactatatga aactgtgttt
cctggcactg tacaacaccg ttaacgacac gtcctattct 1680attctgaaag
agaaaggtca taacaacctg tcctatctga cgaaaagctg gcgtgaactg
1740tgcaaagcct ttctgcaaga ggcgaaatgg tccaacaaca aaattatccc
ggctttctcc 1800aagtacctgg aaaacgccag cgtttcctcc tccggtgtag
cgctgctggc gccgtcttac 1860ttttccgtat gccagcagca ggaagacatc
tccgaccacg cgctgcgttc cctgaccgac 1920ttccatggtc tggtgcgttc
tagctgcgtt atcttccgcc tgtgcaacga tctggccacc 1980tctgcggcgg
agctggaacg tggcgagact accaattcta tcattagcta catgcacgaa
2040aacgatggta ccagcgagga acaggcccgc gaagaactgc gtaaactgat
cgacgccgaa 2100tggaaaaaga tgaatcgtga acgcgttagc gactccaccc
tgctgcctaa agcgttcatg 2160gaaatcgcag ttaacatggc acgtgtttcc
cactgcacct accagtatgg cgatggtctg 2220ggtcgcccag actacgcgac
tgaaaaccgc atcaaactgc tgctgattga ccctttcccg 2280attaaccagc
tgatgtatgt ctaaaaaaaa ccggccttgg ccccgccggt tttttattat
2340ttttcttcct ccgcatgttc aatccgctcc ataatcgacg gatggctccc
tctgaaaatt 2400ttaacgagaa acggcgggtt gacccggctc agtcccgtaa
cggccaagtc ctgaaacgtc 2460tcaatcgccg cttcccggtt tccggtcagc
tcaatgccgt aacggtcggc ggcgttttcc 2520tgataccggg agacggcatt
cgtaatcgga tcctctagag tcgacctgca ggcatgcaag 2580ctttgcctcg
cgcgtttcgg tgatgacggt gaaaacctct gacacatgca gctcccggag
2640acggtcacag cttgtctgta agcggatgcc gggagcagac aagcccgtca
gggcgcgtca 2700gcgggtgttg gcgggtgtcg gggcgcagcc atgacccagt
cacgtagcga tagcggagtg 2760tatactggct taactatgcg gcatcagagc
agattgtact gagagtgcac catatgcggt 2820gtgaaatacc gcacagatgc
gtaaggagaa aataccgcat caggcgctct tccgcttcct 2880cgctcactga
ctcgctgcgc tcggtcgttc ggctgcggcg agcggtatca gctcactcaa
2940aggcggtaat acggttatcc acagaatcag gggataacgc aggaaagaac
atgtgagcaa 3000aaggccagca aaaggccagg aaccgtaaaa aggccgcgtt
gctggcgttt ttccataggc 3060tccgcccccc tgacgagcat cacaaaaatc
gacgctcaag tcagaggtgg cgaaacccga 3120caggactata aagataccag
gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc 3180cgaccctgcc
gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt
3240ctcaatgctc acgctgtagg tatctcagtt cggtgtaggt cgttcgctcc
aagctgggct 3300gtgtgcacga accccccgtt cagcccgacc gctgcgcctt
atccggtaac tatcgtcttg 3360agtccaaccc ggtaagacac gacttatcgc
cactggcagc agccactggt aacaggatta 3420gcagagcgag gtatgtaggc
ggtgctacag agttcttgaa gtggtggcct aactacggct 3480acactagaag
gacagtattt ggtatctgcg ctctgctgaa gccagttacc ttcggaaaaa
3540gagttggtag ctcttgatcc ggcaaacaaa ccaccgctgg tagcggtggt
ttttttgttt 3600gcaagcagca gattacgcgc agaaaaaaag gatctcaaga
agatcctttg atcttttcta 3660cggggtctga cgctcagtgg aacgaaaact
cacgttaagg gattttggtc atgagattat 3720caaaaaggat cgaagtcggt
tcagaaaaag aaggatatgg atctggagct gtaatataaa 3780aaccttcttc
aactaacggg gcaggttagt gacattagaa aaccgactgt aaaaagtaca
3840gtcggcatta tctcatatta taaaagccag tcattaggcc tatctgacaa
ttcctgaata 3900gagttcataa acaatcctgc atgataacca tcacaaacag
aatgatgtac ctgtaaagat 3960agcggtaaat atattgaatt acctttatta
atgaattttc ctgctgtaat aatgggtaga 4020aggtaattac tattattatt
gatatttaag ttaaacccag taaatgaagt ccatggaata 4080atagaaagag
aaaaagcatt ttcaggtata ggtgttttgg gaaacaattt aaaagaacca
4140ttatatttct ctacatcaga aaggtataaa tcataaaact ctttgaagtc
attctttaca 4200ggagtccaaa taccagagaa tgttttagat acaccatcaa
aaattgtata aagtggctct 4260aacttatccc aataacctaa ctctccgtcg
ctattgtaac cagttctaaa agctgtattt 4320gagtttatca cccttgtcac
taagaaaata aatgcagggt aaaatttata tccttcttgt 4380tttatgtttc
ggtataaaac actaatatca atttctgtgg ttatactaaa agtcgtttgt
4440tggttcaaat aatgattaaa tatctctttt ctcttccaat tgtctaaatc
aattttatta 4500aagttcattt gatatgcctc ctaaattttt atctaaagtg
aatttaggag gcttacttgt 4560ctgctttctt cattagaatc aatccttttt
taaagtcaat attactgtaa cataaatata 4620tattttaaaa atatcccact
ttatccaatt ttcgtttgtt gaactaatgg gtgctttagt 4680tgaagaataa
agaccacatt aaaaaatgtg gtcttttgtg tttttttaaa ggatttgagc
4740gtacgcgaaa aatccttttc tttctttctt atcttgataa taagggtaac
tattgccggt 4800tgtccattca tggctgaact ctgcttcctc tgttgacatg
acacacatca tctcaatatc 4860cgaatagggc ccatcagtct gacgaccaag
agagccataa acaccaatag ccttaacatc 4920atccccatat ttatccaata
ttcgttcctt aatttcatga acaatcttca ttctttcttc 4980tctagtcatt
attattggtc cattcactat tctcattccc ttttcagata attttagatt
5040tgcttttcta aataagaata tttggagagc accgttctta ttcagctatt
aataactcgt 5100cttcctaagc atccttcaat ccttttaata acaattatag
catctaatct tcaacaaact 5160ggcccgtttg ttgaactact ctttaataaa
ataatttttc cgttcccaat tccacattgc 5220aataatagaa aatccatctt
catcggcttt ttcgtcatca tctgtatgaa tcaaatcgcc 5280ttcttctgtg
tcatcaaggt ttaatttttt atgtatttct tttaacaaac caccatagga
5340gattaacctt ttacggtgta aaccttcctc caaatcagac aaacgtttca
aattcttttc 5400ttcatcatcg gtcataaaat ccgtatcctt tacaggatat
tttgcagttt cgtcaattgc 5460cgattgtata tccgatttat atttattttt
cggtcgaatc atttgaactt ttacatttgg 5520atcatagtct aatttcattg
cctttttcca aaattgaatc cattgttttt gattcacgta 5580gttttctgtt
attctaaaat aagttggttc cacacatacc attacatgca tgtgctgatt
5640ataagaatta tctttattat ttattgtcac atccgttgca cgcataaaac
caacaagatt 5700tttattaatt tttttatatt gcatcattcg gcgaaatcct
tgagccatat ctgtcaaact 5760cttatttaat tcttcgccat cataaacatt
tttaactgtt aatgtgagaa acaaccaacg 5820aactgttggc ttttgtttaa
taacttcagc aacaaccttt tgtgactgaa tgccatgttt 5880cattgctctc
ctccagttgc acattggaca aagcctggat ttgcaaaacc acactcgata
5940ccactttctt tcgcctgttt cacgattttg tttatactct aatatttcag
cacaatcttt 6000tactctttca gcctttttaa attcaagaat atgcagaagt
tcaaagtaat caacattagc 6060gattttcttt tctctccatg gtctcacttt
tccacttttt gtcttgtcca ctaaaaccct 6120tgatttttca tctgaataaa
tgctactatt aggacacata atattaaaag aaacccccat 6180ctatttagtt
atttgtttag tcacttataa ctttaacaga tggggttttt ctgtgcaacc
6240aattttaagg gttttcaata ctttaaaaca catacatacc aacacttcaa
cgcacctttc 6300agcaactaaa ataaaaatga cgttatttct atatgtatca
agataagaaa gaacaagttc 6360aaaaccatca aaaaaagaca ccttttcagg
tgcttttttt attttataaa ctcattccct 6420gatctcgact tcgttctttt
tttacctctc ggttatgagt tagttcaaat tcgttctttt 6480taggttctaa
atcgtgtttt tcttggaatt gtgctgtttt atcctttacc ttgtctacaa
6540accccttaaa aacgttttta aaggctttta agccgtctgt acgttcctta ag
659261695DNAArtificial SequenceSynthetic Construct 6atgtgtgcaa
cctcctccca gtttactcag attaccgagc ataattctcg acgatctgct 60aactaccagc
cgaacctttg gaactttgag tttctccagt ctctcgaaaa tgacctgaag
120gtggaaaagc tcgaggagaa ggcgaccaaa ctcgaggagg aggtgcgatg
tatgatcaac 180agagttgaca cccaacccct gtctttgctg gagctgatcg
acgatgtgca gcggttgggt 240ttgacttata aattcgagaa ggacattatc
aaggcactgg agaacattgt gctcctcgac 300gagaacaaga agaacaagtc
tgatcttcac gctaccgctc tctctttccg acttcttcga 360caacacggct
tcgaggtgtc gcaggacgtc ttcgagagat ttaaggacaa ggagggagga
420tttagcggcg agctgaaggg agacgttcag ggtcttctct ccttgtacga
ggcgtcctac 480ctgggattcg agggagagaa cctcctggag gaagctcgta
cattttccat cactcacctt 540aagaataacc ttaaggaggg aattaacacc
aaggtggccg agcaggtttc tcacgccctg 600gagctcccct accaccaacg
gctccataga ctggaggctc gttggttcct ggacaaatat 660gagccaaagg
agcctcatca tcagttgctg ttggagttgg ccaagctgga cttcaatatg
720gttcagacgc tgcaccaaaa ggagttgcag gacctgtctc gatggtggac
cgagatggga 780ttggcctcga agctggattt tgtccgtgac cgacttatgg
aggtctattt ttgggccctt 840ggaatggcgc ctgaccccca gttcggagag
tgccggaagg cggtgacgaa gatgttcggt 900cttgtgacta tcatcgacga
cgtctacgat gtctacggca cactcgacga gttgcagctg 960ttcactgacg
ccgtcgagcg atgggatgtg aacgccatta atactctccc tgactatatg
1020aagctgtgct tcctggctct gtacaacact gtcaacgata cctcgtactc
tatcctcaag 1080gagaagggac acaacaatct ctcctacttg accaaatcct
ggcgagaact gtgcaaggct 1140tttctgcagg aggctaaatg gtccaataac
aagatcattc ctgctttttc taaatacctg 1200gaaaatgcct cggtgtcgag
ctctggcgtc gcccttctgg ccccttccta cttctccgtc 1260tgccagcagc
aggaggatat ttccgatcat gctcttagat cgctgaccga ttttcacggc
1320ctcgtgcgat cttcctgcgt gatttttcgg ttgtgtaatg accttgcgac
ctctgctgct 1380gagctggaac gaggcgagac tacaaattcc attatttctt
acatgcacga aaacgatgga 1440acatctgaag aacaggctag agaggaactg
cgaaagttga tcgacgccga gtggaagaag 1500atgaacagag agcgggtgtc
cgactctacc ctgcttccca aggccttcat ggagatcgcc 1560gtgaacatgg
ctcgagtttc ccattgtact taccagtacg gtgacggcct gggtcgtccg
1620gactacgcta cagagaaccg aatcaagctg ctgctcatcg accccttccc
tatcaaccaa 1680ttgatgtacg tgtaa 169578191DNAArtificial
SequenceSynthetic Construct 7tcgaccggtg agaagaacag catcgggaca
agggaaggaa gaacaaagac aaagaaaaca 60aaagaaagca attgaaaaca aaacaaaaca
attttcattc cttctcttat cattcctttt 120cttttctttt ctctcattca
acgcactcca tcgtatccgt attcctctta ttttttctct 180ttctctatat
ccatttcttt ctctctaggt gtgtcctctc tctctcttca atttctctac
240tccgcattcc aacgcatcct tcccccaacc tcccatttcc tccttacggc
ccgatagcga 300tcgtctttcc ctcgctatca ctcgctaccg gcccctcctc
tgcaccgtaa cctcctacgt 360atttaccata tcataaagtt ttttccgacg
cttatcgctg accccctgtc gccctcctat 420tggcttccgg attatcttct
tgtccataag gtgatccatg cttcctgaag attcccgaaa 480tgtgtccact
ttggcgggga atcattccat ccacttcttt ctctctcgct ttcctcattc
540ggcgctcccc ttccgcgtct cattggtctt ccgctccgtt tttgctttgc
cgatgttact 600tggggagagg tgcgataatc ctttcgcaaa aactcggttt
gacgcctccc atggtataaa 660tagtgggtgg tggacaggtg ccttcgcttt
tctttaagca agagaatccc attgtcttga 720ctatcacgaa ttcacataca
ttatgaagat caccgctgtc attgcccttt tattctcact 780tgctgctgcc
tcacctattc cagttgccga tcctggtgtg gtttcagtta gcaagtcata
840tgctgatttc cttcgtgttt accaaagttg gaacactttt gctaatcctg
atagacccaa 900ccttaagaag agaaatgata cacctgcaag tggatatcaa
gttgaaaaag tcgtaatttt 960gtcacgtcac ggtgttaggg cccctacaaa
aatgactcaa accatgcgtg atgtcactcc 1020taatacatgg ccagaatggc
ccgttaaatt aggatatatt acaccaagag gtgaacactt 1080gatatcactt
atgggcggtt tttaccgtca aaaattccag caacaaggaa tcctttctca
1140gggctcctgt cctactccta actccatata tgtctgggct gacgtcgatc
agcgtacttt 1200aaaaactggt gaagcattcc ttgctggttt ggcaccacaa
tgtggcttga caattcatca 1260ccaacaaaat cttgagaaag ctgatcctct
ttttcatccc gttaaagctg gaacctgctc 1320tatggataaa actcaagttc
aacaagctgt tgagaaggag gcacaaactc ctatagataa 1380tttgaatcaa
cattacatcc cctttttagc tttaatgaat acaacattaa attttagtac
1440ttctgcctgg tgccaaaaac actctgctga taaatcctgt gacctaggtt
tatccatgcc 1500ttctaaattg tccataaaag ataatggtaa caaggtcgca
ttggatggag ctattggtct 1560atcctctact ttggccgaga tttttcttct
tgaatatgct caaggcatgc ctcaagctgc 1620ttggggtaac atccactcag
agcaagagtg ggcttccttg ctaaagttgc ataatgttca 1680attcgatttg
atggcccgaa caccttatat tgctcgacat aacggtactc ctttattgca
1740agctatatca aatgccctta atcccaacgc cactgaatca aaacttccag
atatttcacc 1800tgataacaaa atattgttca ttgcaggtca tgacacaaat
attgctaata tagccggcat 1860gttaaatatg cgttggacat taccaggtca
accagataat actcctccag gtggtgccct 1920agtatttgaa cgtcttgctg
ataaaagtgg aaaacaatat gtttctgtat ctatggttta 1980tcaaacacta
gaacaacttc gatcacagac tcccctttct ctaaatcagc ctgccggatc
2040tgttcaactt aaaattccag gttgcaatga tcaaacagcc gagggttact
gtcctctttc 2100cacttttaca agagttgttt cccaatctgt tgaacctgga
tgccaacttc aataatgagg 2160atccaagtaa gggaatgaga atgtgatcca
cttttaattc ctaatgaata catgcctata 2220gttcttttct tttgttcttt
atgtcgtttt tcgatggtac ggccgttgtc aatctcagtt 2280tgtgtgcttg
gttgcagctt ggtttcaaat ctgttcatct catgaatctt ttaccatttc
2340accacacgtt tataccattc tctcatagaa tcttcatcaa accatctcgg
ggttagagtg 2400gaaagaaagt cttgttcttt tatttccttt tttccatctt
caaggctttt cttttcttcc 2460tcctcctcgt tcatcttgag gtttgacgtg
tctgtttaga attttgagct gttgcagcat 2520cttatttttt gttttgcgaa
aacgaagcgc tttactctct tcatcagttg gacgattgta 2580cctttgaaaa
ccaactactt ttgcatgttt tgtatagaaa tcaatgatat tagaatccca
2640tcctttaatt tctttcaaag tagttgagct atagttaagt gtaagggccc
tactgcgaaa 2700gcatttgcca aggatgtttt cattaatcaa gaacgaaagt
taggggatcg aagacgatca 2760gataccgtcg tagtcttaac cataaactat
gccgactagg gatcgggcaa tgtttcattt 2820atcgacttgc tcggcacctt
acgagaaatc aaagtctttg ggttccgggg ggagtatggt 2880cgcaaggctg
aaacttaaag gaattgacgg aagggcacca caatggagtg gagcctgcgg
2940cttaatttga ctcaacacgg ggaaactcac caggtccaga catagtaagg
attgacagat 3000tgagagctct ttcttgattc tatgggtggt ggtgcatggc
cgttcttagt tggtggagtg 3060atttgtctgc ttaattgcga taacgaacga
gaccttaacc tgctaaatag ctggatcagc 3120cattttggct gatcattagc
ttcttagagg gactattggc ataaagccaa tggaagtttg 3180aggcaataac
aggtctgtga tgcccttaga tgttctgggc cgcacgcgcg ctacactgac
3240ggagccaacg agttgaaaaa aatcttttga ttttttatcc ttggccggaa
ggtctgggta 3300atcttgttaa actccgtcgt gctggggata gagcattgca
attattgcgg ccgctcctca 3360attcgatgtt gcagatttta caagttttta
aaatgtattt cattattact ttttatatgc 3420ctaataaaaa agccatagtt
taatctatag ataacttttt ttccagtgca ctaacggacg 3480ttacattccc
atacaaaact gcgtagttaa agctaaggaa aagttaatat catgttaatt
3540aaatacgcta tttacaataa gacattgaac tcatttatat cgttgaatat
gaataaccaa 3600tttcagcgaa tttttaacaa acatcgttca cctcgtttaa
ggatatcttg tgtatggggt 3660gttgacttgc tttatcgaat aattaccgta
cctgtaattg gcttgctgga tatagcggta 3720gtctaatatc tagcaaaaat
cttttgggtg aaaaggcttg caatttcacg acaccgaact 3780atttgtcatt
ttttaataag gaagttttcc ataaattcct gtaattctcg gttgatctaa
3840ttgaaaagag tagttttgca tcacgatgag gagggctttt gtagaaagaa
atacgaacga 3900aacgaaaatc agcgttgcca tcgctttgga caaagctccc
ttacctgaag agtcgaattt 3960tattgatgaa cttataactt ccaagcatgc
aaaccaaaag ggagaacaag taatccaagt 4020agacacggga attggattct
tggatcacat gtatcatgca ctggctaaac atgcaggctg 4080gagcttacga
ctttactcaa gaggtgattt aatcatcgat gatcatcaca ctgcagaaga
4140tactgctatt gcacttggta ttgcattcaa gcaggctatg ggtaactttg
ccggcgttaa 4200aagatttgga catgcttatt gtccacttga cgaagctctt
tctagaagcg tagttgactt 4260gtcgggacgg ccctatgctg ttatcgattt
gggattaaag cgtgaaaagg ttggggaatt 4320gtcctgtgaa atgatccctc
acttactata ttccttttcg gtagcagctg gaattacttt 4380gcatgttacc
tgcttatatg gtagtaatga ccatcatcgt gctgaaagcg cttttaaatc
4440tctggctgtt gccatgcgcg cggctactag tcttactgga agttctgaag
tcccaagcac 4500gaagggagtg ttgtaaagat gaattggatt atgtcaggaa
aagaacgaca attttgcatc 4560caaattgtct aaattttaga gttgcttgaa
aacaatagaa ccttacttgc tttataatta 4620cgttaattag aagcgttatc
tcgtgaagga atatagtacg tagccgtata aattgaattg 4680aatgttcagc
ttatagaata gagacacttt gctgttcaat gcgtcgtcac ttaccatact
4740cactttatta tacgacttta agtataaact ccgcggttat ggtaaaatta
atgatgcaca 4800aacgtccgat tccatatggg tacactacaa ttaaatactt
ttaagctgat cccccacaca 4860ccatagcttc aaaatgtttc tactcctttt
ttactcttcc agattttctc ggactccgcg 4920catcgccgta ccacttcaaa
acacccaagc acagcatact aaattttccc tctttcttcc 4980tctagggtgt
cgttaattac ccgtactaaa ggtttggaaa agaaaaaaga gaccgcctcg
5040tttctttttc ttcgtcgaaa aaggcaataa aaatttttat cacgtttctt
tttcttgaaa 5100tttttttttt tagttttttt ctctttcagt gacctccatt
gatatttaag ttaataaacg 5160gtcttcaatt tctcaagttt cagtttcatt
tttcttgttc tattacaact ttttttactt 5220cttgttcatt agaaagaaag
catagcaatc taatctaagg gcggtgttga caattaatca 5280tcggcatagt
atatcggcat agtataatac gacaaggtga ggaactaaac catggccaag
5340ttgaccagtg ccgttccggt gctcaccgcg cgcgacgtcg ccggagcggt
cgagttctgg 5400accgaccggc tcgggttctc ccgggacttc gtggaggacg
acttcgccgg tgtggtccgg 5460gacgacgtga ccctgttcat cagcgcggtc
caggaccagg tggtgccgga caacaccctg 5520gcctgggtgt gggtgcgcgg
cctggacgag ctgtacgccg agtggtcgga ggtcgtgtcc 5580acgaacttcc
gggacgcctc cgggccggcc atgaccgaga tcggcgagca gccgtggggg
5640cgggagttcg ccctgcgcga cccggccggc aactgcgtgc acttcgtggc
cgaggagcag 5700gactgacacg tccgacggcg gcccacgggt cccaggcctc
ggagatccgt cccccttttc 5760ctttgtcgat atcatgtaat tagttatgtc
acgcttacat tcacgccctc cccccacatc 5820cgctctaacc gaaaaggaag
gagttagaca acctgaagtc taggtcccta tttatttttt 5880tatagttatg
ttagtattaa gaacgttatt tatatttcaa atttttcttt tttttctgta
5940cagacgcgag cttcccagta aatgtgccat ctcgtaggca gaaaacggtt
cccccgtagg 6000gtctctctct tggcctcctt tctaggtcgg gctgattgct
cttgaagctc tctagggggg 6060ctcacaccat aggcagataa cgttccccac
cggctcgcct cgtaagcgca caaggactgc 6120tcccaaagat cctaggcggg
attttgccga tttcggccta aaggaaccgg aacacgtaga 6180aagccagtcc
gcagaaacgg tgctgacccc ggatgaatgt cagctactgg gctatctgga
6240caagggaaaa cgcaagcgca aagagaaagc aggtagcttg cagtgggctt
acatggcgat 6300agctagactg ggcggtttta tggacagcaa gcgaaccgga
attgccagct ggggcgccct 6360ctggtaaggt tgggaagccc tgcaaagtaa
actggatggc tttcttgccg ccaaggatct 6420gatggcgcag gggatcaaga
tctgatcaag agacaggatg aggatcgttt cgcatgattg 6480aacaagatgg
attgcacgca ggttctccgg ccgcttgggt ggagaggcta ttcggctatg
6540actgggcaca acagacaatc ggctgctctg atgccgccgt gttccggctg
tcagcgcagg 6600ggcgcccggt tctttttgtc aagaccgacc tgtccggtgc
cctgaatgaa ctgcaggacg 6660aggcagcgcg gctatcgtgg ctggccacga
cgggcgttcc ttgcgcagct gtgctcgacg 6720ttgtcactga agcgggaagg
gactggctgc tattgggcga agtgccgggg caggatctcc 6780tgtcatctcg
ccttgctcct gccgagaaag tatccatcat ggctgatgca atgcggcggc
6840tgcatacgct tgatccggct acctgcccat tcgaccacca agcgaaacat
cgcatcgagc 6900gagcacgtac tcggatggaa gccggtcttg tcgatcagga
tgatctggac gaagagcatc 6960aggggctcgc gccagccgaa ctgttcgcca
ggctcaaggc gcgcatgccc gacggcgagg 7020atctcgtcgt gatccatggc
gatgcctgct tgccgaatat catggtggaa aatggccgct 7080tttctggatt
caacgactgt ggccggctgg gtgtggcgga ccgctatcag gacatagcgt
7140tggatacccg tgatattgct gaagagcttg gcggcgaatg ggctgaccgc
ttcctcgtgc 7200tttacggtat cgccgctccc gattcgcagc gcatcgcctt
ctatcgcctt cttgacgagt 7260tcttctgaat tgaaaaaggt accaagttta
ctcatatata ctttagattg atttaaaact 7320tcatttttaa tttaaaagga
tctaggtgaa gatccttttt gataatctca tgaccaaaat 7380cccttaacgt
gagttttcgt tccactgagc gtcagacccc gtagaaaaga tcaaaggatc
7440ttcttgagat cctttttttc tgcgcgtaat ctgctgcttg caaacaaaaa
aaccaccgct 7500accagcggtg gtttgtttgc cggatcaaga gctaccaact
ctttttccga aggtaactgg 7560cttcagcaga gcgcagatac caaatactgt
ccttctagtg tagccgtagt taggccacca 7620cttcaagaac tctgtagcac
cgcctacata cctcgctctg ctaatcctgt taccagtggc 7680tgctgccagt
ggcgataagt cgtgtcttac cgggttggac tcaagacgat agttaccgga
7740taaggcgcag cggtcgggct gaacgggggg ttcgtgcaca cagcccagct
tggagcgaac 7800gacctacacc gaactgagat acctacagcg tgagcattga
gaaagcgcca cgcttcccga 7860agggagaaag gcggacaggt atccggtaag
cggcagggtc ggaacaggag agcgcacgag 7920ggagcttcca gggggaaacg
cctggtatct ttatagtcct gtcgggtttc gccacctctg 7980acttgagcgt
cgatttttgt gatgctcgtc aggggggcgg agcctatgga aaaacgccag
8040caacgcggcc tttttacggt tcctggcctt ttgctggcct tttgctcaca
tgttctttcc 8100tgcgttatcc cctgattctg tggataaccg tattaccgcc
tttgagtgag ctgataccgc 8160tcgccgcagc cgaacgaccg agcgcagcga g
819181724DNAArtificial SequenceSynthetic Construct 8gaattcaaaa
caaaatgtgt gcaacctcct cccagtttac tcagattacc gagcataatt 60ctcgacgatc
tgctaactac cagccgaacc tttggaactt tgagtttctc cagtctctcg
120aaaatgacct gaaggtggaa aagctcgagg agaaggcgac caaactcgag
gaggaggtgc 180gatgtatgat caacagagtt gacacccaac ccctgtcttt
gctggagctg atcgacgatg 240tgcagcggtt gggtttgact tataaattcg
agaaggacat tatcaaggca ctggagaaca 300ttgtgctcct cgacgagaac
aagaagaaca agtctgatct tcacgctacc gctctctctt 360tccgacttct
tcgacaacac ggcttcgagg tgtcgcagga cgtcttcgag agatttaagg
420acaaggaggg aggatttagc ggcgagctga agggagacgt tcagggtctt
ctctccttgt 480acgaggcgtc ctacctggga ttcgagggag agaacctcct
ggaggaagct cgtacatttt 540ccatcactca ccttaagaat aaccttaagg
agggaattaa caccaaggtg gccgagcagg 600tttctcacgc cctggagctc
ccctaccacc aacggctcca tagactggag gctcgttggt 660tcctggacaa
atatgagcca aaggagcctc atcatcagtt gctgttggag ttggccaagc
720tggacttcaa tatggttcag acgctgcacc aaaaggagtt gcaggacctg
tctcgatggt 780ggaccgagat gggattggcc tcgaagctgg attttgtccg
tgaccgactt atggaggtct 840atttttgggc ccttggaatg gcgcctgacc
cccagttcgg agagtgccgg aaggcggtga 900cgaagatgtt cggtcttgtg
actatcatcg acgacgtcta cgatgtctac ggcacactcg 960acgagttgca
gctgttcact gacgccgtcg agcgatggga tgtgaacgcc attaatactc
1020tccctgacta tatgaagctg tgcttcctgg ctctgtacaa cactgtcaac
gatacctcgt 1080actctatcct caaggagaag ggacacaaca atctctccta
cttgaccaaa tcctggcgag 1140aactgtgcaa ggcttttctg caggaggcta
aatggtccaa taacaagatc attcctgctt 1200tttctaaata cctggaaaat
gcctcggtgt cgagctctgg cgtcgccctt ctggcccctt 1260cctacttctc
cgtctgccag cagcaggagg atatttccga tcatgctctt agatcgctga
1320ccgattttca cggcctcgtg cgatcttcct gcgtgatttt tcggttgtgt
aatgaccttg 1380cgacctctgc tgctgagctg gaacgaggcg agactacaaa
ttccattatt tcttacatgc 1440acgaaaacga tggaacatct gaagaacagg
ctagagagga actgcgaaag ttgatcgacg 1500ccgagtggaa gaagatgaac
agagagcggg tgtccgactc taccctgctt cccaaggcct 1560tcatggagat
cgccgtgaac atggctcgag tttcccattg tacttaccag tacggtgacg
1620gcctgggtcg tccggactac gctacagaga accgaatcaa gctgctgctc
atcgacccct 1680tccctatcaa ccaattgatg tacgtgtaat agtctagagg atcc
172491641DNAArtificial SequenceSynthetic Construct 9tgaagcacgt
agaagcgcca actacgaacc caactcctgg gattatgact ttctgctgtc 60ttctgacacc
gacgagtcga tcgaggttta taaggataag gccaagaaac ttgaggccga
120ggtcagacga gagattaaca acgagaaggc cgagttcctg acccttcttg
agctgatcga 180caacgttcaa cgacttggtc ttggttaccg tttcgaatcc
gatatccgac gtgcattgga 240tcgatttgtc tcgtccggag gtttcgatgg
tgtgactaag acgtcgctgc acgccacagc 300tctttccttc agactgttgc
ggcagcatgg atttgaggtt tcccaggaag ccttttctgg 360tttcaaggat
cagaacggaa actttttgga gaatctcaag gaggacacca aggccatcct
420gtcgttgtat gaggcctcgt tcctggctct tgagggcgag aatattctgg
atgaggctcg 480ggttttcgct atttcgcacc tgaaggagtt gtcggaggaa
aagatcggaa aggaactggc 540cgagcaggtc aaccatgcac ttgaacttcc
cctgcatcga cgtacccagc gactggaggc 600cgtgtggagc atcgaggcgt
acagaaaaaa ggaggatgct aatcaggttc tgctcgaact 660cgctatcctc
gactataaca tgattcagag cgtgtaccag cgtgacttgc gagagacaag
720ccggtggtgg cgacgggtgg gactggccac gaagctccac tttgctaaag
atcgattgat 780tgagtcgttc tactgggcag tgggtgtggc ctttgagcct
cagtactccg actgccgaaa 840ctccgttgca aagatgtttt cttttgtcac
tatcatcgac gacatctacg atgtttacgg 900cactctcgat gaactcgaac
tcttcacgga cgctgtcgag cgatgggatg tgaatgccat 960taatgatctg
ccagattata tgaagttgtg tttcttggcg ctctacaaca caattaatga
1020aattgcctac gacaacctca aggacaaggg agagaacatt ctgccctacc
ttactaaagc 1080ctgggccgac ctgtgtaacg cctttttgca ggaagccaag
tggctctata acaaatctac 1140tcctacattt gatgactact tcggcaacgc
ttggaagtct tccagcggcc ctctccagtt 1200gatcttcgct tactttgcag
tggtccagaa catcaagaaa gaggagattg agaacctcca 1260gaagtatcac
gacatcatct cccgaccttc gcacatcttt cgactgtgca atgaccttgc
1320ctccgcatcc gctgagattg cccgaggaga aacagccaat tctgtgtcgt
gttacatgcg 1380tacaaagggc atctccgagg agctggctac cgagtctgtg
atgaacctga tcgatgaaac 1440ctgtaagaag atgaacaaag agaaactggg
cggttctctg ttcgccaaac catttgttga 1500aaccgcgatc aatctggctc
gtcagtctca ttgtacttac cataacggtg acgcgcacac 1560ttcgccggac
gaattgaccc gtaagcgtgt gctttcggtg attaccgagc cgatcctgcc
1620gttcgaaaga taataggatc c 1641108804DNAArtificial
SequenceSynthetic Construct 10gctggtacca tatgggaatt cgaagctttc
tagaacaaaa actcatctca gaagaggatc 60tgaatagcgc cgtcgaccat catcatcatc
atcattgagt ttaaacggtc tccagcttgg 120ctgttttggc ggatgagaga
agattttcag cctgatacag attaaatcag aacgcagaag 180cggtctgata
aaacagaatt tgcctggcgg cagtagcgcg gtggtcccac ctgaccccat
240gccgaactca gaagtgaaac gccgtagcgc cgatggtagt gtggggtctc
cccatgcgag 300agtagggaac tgccaggcat caaataaaac gaaaggctca
gtcgaaagac tgggcctttc 360gttttatctg ttgtttgtcg gtgaacgctc
tcctgagtag gacaaatccg ccgggagcgg 420atttgaacgt tgcgaagcaa
cggcccggag ggtggcgggc aggacgcccg ccataaactg 480ccaggcatca
aattaagcag aaggccatcc tgacggatgg cctttttgcg tttctacaaa
540ctctttttgt ttatttttct aaatacattc aaatatgtat ccgcttaacc
ggaattgcca 600gctggggcgc cctctggtaa ggttgggaag ccctgcaaag
taaactggat ggctttctcg 660ccgccaagga tctgatggcg caggggatca
agctctgatc aagagacagg atgaggatcg 720tttcgcatga ttgaacaaga
tggattgcac gcaggttctc cggccgcttg ggtggagagg 780ctattcggct
atgactgggc acaacagaca atcggctgct ctgatgccgc cgtgttccgg
840ctgtcagcgc aggggcgccc ggttcttttt gtcaagaccg acctgtccgg
tgccctgaat 900gaactgcaag acgaggcagc gcggctatcg tggctggcca
cgacgggcgt tccttgcgca 960gctgtgctcg acgttgtcac tgaagcggga
agggactggc tgctattggg cgaagtgccg 1020gggcaggatc tcctgtcatc
tcaccttgct cctgccgaga aagtatccat catggctgat 1080gcaatgcggc
ggctgcatac gcttgatccg gctacctgcc cattcgacca ccaagcgaaa
1140catcgcatcg agcgagcacg tactcggatg gaagccggtc ttgtcgatca
ggatgatctg 1200gacgaagagc atcaggggct cgcgccagcc gaactgttcg
ccaggctcaa ggcgagcatg 1260cccgacggcg aggatctcgt cgtgacccat
ggcgatgcct gcttgccgaa tatcatggtg 1320gaaaatggcc gcttttctgg
attcatcgac tgtggccggc tgggtgtggc ggaccgctat 1380caggacatag
cgttggctac ccgtgatatt gctgaagagc ttggcggcga atgggctgac
1440cgcttcctcg tgctttacgg tatcgccgct cccgattcgc agcgcatcgc
cttctatcgc 1500cttcttgacg agttcttctg acatgaccaa aatcccttaa
cgtgagtttt cgttccactg 1560agcgtcagac cccgtagaaa agatcaaagg
atcttcttga gatccttttt ttctgcgcgt 1620aatctgctgc ttgcaaacaa
aaaaaccacc gctaccagcg gtggtttgtt tgccggatca 1680agagctacca
actctttttc cgaaggtaac tggcttcagc agagcgcaga taccaaatac
1740tgtccttcta gtgtagccgt agttaggcca ccacttcaag aactctgtag
caccgcctac 1800atacctcgct ctgctaatcc tgttaccagt ggctgctgcc
agtggcgata agtcgtgtct 1860taccgggttg gactcaagac gatagttacc
ggataaggcg cagcggtcgg gctgaacggg 1920gggttcgtgc acacagccca
gcttggagcg aacgacctac accgaactga gatacctaca 1980gcgtgagcta
tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca ggtatccggt
2040aagcggcagg gtcggaacag gagagcgcac gagggagctt ccagggggaa
acgcctggta 2100tctttatagt cctgtcgggt ttcgccacct ctgacttgag
cgtcgatttt tgtgatgctc 2160gtcagggggg cggagcctat ggaaaaacgc
cagcaacgcg gcctttttac ggttcctggc 2220cttttgctgg ccttttgctc
acatgttctt tcctgcgtta tcccctgatt ctgtggataa 2280ccgtattacc
gcctttgagt gagctgatac cgctcgccgc agccgaacga ccgagcgcag
2340cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg tattttctcc
ttacgcatct 2400gtgcggtatt tcacaccgca tatggtgcac tctcagtaca
atctgctctg atgccgcata 2460gttaagccag tatacactcc gctatcgcta
cgtgactggg tcatggctgc gccccgacac 2520ccgccaacac ccgctgacgc
gccctgacgg gcttgtctgc tcccggcatc cgcttacaga 2580caagctgtga
ccgtctccgg gagctgcatg tgtcagaggt tttcaccgtc atcaccgaaa
2640cgcgcgaggc agcagatcaa ttcgcgcgcg aaggcgaagc ggcatgcatt
tacgttgaca 2700ccatcgaatg gtgcaaaacc tttcgcggta tggcatgata
gcgcccggaa gagagtcaat 2760tcagggtggt gaatgtgaaa ccagtaacgt
tatacgatgt cgcagagtat gccggtgtct 2820cttatcagac cgtttcccgc
gtggtgaacc aggccagcca cgtttctgcg aaaacgcggg 2880aaaaagtgga
agcggcgatg gcggagctga attacattcc caaccgcgtg gcacaacaac
2940tggcgggcaa acagtcgttg ctgattggcg ttgccacctc cagtctggcc
ctgcacgcgc 3000cgtcgcaaat tgtcgcggcg attaaatctc gcgccgatca
actgggtgcc agcgtggtgg 3060tgtcgatggt agaacgaagc ggcgtcgaag
cctgtaaagc ggcggtgcac aatcttctcg 3120cgcaacgcgt cagtgggctg
atcattaact atccgctgga tgaccaggat gccattgctg
3180tggaagctgc ctgcactaat gttccggcgt tatttcttga tgtctctgac
cagacaccca 3240tcaacagtat tattttctcc catgaagacg gtacgcgact
gggcgtggag catctggtcg 3300cattgggtca ccagcaaatc gcgctgttag
cgggcccatt aagttctgtc tcggcgcgtc 3360tgcgtctggc tggctggcat
aaatatctca ctcgcaatca aattcagccg atagcggaac 3420gggaaggcga
ctggagtgcc atgtccggtt ttcaacaaac catgcaaatg ctgaatgagg
3480gcatcgttcc cactgcgatg ctggttgcca acgatcagat ggcgctgggc
gcaatgcgcg 3540ccattaccga gtccgggctg cgcgttggtg cggatatctc
ggtagtggga tacgacgata 3600ccgaagacag ctcatgttat atcccgccgt
caaccaccat caaacaggat tttcgcctgc 3660tggggcaaac cagcgtggac
cgcttgctgc aactctctca gggccaggcg gtgaagggca 3720atcagctgtt
gcccgtctca ctggtgaaaa gaaaaaccac cctggcgccc aatacgcaaa
3780ccgcctctcc ccgcgcgttg gccgattcat taatgcagct ggcacgacag
gtttcccgac 3840tggaaagcgg gcagtgagcg caacgcaatt aatgtgagtt
agcgcgaatt gatctggttt 3900gacagcttat catcgactgc acggtgcacc
aatgcttctg gcgtcaggca gccatcggaa 3960gctgtggtat ggctgtgcag
gtcgtaaatc actgcataat tcgtgtcgct caaggcgcac 4020tcccgttctg
gataatgttt tttgcgccga catcataacg gttctggcaa atattctgaa
4080atgagctgtt gacaattaat catccggctc gtataatgtg tggaattgtg
agcggataac 4140aatttcacac aggaaacagc gccgctgaga aaaagcgaag
cggcactgct ctttaacaat 4200ttatcagaca atctgtgtgg gcactcgacc
ggaattatcg attaacttta ttattaaaaa 4260ttaaagaggt atatattaat
gtatcgatta aataaggagg aataaaccat gtgtgcgacc 4320tcttctcaat
ttactcagat taccgagcat aattcccgtc gttccgcaaa ctatcagcca
4380aacctgtgga atttcgaatt cctgcaatcc ctggagaacg acctgaaagt
ggaaaagctg 4440gaggagaaag cgaccaaact ggaggaagaa gttcgctgca
tgatcaaccg tgtagacacc 4500cagccgctgt ccctgctgga gctgatcgac
gatgtgcagc gcctgggtct gacctacaaa 4560tttgaaaaag acatcattaa
agccctggaa aacatcgtac tgctggacga aaacaaaaag 4620aacaaatctg
acctgcacgc aaccgctctg tctttccgtc tgctgcgtca gcacggtttc
4680gaggtttctc aggatgtttt tgagcgtttc aaggataaag aaggtggttt
cagcggtgaa 4740ctgaaaggtg acgtccaagg cctgctgagc ctgtatgaag
cgtcttacct gggtttcgag 4800ggtgagaacc tgctggagga ggcgcgtacc
ttttccatca cccacctgaa gaacaacctg 4860aaagaaggca ttaataccaa
ggttgcagaa caagtgagcc acgccctgga actgccatat 4920caccagcgtc
tgcaccgtct ggaggcacgt tggttcctgg ataaatacga accgaaagaa
4980ccgcatcacc agctgctgct ggagctggcg aagctggatt ttaacatggt
acagaccctg 5040caccagaaag agctgcaaga tctgtcccgc tggtggaccg
agatgggcct ggctagcaaa 5100ctggattttg tacgcgaccg cctgatggaa
gtttatttct gggcactggg tatggcgcca 5160gacccgcagt ttggtgaatg
tcgcaaagct gttactaaaa tgtttggtct ggtgacgatc 5220atcgatgacg
tgtatgacgt ttatggcact ctggacgaac tgcaactgtt caccgatgct
5280gtagagcgct gggacgttaa cgctattaac accctgccgg actatatgaa
actgtgtttc 5340ctggcactgt acaacaccgt taacgacacg tcctattcta
ttctgaaaga gaaaggtcat 5400aacaacctgt cctatctgac gaaaagctgg
cgtgaactgt gcaaagcctt tctgcaagag 5460gcgaaatggt ccaacaacaa
aattatcccg gctttctcca agtacctgga aaacgccagc 5520gtttcctcct
ccggtgtagc gctgctggcg ccgtcttact tttccgtatg ccagcagcag
5580gaagacatct ccgaccacgc gctgcgttcc ctgaccgact tccatggtct
ggtgcgttct 5640agctgcgtta tcttccgcct gtgcaacgat ctggccacct
ctgcggcgga gctggaacgt 5700ggcgagacta ccaattctat cattagctac
atgcacgaaa acgatggtac cagcgaggaa 5760caggcccgcg aagaactgcg
taaactgatc gacgccgaat ggaaaaagat gaatcgtgaa 5820cgcgttagcg
actccaccct gctgcctaaa gcgttcatgg aaatcgcagt taacatggca
5880cgtgtttccc actgcaccta ccagtatggc gatggtctgg gtcgcccaga
ctacgcgact 5940gaaaaccgca tcaaactgct gctgattgac cctttcccga
ttaaccagct gatgtatgtc 6000taactgcatc gcccttagga ggtaaaaaaa
aatgactgcc gacaacaata gtatgcccca 6060tggtgcagta tctagttacg
ccaaattagt gcaaaaccaa acacctgaag acattttgga 6120agagtttcct
gaaattattc cattacaaca aagacctaat acccgatcta gtgagacgtc
6180aaatgacgaa agcggagaaa catgtttttc tggtcatgat gaggagcaaa
ttaagttaat 6240gaatgaaaat tgtattgttt tggattggga cgataatgct
attggtgccg gtaccaagaa 6300agtttgtcat ttaatggaaa atattgaaaa
gggtttacta catcgtgcat tctccgtctt 6360tattttcaat gaacaaggtg
aattactttt acaacaaaga gccactgaaa aaataacttt 6420ccctgatctt
tggactaaca catgctgctc tcatccacta tgtattgatg acgaattagg
6480tttgaagggt aagctagacg ataagattaa gggcgctatt actgcggcgg
tgagaaaact 6540agatcatgaa ttaggtattc cagaagatga aactaagaca
aggggtaagt ttcacttttt 6600aaacagaatc cattacatgg caccaagcaa
tgaaccatgg ggtgaacatg aaattgatta 6660catcctattt tataagatca
acgctaaaga aaacttgact gtcaacccaa acgtcaatga 6720agttagagac
ttcaaatggg tttcaccaaa tgatttgaaa actatgtttg ctgacccaag
6780ttacaagttt acgccttggt ttaagattat ttgcgagaat tacttattca
actggtggga 6840gcaattagat gacctttctg aagtggaaaa tgacaggcaa
attcatagaa tgctataaca 6900acgcgtcctg cattcgccct taggaggtaa
aaaaacatga gttttgatat tgccaaatac 6960ccgaccctgg cactggtcga
ctccacccag gagttacgac tgttgccgaa agagagttta 7020ccgaaactct
gcgacgaact gcgccgctat ttactcgaca gcgtgagccg ttccagcggg
7080cacttcgcct ccgggctggg cacggtcgaa ctgaccgtgg cgctgcacta
tgtctacaac 7140accccgtttg accaattgat ttgggatgtg gggcatcagg
cttatccgca taaaattttg 7200accggacgcc gcgacaaaat cggcaccatc
cgtcagaaag gcggtctgca cccgttcccg 7260tggcgcggcg aaagcgaata
tgacgtatta agcgtcgggc attcatcaac ctccatcagt 7320gccggaattg
gtattgcggt tgctgccgaa aaagaaggca aaaatcgccg caccgtctgt
7380gtcattggcg atggcgcgat taccgcaggc atggcgtttg aagcgatgaa
tcacgcgggc 7440gatatccgtc ctgatatgct ggtgattctc aacgacaatg
aaatgtcgat ttccgaaaat 7500gtcggcgcgc tcaacaacca tctggcacag
ctgctttccg gtaagcttta ctcttcactg 7560cgcgaaggcg ggaaaaaagt
tttctctggc gtgccgccaa ttaaagagct gctcaaacgc 7620accgaagaac
atattaaagg catggtagtg cctggcacgt tgtttgaaga gctgggcttt
7680aactacatcg gcccggtgga cggtcacgat gtgctggggc ttatcaccac
gctaaagaac 7740atgcgcgacc tgaaaggccc gcagttcctg catatcatga
ccaaaaaagg tcgtggttat 7800gaaccggcag aaaaagaccc gatcactttc
cacgccgtgc ctaaatttga tccctccagc 7860ggttgtttgc cgaaaagtag
cggcggtttg ccgagctatt caaaaatctt tggcgactgg 7920ttgtgcgaaa
cggcagcgaa agacaacaag ctgatggcga ttactccggc gatgcgtgaa
7980ggttccggca tggtcgagtt ttcacgtaaa ttcccggatc gctacttcga
cgtggcaatt 8040gccgagcaac acgcggtgac ctttgctgcg ggtctggcga
ttggtgggta caaacccatt 8100gtcgcgattt actccacttt cctgcaacgc
gcctatgatc aggtgctgca tgacgtggcg 8160attcaaaagc ttccggtcct
gttcgccatc gaccgcgcgg gcattgttgg tgctgacggt 8220caaacccatc
agggtgcttt tgatctctct tacctgcgct gcataccgga aatggtcatt
8280atgaccccga gcgatgaaaa cgaatgtcgc cagatgctct ataccggcta
tcactataac 8340gatggcccgt cagcggtgcg ctacccgcgt ggcaacgcgg
tcggcgtgga actgacgccg 8400ctggaaaaac taccaattgg caaaggcatt
gtgaagcgtc gtggcgagaa actggcgatc 8460cttaactttg gtacgctgat
gccagaagcg gcgaaagtcg ccgaatcgct gaacgccacg 8520ctggtcgata
tgcgttttgt gaaaccgctt gatgaagcgt taattctgga aatggccgcc
8580agccatgaag cgctggtcac cgtagaagaa aacgccatta tgggcggcgc
aggcagcggc 8640gtgaacgaag tgctgatggc ccatcgtaaa ccagtacccg
tgctgaacat tggcctgccg 8700gacttcttta ttccgcaagg aactcaggaa
gaaatgcgcg ccgaactcgg cctcgatgcc 8760gctggtatgg aagccaaaat
caaggcctgg ctggcataac tgca 88041110992DNAArtificial
SequenceSynthetic Construct 11gtttgacagc ttatcatcga ctgcacggtg
caccaatgct tctggcgtca ggcagccatc 60ggaagctgtg gtatggctgt gcaggtcgta
aatcactgca taattcgtgt cgctcaaggc 120gcactcccgt tctggataat
gttttttgcg ccgacatcat aacggttctg gcaaatattc 180tgaaatgagc
tgttgacaat taatcatccg gctcgtataa tgtgtggaat tgtgagcgga
240taacaatttc acacaggaaa cagcgccgct gagaaaaagc gaagcggcac
tgctctttaa 300caatttatca gacaatctgt gtgggcactc gaccggaatt
atcgattaac tttattatta 360aaaattaaag aggtatatat taatgtatcg
attaaataag gaggaataaa ccatggatcc 420gagctcggat ccactagtaa
cggccgccag tgtgctggaa ttcgccctta ggaggtaaaa 480aaacatgtca
ttaccgttct taacttctgc accgggaaag gttattattt ttggtgaaca
540ctctgctgtg tacaacaagc ctgccgtcgc tgctagtgtg tctgcgttga
gaacctacct 600gctaataagc gagtcatctg caccagatac tattgaattg
gacttcccgg acattagctt 660taatcataag tggtccatca atgatttcaa
tgccatcacc gaggatcaag taaactccca 720aaaattggcc aaggctcaac
aagccaccga tggcttgtct caggaactcg ttagtctttt 780ggatccgttg
ttagctcaac tatccgaatc cttccactac catgcagcgt tttgtttcct
840gtatatgttt gtttgcctat gcccccatgc caagaatatt aagttttctt
taaagtctac 900tttacccatc ggtgctgggt tgggctcaag cgcctctatt
tctgtatcac tggccttagc 960tatggcctac ttgggggggt taataggatc
taatgacttg gaaaagctgt cagaaaacga 1020taagcatata gtgaatcaat
gggccttcat aggtgaaaag tgtattcacg gtaccccttc 1080aggaatagat
aacgctgtgg ccacttatgg taatgccctg ctatttgaaa aagactcaca
1140taatggaaca ataaacacaa acaattttaa gttcttagat gatttcccag
ccattccaat 1200gatcctaacc tatactagaa ttccaaggtc tacaaaagat
cttgttgctc gcgttcgtgt 1260gttggtcacc gagaaatttc ctgaagttat
gaagccaatt ctagatgcca tgggtgaatg 1320tgccctacaa ggcttagaga
tcatgactaa gttaagtaaa tgtaaaggca ccgatgacga 1380ggctgtagaa
actaataatg aactgtatga acaactattg gaattgataa gaataaatca
1440tggactgctt gtctcaatcg gtgtttctca tcctggatta gaacttatta
aaaatctgag 1500cgatgatttg agaattggct ccacaaaact taccggtgct
ggtggcggcg gttgctcttt 1560gactttgtta cgaagagaca ttactcaaga
gcaaattgac agcttcaaaa agaaattgca 1620agatgatttt agttacgaga
catttgaaac agacttgggt gggactggct gctgtttgtt 1680aagcgcaaaa
aatttgaata aagatcttaa aatcaaatcc ctagtattcc aattatttga
1740aaataaaact accacaaagc aacaaattga cgatctatta ttgccaggaa
acacgaattt 1800accatggact tcataagcta atttgcgata ggcctgcacc
cttaaggagg aaaaaaacat 1860gtcagagttg agagccttca gtgccccagg
gaaagcgtta ctagctggtg gatatttagt 1920tttagataca aaatatgaag
catttgtagt cggattatcg gcaagaatgc atgctgtagc 1980ccatccttac
ggttcattgc aagggtctga taagtttgaa gtgcgtgtga aaagtaaaca
2040atttaaagat ggggagtggc tgtaccatat aagtcctaaa agtggcttca
ttcctgtttc 2100gataggcgga tctaagaacc ctttcattga aaaagttatc
gctaacgtat ttagctactt 2160taaacctaac atggacgact actgcaatag
aaacttgttc gttattgata ttttctctga 2220tgatgcctac cattctcagg
aggatagcgt taccgaacat cgtggcaaca gaagattgag 2280ttttcattcg
cacagaattg aagaagttcc caaaacaggg ctgggctcct cggcaggttt
2340agtcacagtt ttaactacag ctttggcctc cttttttgta tcggacctgg
aaaataatgt 2400agacaaatat agagaagtta ttcataattt agcacaagtt
gctcattgtc aagctcaggg 2460taaaattgga agcgggtttg atgtagcggc
ggcagcatat ggatctatca gatatagaag 2520attcccaccc gcattaatct
ctaatttgcc agatattgga agtgctactt acggcagtaa 2580actggcgcat
ttggttgatg aagaagactg gaatattacg attaaaagta accatttacc
2640ttcgggatta actttatgga tgggcgatat taagaatggt tcagaaacag
taaaactggt 2700ccagaaggta aaaaattggt atgattcgca tatgccagaa
agcttgaaaa tatatacaga 2760actcgatcat gcaaattcta gatttatgga
tggactatct aaactagatc gcttacacga 2820gactcatgac gattacagcg
atcagatatt tgagtctctt gagaggaatg actgtacctg 2880tcaaaagtat
cctgaaatca cagaagttag agatgcagtt gccacaatta gacgttcctt
2940tagaaaaata actaaagaat ctggtgccga tatcgaacct cccgtacaaa
ctagcttatt 3000ggatgattgc cagaccttaa aaggagttct tacttgctta
atacctggtg ctggtggtta 3060tgacgccatt gcagtgatta ctaagcaaga
tgttgatctt agggctcaaa ccgctaatga 3120caaaagattt tctaaggttc
aatggctgga tgtaactcag gctgactggg gtgttaggaa 3180agaaaaagat
ccggaaactt atcttgataa ataacttaag gtagctgcat gcagaattcg
3240cccttaagga ggaaaaaaaa atgaccgttt acacagcatc cgttaccgca
cccgtcaaca 3300tcgcaaccct taagtattgg gggaaaaggg acacgaagtt
gaatctgccc accaattcgt 3360ccatatcagt gactttatcg caagatgacc
tcagaacgtt gacctctgcg gctactgcac 3420ctgagtttga acgcgacact
ttgtggttaa atggagaacc acacagcatc gacaatgaaa 3480gaactcaaaa
ttgtctgcgc gacctacgcc aattaagaaa ggaaatggaa tcgaaggacg
3540cctcattgcc cacattatct caatggaaac tccacattgt ctccgaaaat
aactttccta 3600cagcagctgg tttagcttcc tccgctgctg gctttgctgc
attggtctct gcaattgcta 3660agttatacca attaccacag tcaacttcag
aaatatctag aatagcaaga aaggggtctg 3720gttcagcttg tagatcgttg
tttggcggat acgtggcctg ggaaatggga aaagctgaag 3780atggtcatga
ttccatggca gtacaaatcg cagacagctc tgactggcct cagatgaaag
3840cttgtgtcct agttgtcagc gatattaaaa aggatgtgag ttccactcag
ggtatgcaat 3900tgaccgtggc aacctccgaa ctatttaaag aaagaattga
acatgtcgta ccaaagagat 3960ttgaagtcat gcgtaaagcc attgttgaaa
aagatttcgc cacctttgca aaggaaacaa 4020tgatggattc caactctttc
catgccacat gtttggactc tttccctcca atattctaca 4080tgaatgacac
ttccaagcgt atcatcagtt ggtgccacac cattaatcag ttttacggag
4140aaacaatcgt tgcatacacg tttgatgcag gtccaaatgc tgtgttgtac
tacttagctg 4200aaaatgagtc gaaactcttt gcatttatct ataaattgtt
tggctctgtt cctggatggg 4260acaagaaatt tactactgag cagcttgagg
ctttcaacca tcaatttgaa tcatctaact 4320ttactgcacg tgaattggat
cttgagttgc aaaaggatgt tgccagagtg attttaactc 4380aagtcggttc
aggcccacaa gaaacaaacg aatctttgat tgacgcaaag actggtctac
4440caaaggaata agatcaattc gctgcatcgc ccttaggagg taaaaaaaaa
tgactgccga 4500caacaatagt atgccccatg gtgcagtatc tagttacgcc
aaattagtgc aaaaccaaac 4560acctgaagac attttggaag agtttcctga
aattattcca ttacaacaaa gacctaatac 4620ccgatctagt gagacgtcaa
atgacgaaag cggagaaaca tgtttttctg gtcatgatga 4680ggagcaaatt
aagttaatga atgaaaattg tattgttttg gattgggacg ataatgctat
4740tggtgccggt accaagaaag tttgtcattt aatggaaaat attgaaaagg
gtttactaca 4800tcgtgcattc tccgtcttta ttttcaatga acaaggtgaa
ttacttttac aacaaagagc 4860cactgaaaaa ataactttcc ctgatctttg
gactaacaca tgctgctctc atccactatg 4920tattgatgac gaattaggtt
tgaagggtaa gctagacgat aagattaagg gcgctattac 4980tgcggcggtg
agaaaactag atcatgaatt aggtattcca gaagatgaaa ctaagacaag
5040gggtaagttt cactttttaa acagaatcca ttacatggca ccaagcaatg
aaccatgggg 5100tgaacatgaa attgattaca tcctatttta taagatcaac
gctaaagaaa acttgactgt 5160caacccaaac gtcaatgaag ttagagactt
caaatgggtt tcaccaaatg atttgaaaac 5220tatgtttgct gacccaagtt
acaagtttac gccttggttt aagattattt gcgagaatta 5280cttattcaac
tggtgggagc aattagatga cctttctgaa gtggaaaatg acaggcaaat
5340tcatagaatg ctataacaac gcgtcctgca ttcgccctta ggaggtaaaa
aaacatgtgt 5400gcgacctctt ctcaatttac tcagattacc gagcataatt
cccgtcgttc cgcaaactat 5460cagccaaacc tgtggaattt cgaattcctg
caatccctgg agaacgacct gaaagtggaa 5520aagctggagg agaaagcgac
caaactggag gaagaagttc gctgcatgat caaccgtgta 5580gacacccagc
cgctgtccct gctggagctg atcgacgatg tgcagcgcct gggtctgacc
5640tacaaatttg aaaaagacat cattaaagcc ctggaaaaca tcgtactgct
ggacgaaaac 5700aaaaagaaca aatctgacct gcacgcaacc gctctgtctt
tccgtctgct gcgtcagcac 5760ggtttcgagg tttctcagga tgtttttgag
cgtttcaagg ataaagaagg tggtttcagc 5820ggtgaactga aaggtgacgt
ccaaggcctg ctgagcctgt atgaagcgtc ttacctgggt 5880ttcgagggtg
agaacctgct ggaggaggcg cgtacctttt ccatcaccca cctgaagaac
5940aacctgaaag aaggcattaa taccaaggtt gcagaacaag tgagccacgc
cctggaactg 6000ccatatcacc agcgtctgca ccgtctggag gcacgttggt
tcctggataa atacgaaccg 6060aaagaaccgc atcaccagct gctgctggag
ctggcgaagc tggattttaa catggtacag 6120accctgcacc agaaagagct
gcaagatctg tcccgctggt ggaccgagat gggcctggct 6180agcaaactgg
attttgtacg cgaccgcctg atggaagttt atttctgggc actgggtatg
6240gcgccagacc cgcagtttgg tgaatgtcgc aaagctgtta ctaaaatgtt
tggtctggtg 6300acgatcatcg atgacgtgta tgacgtttat ggcactctgg
acgaactgca actgttcacc 6360gatgctgtag agcgctggga cgttaacgct
attaacaccc tgccggacta tatgaaactg 6420tgtttcctgg cactgtacaa
caccgttaac gacacgtcct attctattct gaaagagaaa 6480ggtcataaca
acctgtccta tctgacgaaa agctggcgtg aactgtgcaa agcctttctg
6540caagaggcga aatggtccaa caacaaaatt atcccggctt tctccaagta
cctggaaaac 6600gccagcgttt cctcctccgg tgtagcgctg ctggcgccgt
cttacttttc cgtatgccag 6660cagcaggaag acatctccga ccacgcgctg
cgttccctga ccgacttcca tggtctggtg 6720cgttctagct gcgttatctt
ccgcctgtgc aacgatctgg ccacctctgc ggcggagctg 6780gaacgtggcg
agactaccaa ttctatcatt agctacatgc acgaaaacga tggtaccagc
6840gaggaacagg cccgcgaaga actgcgtaaa ctgatcgacg ccgaatggaa
aaagatgaat 6900cgtgaacgcg ttagcgactc caccctgctg cctaaagcgt
tcatggaaat cgcagttaac 6960atggcacgtg tttcccactg cacctaccag
tatggcgatg gtctgggtcg cccagactac 7020gcgactgaaa accgcatcaa
actgctgctg attgaccctt tcccgattaa ccagctgatg 7080tatgtctaac
tgcagctggt accatatggg aattcgaagc tttctagaac aaaaactcat
7140ctcagaagag gatctgaata gcgccgtcga ccatcatcat catcatcatt
gagtttaaac 7200ggtctccagc ttggctgttt tggcggatga gagaagattt
tcagcctgat acagattaaa 7260tcagaacgca gaagcggtct gataaaacag
aatttgcctg gcggcagtag cgcggtggtc 7320ccacctgacc ccatgccgaa
ctcagaagtg aaacgccgta gcgccgatgg tagtgtgggg 7380tctccccatg
cgagagtagg gaactgccag gcatcaaata aaacgaaagg ctcagtcgaa
7440agactgggcc tttcgtttta tctgttgttt gtcggtgaac gctctcctga
gtaggacaaa 7500tccgccggga gcggatttga acgttgcgaa gcaacggccc
ggagggtggc gggcaggacg 7560cccgccataa actgccaggc atcaaattaa
gcagaaggcc atcctgacgg atggcctttt 7620tgcgtttcta caaactcttt
ttgtttattt ttctaaatac attcaaatat gtatccgctt 7680aaccggaatt
gccagctggg gcgccctctg gtaaggttgg gaagccctgc aaagtaaact
7740ggatggcttt ctcgccgcca aggatctgat ggcgcagggg atcaagctct
gatcaagaga 7800caggatgagg atcgtttcgc atgattgaac aagatggatt
gcacgcaggt tctccggccg 7860cttgggtgga gaggctattc ggctatgact
gggcacaaca gacaatcggc tgctctgatg 7920ccgccgtgtt ccggctgtca
gcgcaggggc gcccggttct ttttgtcaag accgacctgt 7980ccggtgccct
gaatgaactg caagacgagg cagcgcggct atcgtggctg gccacgacgg
8040gcgttccttg cgcagctgtg ctcgacgttg tcactgaagc gggaagggac
tggctgctat 8100tgggcgaagt gccggggcag gatctcctgt catctcacct
tgctcctgcc gagaaagtat 8160ccatcatggc tgatgcaatg cggcggctgc
atacgcttga tccggctacc tgcccattcg 8220accaccaagc gaaacatcgc
atcgagcgag cacgtactcg gatggaagcc ggtcttgtcg 8280atcaggatga
tctggacgaa gagcatcagg ggctcgcgcc agccgaactg ttcgccaggc
8340tcaaggcgag catgcccgac ggcgaggatc tcgtcgtgac ccatggcgat
gcctgcttgc 8400cgaatatcat ggtggaaaat ggccgctttt ctggattcat
cgactgtggc cggctgggtg 8460tggcggaccg ctatcaggac atagcgttgg
ctacccgtga tattgctgaa gagcttggcg 8520gcgaatgggc tgaccgcttc
ctcgtgcttt acggtatcgc cgctcccgat tcgcagcgca 8580tcgccttcta
tcgccttctt gacgagttct tctgacgcat gaccaaaatc ccttaacgtg
8640agttttcgtt ccactgagcg tcagaccccg tagaaaagat caaaggatct
tcttgagatc 8700ctttttttct gcgcgtaatc tgctgcttgc aaacaaaaaa
accaccgcta ccagcggtgg 8760tttgtttgcc ggatcaagag ctaccaactc
tttttccgaa ggtaactggc ttcagcagag 8820cgcagatacc aaatactgtc
cttctagtgt agccgtagtt aggccaccac ttcaagaact 8880ctgtagcacc
gcctacatac ctcgctctgc taatcctgtt accagtggct gctgccagtg
8940gcgataagtc gtgtcttacc gggttggact caagacgata gttaccggat
aaggcgcagc 9000ggtcgggctg aacggggggt tcgtgcacac agcccagctt
ggagcgaacg acctacaccg 9060aactgagata cctacagcgt gagctatgag
aaagcgccac gcttcccgaa gggagaaagg 9120cggacaggta tccggtaagc
ggcagggtcg gaacaggaga gcgcacgagg gagcttccag 9180ggggaaacgc
ctggtatctt tatagtcctg tcgggtttcg ccacctctga cttgagcgtc
9240gatttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgccagc
aacgcggcct 9300ttttacggtt cctggccttt tgctggcctt ttgctcacat
gttctttcct gcgttatccc 9360ctgattctgt
ggataaccgt attaccgcct ttgagtgagc tgataccgct cgccgcagcc
9420gaacgaccga gcgcagcgag tcagtgagcg aggaagcgga agagcgcctg
atgcggtatt 9480ttctccttac gcatctgtgc ggtatttcac accgcatatg
gtgcactctc agtacaatct 9540gctctgatgc cgcatagtta agccagtata
cactccgcta tcgctacgtg actgggtcat 9600ggctgcgccc cgacacccgc
caacacccgc tgacgcgccc tgacgggctt gtctgctccc 9660ggcatccgct
tacagacaag ctgtgaccgt ctccgggagc tgcatgtgtc agaggttttc
9720accgtcatca ccgaaacgcg cgaggcagca gatcaattcg cgcgcgaagg
cgaagcggca 9780tgcatttacg ttgacaccat cgaatggtgc aaaacctttc
gcggtatggc atgatagcgc 9840ccggaagaga gtcaattcag ggtggtgaat
gtgaaaccag taacgttata cgatgtcgca 9900gagtatgccg gtgtctctta
tcagaccgtt tcccgcgtgg tgaaccaggc cagccacgtt 9960tctgcgaaaa
cgcgggaaaa agtggaagcg gcgatggcgg agctgaatta cattcccaac
10020cgcgtggcac aacaactggc gggcaaacag tcgttgctga ttggcgttgc
cacctccagt 10080ctggccctgc acgcgccgtc gcaaattgtc gcggcgatta
aatctcgcgc cgatcaactg 10140ggtgccagcg tggtggtgtc gatggtagaa
cgaagcggcg tcgaagcctg taaagcggcg 10200gtgcacaatc ttctcgcgca
acgcgtcagt gggctgatca ttaactatcc gctggatgac 10260caggatgcca
ttgctgtgga agctgcctgc actaatgttc cggcgttatt tcttgatgtc
10320tctgaccaga cacccatcaa cagtattatt ttctcccatg aagacggtac
gcgactgggc 10380gtggagcatc tggtcgcatt gggtcaccag caaatcgcgc
tgttagcggg cccattaagt 10440tctgtctcgg cgcgtctgcg tctggctggc
tggcataaat atctcactcg caatcaaatt 10500cagccgatag cggaacggga
aggcgactgg agtgccatgt ccggttttca acaaaccatg 10560caaatgctga
atgagggcat cgttcccact gcgatgctgg ttgccaacga tcagatggcg
10620ctgggcgcaa tgcgcgccat taccgagtcc gggctgcgcg ttggtgcgga
tatctcggta 10680gtgggatacg acgataccga agacagctca tgttatatcc
cgccgtcaac caccatcaaa 10740caggattttc gcctgctggg gcaaaccagc
gtggaccgct tgctgcaact ctctcagggc 10800caggcggtga agggcaatca
gctgttgccc gtctcactgg tgaaaagaaa aaccaccctg 10860gcgcccaata
cgcaaaccgc ctctccccgc gcgttggccg attcattaat gcagctggca
10920cgacaggttt cccgactgga aagcgggcag tgagcgcaac gcaattaatg
tgagttagcg 10980cgaattgatc tg 10992128703DNAArtificial
SequenceSynthetic Construct 12cccgtcttac tgtcgggaat tcgcgttggc
cgattcatta atgcagattc tgaaatgagc 60tgttgacaat taatcatccg gctcgtataa
tgtgtggaat tgtgagcgga taacaatttc 120acacaggaaa cagcgccgct
gagaaaaagc gaagcggcac tgctctttaa caatttatca 180gacaatctgt
gtgggcactc gaccggaatt atcgattaac tttattatta aaaattaaag
240aggtatatat taatgtatcg attaaataag gaggaataaa ccatggatcc
gagctcagga 300ggtaaaaaaa catgaaaaca gtagttatta ttgatgcatt
acgaacacca attggaaaat 360ataaaggcag cttaagtcaa gtaagtgccg
tagacttagg aacacatgtt acaacacaac 420ttttaaaaag acattccact
atttctgaag aaattgatca agtaatcttt ggaaatgttt 480tacaagctgg
aaatggccaa aatcccgcac gacaaatagc aataaacagc ggtttgtctc
540atgaaattcc cgcaatgacg gttaatgagg tctgcggatc aggaatgaag
gccgttattt 600tggcgaaaca attgattcaa ttaggagaag cggaagtttt
aattgctggc gggattgaga 660atatgtccca agcacctaaa ttacaacgtt
ttaattacga aacagaaagc tacgatgcgc 720ctttttctag tatgatgtat
gatggattaa cggatgcctt tagtggtcag gcaatgggct 780taactgctga
aaatgtggcc gaaaagtatc atgtaactag agaagagcaa gatcaatttt
840ctgtacattc acaattaaaa gcagctcaag cacaagcaga agggatattc
gctgacgaaa 900tagccccatt agaagtatca ggaacgcttg tggagaaaga
tgaagggatt cgccctaatt 960cgagcgttga gaagctagga acgcttaaaa
cagtttttaa agaagacggt actgtaacag 1020cagggaatgc atcaaccatt
aatgatgggg cttctgcttt gattattgct tcacaagaat 1080atgccgaagc
acacggtctt ccttatttag ctattattcg agacagtgtg gaagtcggta
1140ttgatccagc ctatatggga atttcgccga ttaaagccat tcaaaaactg
ttagcgcgca 1200atcaacttac tacggaagaa attgatctgt atgaaatcaa
cgaagcattt gcagcaactt 1260caatcgtggt ccaaagagaa ctggctttac
cagaggaaaa ggtcaacatt tatggtggcg 1320gtatttcatt aggtcatgcg
attggtgcca caggtgctcg tttattaacg agtttaagtt 1380atcaattaaa
tcaaaaagaa aagaaatatg gagtggcttc tttatgtatc ggcggtggct
1440taggactcgc tatgctacta gagagacctc agcaaaaaaa aaacagccga
ttttatcaaa 1500tgagtcctga ggaacgcctg gcttctcttc ttaatgaagg
ccagatttct gctgatacaa 1560aaaaagaatt tgaaaatacg gctttatctt
cgcagattgc caatcatatg attgaaaatc 1620aaatcagtga aacagaagtg
ccgatgggcg ttggcttaca tttaacagtg gacgaaactg 1680attatttggt
accaatggcg acagaagagc cctcagttat tgcggctttg agtaatggtg
1740caaaaatagc acaaggattt aaaacagtga atcaacaacg cttaatgcgt
ggacaaatcg 1800ttttttacga tgttgcagat cccgagtcat tgattgataa
actacaagta agagaagcgg 1860aagtttttca acaagcagag ttaagttatc
catctatcgt taaacggggc ggcggcttaa 1920gagatttgca atatcgtact
tttgatgaat catttgtatc tgtcgacttt ttagtagatg 1980ttaaggatgc
aatgggggca aatatcgtta acgctatgtt ggaaggtgtg gccgagttgt
2040tccgtgaatg gtttgcggag caaaagattt tattcagtat tttaagtaat
tatgccacgg 2100agtcggttgt tacgatgaaa acggctattc cagtttcacg
tttaagtaag gggagcaatg 2160gccgggaaat tgctgaaaaa attgttttag
cttcacgcta tgcttcatta gatccttatc 2220gggcagtcac gcataacaaa
ggaatcatga atggcattga agctgtagtt ttagctacag 2280gaaatgatac
acgcgctgtt agcgcttctt gtcatgcttt tgcggtgaag gaaggtcgct
2340accaaggctt gactagttgg acgctggatg gcgaacaact aattggtgaa
atttcagttc 2400cgcttgcttt agccacggtt ggcggtgcca caaaagtctt
acctaaatct caagcagctg 2460ctgatttgtt agcagtgacg gatgcaaaag
aactaagtcg agtagtagcg gctgttggtt 2520tggcacaaaa tttagcggcg
ttacgggcct tagtctctga aggaattcaa aaaggacaca 2580tggctctaca
agcacgttct ttagcgatga cggtcggagc tactggtaaa gaagttgagg
2640cagtcgctca acaattaaaa cgtcaaaaaa cgatgaacca agaccgagcc
atggctattt 2700taaatgattt aagaaaacaa taaaggaggt aaaaaaacat
gacaattggg attgataaaa 2760ttagtttttt tgtgccccct tattatattg
atatgacggc actggctgaa gccagaaatg 2820tagaccctgg aaaatttcat
attggtattg ggcaagacca aatggcggtg aacccaatca 2880gccaagatat
tgtgacattt gcagccaatg ccgcagaagc gatcttgacc aaagaagata
2940aagaggccat tgatatggtg attgtcggga ctgagtccag tatcgatgag
tcaaaagcgg 3000ccgcagttgt cttacatcgt ttaatgggga ttcaaccttt
cgctcgctct ttcgaaatca 3060aggaagcttg ttacggagca acagcaggct
tacagttagc taagaatcac gtagccttac 3120atccagataa aaaagtcttg
gtcgtagcgg cagatattgc aaaatatggc ttaaattctg 3180gcggtgagcc
tacacaagga gctggggcgg ttgcaatgtt agttgctagt gaaccgcgca
3240ttttggcttt aaaagaggat aatgtgatgc tgacgcaaga tatctatgac
ttttggcgtc 3300caacaggcca cccgtatcct atggtcgatg gtcctttgtc
aaacgaaacc tacatccaat 3360cttttgccca agtctgggat gaacataaaa
aacgaaccgg tcttgatttt gcagattatg 3420atgctttagc gttccatatt
ccttacacaa aaatgggcaa aaaagcctta ttagcaaaaa 3480tctccgacca
aactgaagca gaacaggaac gaattttagc ccgttatgaa gaaagtatcg
3540tctatagtcg tcgcgtagga aacttgtata cgggttcact ttatctggga
ctcatttccc 3600ttttagaaaa tgcaacgact ttaaccgcag gcaatcaaat
tggtttattc agttatggtt 3660ctggtgctgt cgctgaattt ttcactggtg
aattagtagc tggttatcaa aatcatttac 3720aaaaagaaac tcatttagca
ctgctggata atcggacaga actttctatc gctgaatatg 3780aagccatgtt
tgcagaaact ttagacacag acattgatca aacgttagaa gatgaattaa
3840aatatagtat ttctgctatt aataataccg ttcgttctta tcgaaactaa
gagatctgca 3900gctggtacca tatgggaatt cgaagcttgg gcccgaacaa
aaactcatct cagaagagga 3960tctgaatagc gccgtcgacc atcatcatca
tcatcattga gtttaaacgg tctccagctt 4020ggctgttttg gcggatgaga
gaagattttc agcctgatac agattaaatc agaacgcaga 4080agcggtctga
taaaacagaa tttgcctggc ggcagtagcg cggtggtccc acctgacccc
4140atgccgaact cagaagtgaa acgccgtagc gccgatggta gtgtggggtc
tccccatgcg 4200agagtaggga actgccaggc atcaaataaa acgaaaggct
cagtcgaaag actgggcctt 4260tcgttttatc tgttgtttgt cggtgaacgc
tctcctgagt aggacaaatc cgccgggagc 4320ggatttgaac gttgcgaagc
aacggcccgg agggtggcgg gcaggacgcc cgccataaac 4380tgccaggcat
caaattaagc agaaggccat cctgacggat ggcctttttg cgtttctaca
4440aactcttttt gtttattttt ctaaatacat tcaaatatgt atccgctcat
gagacaataa 4500ccctgataaa tgcttcaata atctggcgta atagcgaaga
ggcccgcacc gatcgccctt 4560cccaacagtt gcgcagcctg aatggcgaat
ggcgcctgat gcggtatttt ctccttacgc 4620atctgtgcgg tatttcacac
cgcatatggt gcactctcag tacaatctgc tctgatgccg 4680catagttaag
ccagccccga cacccgccaa cacccgctga cgagcttagt aaagccctcg
4740ctagatttta atgcggatgt tgcgattact tcgccaacta ttgcgataac
aagaaaaagc 4800cagcctttca tgatatatct cccaatttgt gtagggctta
ttatgcacgc ttaaaaataa 4860taaaagcaga cttgacctga tagtttggct
gtgagcaatt atgtgcttag tgcatctaac 4920gcttgagtta agccgcgccg
cgaagcggcg tcggcttgaa cgaattgtta gacattattt 4980gccgactacc
ttggtgatct cgcctttcac gtagtggaca aattcttcca actgatctgc
5040gcgcgaggcc aagcgatctt cttcttgtcc aagataagcc tgtctagctt
caagtatgac 5100gggctgatac tgggccggca ggcgctccat tgcccagtcg
gcagcgacat ccttcggcgc 5160gattttgccg gttactgcgc tgtaccaaat
gcgggacaac gtaagcacta catttcgctc 5220atcgccagcc cagtcgggcg
gcgagttcca tagcgttaag gtttcattta gcgcctcaaa 5280tagatcctgt
tcaggaaccg gatcaaagag ttcctccgcc gctggaccta ccaaggcaac
5340gctatgttct cttgcttttg tcagcaagat agccagatca atgtcgatcg
tggctggctc 5400gaagatacct gcaagaatgt cattgcgctg ccattctcca
aattgcagtt cgcgcttagc 5460tggataacgc cacggaatga tgtcgtcgtg
cacaacaatg gtgacttcta cagcgcggag 5520aatctcgctc tctccagggg
aagccgaagt ttccaaaagg tcgttgatca aagctcgccg 5580cgttgtttca
tcaagcctta cggtcaccgt aaccagcaaa tcaatatcac tgtgtggctt
5640caggccgcca tccactgcgg agccgtacaa atgtacggcc agcaacgtcg
gttcgagatg 5700gcgctcgatg acgccaacta cctctgatag ttgagtcgat
acttcggcga tcaccgcttc 5760cctcatgatg tttaactttg ttttagggcg
actgccctgc tgcgtaacat cgttgctgct 5820ccataacatc aaacatcgac
ccacggcgta acgcgcttgc tgcttggatg cccgaggcat 5880agactgtacc
ccaaaaaaac agtcataaca agccatgaaa accgccactg cgccgttacc
5940accgctgcgt tcggtcaagg ttctggacca gttgcgtgag cgcatacgct
acttgcatta 6000cagcttacga accgaacagg cttatgtcca ctgggttcgt
gccttcatcc gtttccacgg 6060tgtgcgtcac ccggcaacct tgggcagcag
cgaagtcgag gcatttctgt cctggctggc 6120gaacgagcgc aaggtttcgg
tctccacgca tcgtcaggca ttggcggcct tgctgttctt 6180ctacggcaag
gtgctgtgca cggatctgcc ctggcttcag gagatcggaa gacctcggcc
6240gtcgcggcgc ttgccggtgg tgctgacccc ggatgaagtg gttcgcatcc
tcggttttct 6300ggaaggcgag catcgtttgt tcgcccagct tctgtatgga
acgggcatgc ggatcagtga 6360gggtttgcaa ctgcgggtca aggatctgga
tttcgatcac ggcacgatca tcgtgcggga 6420gggcaagggc tccaaggatc
gggccttgat gttacccgag agcttggcac ccagcctgcg 6480cgagcagggg
aattaattcc cacgggtttt gctgcccgca aacgggctgt tctggtgttg
6540ctagtttgtt atcagaatcg cagatccggc ttcagccggt ttgccggctg
aaagcgctat 6600ttcttccaga attgccatga ttttttcccc acgggaggcg
tcactggctc ccgtgttgtc 6660ggcagctttg attcgataag cagcatcgcc
tgtttcaggc tgtctatgtg tgactgttga 6720gctgtaacaa gttgtctcag
gtgttcaatt tcatgttcta gttgctttgt tttactggtt 6780tcacctgttc
tattaggtgt tacatgctgt tcatctgtta cattgtcgat ctgttcatgg
6840tgaacagctt tgaatgcacc aaaaactcgt aaaagctctg atgtatctat
cttttttaca 6900ccgttttcat ctgtgcatat ggacagtttt ccctttgata
tgtaacggtg aacagttgtt 6960ctacttttgt ttgttagtct tgatgcttca
ctgatagata caagagccat aagaacctca 7020gatccttccg tatttagcca
gtatgttctc tagtgtggtt cgttgttttt gcgtgagcca 7080tgagaacgaa
ccattgagat catacttact ttgcatgtca ctcaaaaatt ttgcctcaaa
7140actggtgagc tgaatttttg cagttaaagc atcgtgtagt gtttttctta
gtccgttatg 7200taggtaggaa tctgatgtaa tggttgttgg tattttgtca
ccattcattt ttatctggtt 7260gttctcaagt tcggttacga gatccatttg
tctatctagt tcaacttgga aaatcaacgt 7320atcagtcggg cggcctcgct
tatcaaccac caatttcata ttgctgtaag tgtttaaatc 7380tttacttatt
ggtttcaaaa cccattggtt aagcctttta aactcatggt agttattttc
7440aagcattaac atgaacttaa attcatcaag gctaatctct atatttgcct
tgtgagtttt 7500cttttgtgtt agttctttta ataaccactc ataaatcctc
atagagtatt tgttttcaaa 7560agacttaaca tgttccagat tatattttat
gaattttttt aactggaaaa gataaggcaa 7620tatctcttca ctaaaaacta
attctaattt ttcgcttgag aacttggcat agtttgtcca 7680ctggaaaatc
tcaaagcctt taaccaaagg attcctgatt tccacagttc tcgtcatcag
7740ctctctggtt gctttagcta atacaccata agcattttcc ctactgatgt
tcatcatctg 7800agcgtattgg ttataagtga acgataccgt ccgttctttc
cttgtagggt tttcaatcgt 7860ggggttgagt agtgccacac agcataaaat
tagcttggtt tcatgctccg ttaagtcata 7920gcgactaatc gctagttcat
ttgctttgaa aacaactaat tcagacatac atctcaattg 7980gtctaggtga
ttttaatcac tataccaatt gagatgggct agtcaatgat aattactagt
8040ccttttcctt tgagttgtgg gtatctgtaa attctgctag acctttgctg
gaaaacttgt 8100aaattctgct agaccctctg taaattccgc tagacctttg
tgtgtttttt ttgtttatat 8160tcaagtggtt ataatttata gaataaagaa
agaataaaaa aagataaaaa gaatagatcc 8220cagccctgtg tataactcac
tactttagtc agttccgcag tattacaaaa ggatgtcgca 8280aacgctgttt
gctcctctac aaaacagacc ttaaaaccct aaaggcttaa gtagcaccct
8340cgcaagctcg ggcaaatcgc tgaatattcc ttttgtctcc gaccatcagg
cacctgagtc 8400gctgtctttt tcgtgacatt cagttcgctg cgctcacggc
tctggcagtg aatgggggta 8460aatggcacta caggcgcctt ttatggattc
atgcaaggaa actacccata atacaagaaa 8520agcccgtcac gggcttctca
gggcgtttta tggcgggtct gctatgtggt gctatctgac 8580tttttgctgt
tcagcagttc ctgccctctg attttccagt ctgaccactt cggattatcc
8640cgtgacaggt cattcagact ggctaatgca cccagtaagg cagcggtatc
atcaacaggc 8700tta 8703139371DNAArtificial SequenceSynthetic
Construct 13tgtaaccttt gctttcaaat gagtagaaat aatgcacatc catgtttgta
tcgtgcaaat 60aaagtgtttc atccgtagga aaaaatgact ttagtatctg ttccgctttt
tctgatgaaa 120tgtgctcccc gacaaaattg aatgaatcat ggacatttgc
tggctttgat acagcgaaag 180cagccgttcc tatgttatat atcggattta
acagcaggac aaaaaacacc atgacagcca 240tcgtcaccca cttattcaca
cgcacataaa cctttcctga cttttggaac agatgatagc 300tcatcaaaaa
tcccgccatt gccaaataaa tcgtatatgg cattactgca ccataatctt
360ttgagatttg attgggatat ggcgcaagca gcaagacaag cagtccgata
atcagcgtat 420aaaataagcc tagtaagatc ttatccgttc tccaatacag
cttgaaaaac actacattca 480acgcaatggg aagagtgatg atgaaaaaca
gaaacacgaa tgcaatcggc tccatcccat 540ccgggtattc cttccaatac
gaaaagaaac taaaaatcat ttgtacgatc ggcaaactga 600caacagcaag
gtcgaacgta taaaacttac cctttccgcc atgatcacgc ggcatcagca
660tatagtgaaa agccgtcagc agcacatatc cgtataacaa aaaatgcagc
agcggcagca 720gttcttttcc gtcctctctt aagtaagcgc tggtgaagtt
tgttgattgc acctggtgaa 780taagttcaac agacactccc gccagcagca
caatccgcaa tataacaccc gccaagaaca 840ttgtgcgctg ccggtttatt
ttgggatgat gcaccaaaag atataagccc gccagaacaa 900caattgacca
ttgaatcagc agggtgcttt gtctgcttaa tataaaataa cgttcgaaat
960gcaatacata atgactgaat aactccaaca cgaacaacaa ctccattttc
ttctgctatc 1020aaaataacag actcgtgatt ttccaaacga gctttcaaaa
aagcctctgc cccttgcaaa 1080tcggatgcct gtctataaaa ttcccgatat
tggttaaaca gcggcgcaat ggcggccgca 1140tctgatgtct ttgcttggcg
aatgttcatc ttatttcttc ctccctctca ataatttttt 1200cattctatcc
cttttctgta aagtttattt ttcagaatac ttttatcatc atgctttgaa
1260aaaatatcac gataatatcc attgttctca cggaagcaca cgcaggtcat
ttgaacgaat 1320tttttcgaca ggaatttgcc gggactcagg agcatttaac
ctaaaaaagc atgacatttc 1380agcataatga acatttactc atgtctattt
tcgttctttt ctgtatgaaa atagttattt 1440cgagtctcta cggaaatagc
gagagatgat atacctaaat agagataaaa tcatctcaaa 1500aaaatgggtc
tactaaaata ttattccatc tattacaata aattcacaga atagtctttt
1560aagtaagtct actctgaatt tttttaaaag gagagggtaa agagtgtcat
taccgttctt 1620aacttctgca ccgggaaagg ttattatttt tggtgaacac
tctgctgtgt acaacaagcc 1680tgccgtcgct gctagtgtgt ctgcgttgag
aacctacctg ctaataagcg agtcatctgc 1740accagatact attgaattgg
acttcccgga cattagcttt aatcataagt ggtccatcaa 1800tgatttcaat
gccatcaccg aggatcaagt aaactcccaa aaattggcca aggctcaaca
1860agccaccgat ggcttgtctc aggaactcgt tagtcttttg gatccgttgt
tagctcaact 1920atccgaatcc ttccactacc atgcagcgtt ttgtttcctg
tatatgtttg tttgcctatg 1980cccccatgcc aagaatatta agttttcttt
aaagtctact ttacccatcg gtgctgggtt 2040gggctcaagc gcctctattt
ctgtatcact ggccttagct atggcctact tgggggggtt 2100aataggatct
aatgacttgg aaaagctgtc agaaaacgat aagcatatag tgaatcaatg
2160ggccttcata ggtgaaaagt gtattcacgg taccccttca ggaatagata
acgctgtggc 2220cacttatggt aatgccctgc tatttgaaaa agactcacat
aatggaacaa taaacacaaa 2280caattttaag ttcttagatg atttcccagc
cattccaatg atcctaacct atactagaat 2340tccaaggtct acaaaagatc
ttgttgctcg cgttcgtgtg ttggtcaccg agaaatttcc 2400tgaagttatg
aagccaattc tagatgccat gggtgaatgt gccctacaag gcttagagat
2460catgactaag ttaagtaaat gtaaaggcac cgatgacgag gctgtagaaa
ctaataatga 2520actgtatgaa caactattgg aattgataag aataaatcat
ggactgcttg tctcaatcgg 2580tgtttctcat cctggattag aacttattaa
aaatctgagc gatgatttga gaattggctc 2640cacaaaactt accggtgctg
gtggcggcgg ttgctctttg actttgttac gaagagacat 2700tactcaagag
caaattgaca gcttcaaaaa gaaattgcaa gatgatttta gttacgagac
2760atttgaaaca gacttgggtg ggactggctg ctgtttgtta agcgcaaaaa
atttgaataa 2820agatcttaaa atcaaatccc tagtattcca attatttgaa
aataaaacta ccacaaagca 2880acaaattgac gatctattat tgccaggaaa
cacgaattta ccatggactt cataaaagga 2940gagggtgtca gagttgagag
ccttcagtgc cccagggaaa gcgttactag ctggtggata 3000tttagtttta
gatacaaaat atgaagcatt tgtagtcgga ttatcggcaa gaatgcatgc
3060tgtagcccat ccttacggtt cattgcaagg gtctgataag tttgaagtgc
gtgtgaaaag 3120taaacaattt aaagatgggg agtggctgta ccatataagt
cctaaaagtg gcttcattcc 3180tgtttcgata ggcggatcta agaacccttt
cattgaaaaa gttatcgcta acgtatttag 3240ctactttaaa cctaacatgg
acgactactg caatagaaac ttgttcgtta ttgatatttt 3300ctctgatgat
gcctaccatt ctcaggagga tagcgttacc gaacatcgtg gcaacagaag
3360attgagtttt cattcgcaca gaattgaaga agttcccaaa acagggctgg
gctcctcggc 3420aggtttagtc acagttttaa ctacagcttt ggcctccttt
tttgtatcgg acctggaaaa 3480taatgtagac aaatatagag aagttattca
taatttagca caagttgctc attgtcaagc 3540tcagggtaaa attggaagcg
ggtttgatgt agcggcggca gcatatggat ctatcagata 3600tagaagattc
ccacccgcat taatctctaa tttgccagat attggaagtg ctacttacgg
3660cagtaaactg gcgcatttgg ttgatgaaga agactggaat attacgatta
aaagtaacca 3720tttaccttcg ggattaactt tatggatggg cgatattaag
aatggttcag aaacagtaaa 3780actggtccag aaggtaaaaa attggtatga
ttcgcatatg ccagaaagct tgaaaatata 3840tacagaactc gatcatgcaa
attctagatt tatggatgga ctatctaaac tagatcgctt 3900acacgagact
catgacgatt acagcgatca gatatttgag tctcttgaga ggaatgactg
3960tacctgtcaa aagtatcctg aaatcacaga agttagagat gcagttgcca
caattagacg 4020ttcctttaga aaaataacta aagaatctgg tgccgatatc
gaacctcccg tacaaactag 4080cttattggat gattgccaga ccttaaaagg
agttcttact tgcttaatac ctggtgctgg 4140tggttatgac gccattgcag
tgattactaa gcaagatgtt gatcttaggg ctcaaaccgc 4200taatgacaaa
agattttcta aggttcaatg gctggatgta actcaggctg actggggtgt
4260taggaaagaa aaagatccgg aaacttatct tgataaataa aaggagaggg
tgaccgttta 4320cacagcatcc gttaccgcac ccgtcaacat cgcaaccctt
aagtattggg ggaaaaggga 4380cacgaagttg aatctgccca ccaattcgtc
catatcagtg actttatcgc aagatgacct 4440cagaacgttg acctctgcgg
ctactgcacc tgagtttgaa cgcgacactt tgtggttaaa 4500tggagaacca
cacagcatcg acaatgaaag aactcaaaat tgtctgcgcg acctacgcca
4560attaagaaag gaaatggaat cgaaggacgc ctcattgccc acattatctc
aatggaaact 4620ccacattgtc tccgaaaata actttcctac agcagctggt
ttagcttcct ccgctgctgg 4680ctttgctgca ttggtctctg caattgctaa
gttataccaa ttaccacagt caacttcaga 4740aatatctaga atagcaagaa
aggggtctgg ttcagcttgt agatcgttgt ttggcggata 4800cgtggcctgg
gaaatgggaa aagctgaaga tggtcatgat tccatggcag tacaaatcgc
4860agacagctct gactggcctc agatgaaagc ttgtgtccta gttgtcagcg
atattaaaaa 4920ggatgtgagt tccactcagg gtatgcaatt gaccgtggca
acctccgaac tatttaaaga 4980aagaattgaa catgtcgtac caaagagatt
tgaagtcatg cgtaaagcca ttgttgaaaa 5040agatttcgcc acctttgcaa
aggaaacaat gatggattcc aactctttcc atgccacatg 5100tttggactct
ttccctccaa tattctacat gaatgacact tccaagcgta tcatcagttg
5160gtgccacacc attaatcagt tttacggaga aacaatcgtt gcatacacgt
ttgatgcagg 5220tccaaatgct gtgttgtact acttagctga aaatgagtcg
aaactctttg catttatcta 5280taaattgttt ggctctgttc ctggatggga
caagaaattt actactgagc agcttgaggc 5340tttcaaccat caatttgaat
catctaactt tactgcacgt gaattggatc ttgagttgca 5400aaaggatgtt
gccagagtga ttttaactca agtcggttca ggcccacaag aaacaaacga
5460atctttgatt gacgcaaaga ctggtctacc aaaggaataa aaggagaggg
tgactgccga 5520caacaatagt atgccccatg gtgcagtatc tagttacgcc
aaattagtgc aaaaccaaac 5580acctgaagac attttggaag agtttcctga
aattattcca ttacaacaaa gacctaatac 5640ccgatctagt gagacgtcaa
atgacgaaag cggagaaaca tgtttttctg gtcatgatga 5700ggagcaaatt
aagttaatga atgaaaattg tattgttttg gattgggacg ataatgctat
5760tggtgccggt accaagaaag tttgtcattt aatggaaaat attgaaaagg
gtttactaca 5820tcgtgcattc tccgtcttta ttttcaatga acaaggtgaa
ttacttttac aacaaagagc 5880cactgaaaaa ataactttcc ctgatctttg
gactaacaca tgctgctctc atccactatg 5940tattgatgac gaattaggtt
tgaagggtaa gctagacgat aagattaagg gcgctattac 6000tgcggcggtg
agaaaactag atcatgaatt aggtattcca gaagatgaaa ctaagacaag
6060gggtaagttt cactttttaa acagaatcca ttacatggca ccaagcaatg
aaccatgggg 6120tgaacatgaa attgattaca tcctatttta taagatcaac
gctaaagaaa acttgactgt 6180caacccaaac gtcaatgaag ttagagactt
caaatgggtt tcaccaaatg atttgaaaac 6240tatgtttgct gacccaagtt
acaagtttac gccttggttt aagattattt gcgagaatta 6300cttattcaac
tggtgggagc aattagatga cctttctgaa gtggaaaatg acaggcaaat
6360tcatagaatg ctataaaaaa aaccggcctt ggccccgccg gttttttatt
atttttcttc 6420ctccgcatgt tcaatccgct ccataatcga cggatggctc
cctctgaaaa ttttaacgag 6480aaacggcggg ttgacccggc tcagtcccgt
aacggccaag tcctgaaacg tctcaatcgc 6540cgcttcccgg tttccggtca
gctcaatgcc gtaacggtcg gcggcgtttt cctgataccg 6600ggagacggca
ttcgtaattt gaatacatac gaacaaatta ataaagtgaa aaaaatactt
6660cggaaacatt taaaaaataa ccttattggt acttacatgt ttggatcagg
agttgagagt 6720ggactaaaac caaatagtga tcttgacttt ttagtcgtcg
tatctgaacc attgacagat 6780caaagtaaag aaatacttat acaaaaaatt
agacctattt caaaaaaaat aggagataaa 6840agcaacttac gatatattga
attaacaatt attattcagc aagaaatggt accgtggaat 6900catcctccca
aacaagaatt tatttatgga gaatggttac aagagcttta tgaacaagga
6960tacattcctc agaaggaatt aaattcagat ttaaccataa tgctttacca
agcaaaacga 7020aaaaataaaa gaatatacgg aaattatgac ttagaggaat
tactacctga tattccattt 7080tctgatgtga gaagagccat tatggattcg
tcagaggaat taatagataa ttatcaggat 7140gatgaaacca actctatatt
aactttatgc cgtatgattt taactatgga cacgggtaaa 7200atcataccaa
aagatattgc gggaaatgca gtggctgaat cttctccatt agaacatagg
7260gagagaattt tgttagcagt tcgtagttat cttggagaga atattgaatg
gactaatgaa 7320aatgtaaatt taactataaa ctatttaaat aacagattaa
aaaaattata atgtaacctt 7380tgctttcaaa tgagtagaaa taatgcacat
ccatgtttgt atcgtgcaaa taaagtgttt 7440catccgtagg aaaaaatgac
tttagtatct gttccgcttt ttctgatgaa atgtgctccc 7500cgacaaaatt
gaatgaatca tggacatttg ctggctttga tacagcgaaa gcagccgttc
7560ctatgttata tatcggattt aacagcagga caaaaaacac catgacagcc
atcgtcaccc 7620acttattcac acgcacataa acctttcctg acttttggaa
cagatgatag ctcatcaaaa 7680atcccgccat tgccaaataa atcgtatatg
gcattactgc accataatct tttgagattt 7740gattgggata tggcgcaagc
agcaagacaa gcagtccgat aatcagcgta taaaataagc 7800ctagtaagat
cttatccgtt ctccaataca gcttgaaaaa cactacattc aacgcaatgg
7860gaagagtgat gatgaaaaac agaaacacga atgcaatcgg ctccatccca
tccgggtatt 7920ccttccaata cgaaaagaaa ctaaaaatca tttgtacgat
cggcaaactg acaacagcaa 7980ggtcgaacgt ataaaactta ccctttccgc
catgatcacg cggcatcagc atatagtgaa 8040aagccgtcag cagcacatat
ccgtataaca aaaaatgcag cagcggcagc agttcttttc 8100cgtcctctct
taagtaagcg ctggtgaagt ttgttgattg cacctggtga ataagttcaa
8160cagacactcc cgccagcagc acaatccgca atataacacc cgccaagaac
attgtgcgct 8220gccggtttat tttgggatga tgcaccaaaa gatataagcc
cgccagaaca acaattgacc 8280attgaatcag cagggtgctt tgtctgctta
atataaaata acgttcgaaa tgcaatacat 8340aatgactgaa taactccaac
acgaacaaca aaagtgcgca ttttataaaa gctaatgatt 8400cagtccacat
aattgataga cgaattctgc tacaggtcac gtggctatgt gaaggatcgc
8460gcgtccagtt aagagcaaaa acattgacaa aaaaatttat ttatgctaaa
atttactatt 8520aatatatttg tatgtataat aagattctcc tggccagggg
aatcttattt tttgtggagg 8580atcatttcat gaggaaaaat gagtccagct
taacgtctct aatttcagct tttgcccgtg 8640catatcacag ccgatatgac
acacctctta tttttgatga ttttatcgca aaagatctca 8700ttaacgaaaa
agagtttatc gacatcagta aaaatatgat tcaagaaata tcgtttttca
8760acaaagagat cgccgaacgt cttcaaaatg atcctgaaaa aatattaaaa
tgggttgcac 8820aaatccagct gtctccaacg cccctagcac gtgcttctta
ttgtgaaaaa gtcttgcaca 8880acgaattaat cctgggggca aaacagtatg
tcattcttgg agcgggactg gatactttct 8940gctttcggca tccagaatta
gaaaacagct tacaggtttt cgaggttgat catccggcca 9000cacagcaatt
gaaaaaaaat aagctgaagg atgcaaatct gacaattccg ggtcatcttc
9060attttgttcc tatggatttc accaaaacgt tttcgtatga tcctctctta
gatgaaggat 9120ttaaaaacac aaaaacattc ttcagccttc tcggagtgtc
ttattatgta acacgggaag 9180aaaatgcaag cttgatcagc aatttatttt
ctcatgtccc gcctggaagc tctattgttt 9240ttgattatgc ggacgaaaca
ctttttacag caaaagggac gtcgaatcga gttgaacata 9300tggtgaagat
ggctgccgca agcggggaac cgatgaaatc atgtttcact tatcaagaga
9360ttgaacatct g 9371144339DNAArtificial SequenceSynthetic
Construct 14tagaaaaact catcgagcat caaatgaaac tgcaatttat tcatatcagg
attatcaata 60ccatattttt gaaaaagccg tttctgtaat gaaggagaaa actcaccgag
gcagttccat 120aggatggcaa gatcctggta tcggtctgcg attccgactc
gtccaacatc aatacaacct 180attaatttcc cctcgtcaaa aataaggtta
tcaagtgaga aatcaccatg agtgacgact 240gaatccggtg agaatggcaa
aagtttatgc atttctttcc agacttgttc aacaggccag 300ccattacgct
cgtcatcaaa atcactcgca tcaaccaaac cgttattcat tcgtgattgc
360gcctgagcga ggcgaaatac gcgatcgctg ttaaaaggac aattacaaac
aggaatcgag 420tgcaaccggc gcaggaacac tgccagcgca tcaacaatat
tttcacctga atcaggatat 480tcttctaata cctggaacgc tgtttttccg
gggatcgcag tggtgagtaa ccatgcatca 540tcaggagtac ggataaaatg
cttgatggtc ggaagtggca taaattccgt cagccagttt 600agtctgacca
tctcatctgt aacatcattg gcaacgctac ctttgccatg tttcagaaac
660aactctggcg catcgggctt cccatacaag cgatagattg tcgcacctga
ttgcccgaca 720ttatcgcgag cccatttata cccatataaa tcagcatcca
tgttggaatt taatcgcggc 780ctcgacgttt cccgttgaat atggctcata
ttcttccttt ttcaatatta ttgaagcatt 840tatcagggtt attgtctcat
gagcggatac atatttgaat gtatttagaa aaataaacaa 900ataggggtca
gtgttacaac caattaacca attctgaaca ttatcgcgag cccatttata
960cctgaatatg gctcataaca ccccttgttt gcctggcggc agtagcgcgg
tggtcccacc 1020tgaccccatg ccgaactcag aagtgaaacg ccgtagcgcc
gatggtagtg tggggactcc 1080ccatgcgaga gtagggaact gccaggcatc
aaataaaacg aaaggctcag tcgaaagact 1140gggcctttcg cccgggctaa
ttagggggtg tcgcccttta gtcgctgaac atgtgctctg 1200tttctaccga
gaacgtttcc ttcactgaga cggaaaccga ggcacgtcgt agcgcgaact
1260acgagccgaa tagctgggac tacgatttcc tgctgtcttc cgatactgac
gaatctattg 1320aggtgtacaa agacaaagca aagaaactgg aggctgaagt
gcgccgcgaa attaacaacg 1380agaaagctga attcctgact ctgctggagc
tgatcgataa cgtacagcgc ctgggtctgg 1440gttaccgctt cgaatctgat
atccgtcgcg cactggatcg tttcgtaagc agcggcggtt 1500tcgatggcgt
gaccaaaacg agcctgcacg ctaccgcgct gtccttccgt ctgctgcgtc
1560agcacggctt cgaagtttct caggaagcat tctccggttt caaagatcaa
aacggtaact 1620tcctggaaaa cctgaaagaa gacactaagg cgatcctgag
cctgtatgag gcaagctttc 1680tggccctgga gggtgagaac atcctggatg
aggcgcgcgt attcgccatc tcccatctga 1740aagagctgtc tgaagagaaa
atcggtaagg aactggcaga gcaggttaat cacgcactgg 1800aactgccgct
gcatcgtcgt acccagcgtc tggaggcggt ttggtccatc gaagcgtacc
1860gcaaaaagga ggatgctaac caggttctgc tggaactggc catcctggac
tacaacatga 1920tccagtccgt ttaccagcgt gatctgcgtg aaacctcccg
ttggtggcgc cgtgtgggcc 1980tggcgaccaa actgcacttc gctaaggacc
gcctgattga gtctttttac tgggcagtcg 2040gcgttgcgtt cgaacctcag
tattctgact gccgtaacag cgttgcgaaa atgttcagct 2100tcgttactat
tatcgacgac atctacgacg tttacggtac tctggacgag ctggaactgt
2160ttaccgacgc tgtcgaacgt tgggatgtta acgccatcaa cgatctgcct
gactacatga 2220aactgtgctt cctggcactg tataacacga tcaacgaaat
tgcatacgac aacctgaaag 2280acaaaggtga aaacatcctg ccgtacctga
ctaaagcgtg ggcggatctg tgtaacgctt 2340ttctgcaaga agcgaaatgg
ctgtataaca aatccactcc gacctttgac gattatttcg 2400gcaatgcctg
gaaatccagc tctggcccgc tgcaactgat cttcgcttat tttgcggttg
2460tccaaaacat caaaaaggag gaaattgaaa acctgcaaaa ataccacgat
atcattagcc 2520gtccttctca tatctttcgc ctgtgcaacg acctggcaag
cgcgtccgca gagatcgcac 2580gtggcgaaac cgctaactct gtttcctgct
acatgcgcac caagggcatt tccgaagagc 2640tggcaaccga gagcgtaatg
aatctgatcg acgaaacctg taagaaaatg aacaaagaaa 2700aactgggtgg
ctccctgttc gctaaaccgt tcgtagagac tgctattaac ctggcacgtc
2760agagccactg cacctaccac aatggtgacg cacatactag cccggatgaa
ctgactcgta 2820aacgtgtact gtctgttatc accgaaccga ttctgccgtt
cgaacgttaa ctgcagcgtc 2880aatcgaaagg gcgacacaaa atttattcta
aatgcataat aaatactgat aacatcttat 2940agtttgtatt atattttgta
ttatcgttga catgtataat tttgatatca aaaactgatt 3000ttccctttat
tattttcgag atttattttc ttaattctct ttaacaaact agaaatattg
3060tatatacaaa aaatcataaa taatagatga atagtttaat tataggtgtt
catcaatcga 3120aaaagcaacg tatcttattt aaagtgcgtt gcttttttct
catttataag gttaaataat 3180tctcatatat caagcaaagt gacaggcgcc
cttaaatatt ctgacaaatg ctctttccct 3240aaactccccc cataaaaaaa
cccgccgaag cgggttttta cgttatttgc ggattaacga 3300ttactcgtta
tcagaaccgc ccagggggcc cgagcttaag actggccgtc gttttacaac
3360acagaaagag tttgtagaaa cgcaaaaagg ccatccgtca ggggccttct
gcttagtttg 3420atgcctggca gttccctact ctcgccttcc gcttcctcgc
tcactgactc gctgcgctcg 3480gtcgttcggc tgcggcgagc ggtatcagct
cactcaaagg cggtaatacg gttatccaca 3540gaatcagggg ataacgcagg
aaagaacatg tgagcaaaag gccagcaaaa ggccaggaac 3600cgtaaaaagg
ccgcgttgct ggcgtttttc cataggctcc gcccccctga cgagcatcac
3660aaaaatcgac gctcaagtca gaggtggcga aacccgacag gactataaag
ataccaggcg 3720tttccccctg gaagctccct cgtgcgctct cctgttccga
ccctgccgct taccggatac 3780ctgtccgcct ttctcccttc gggaagcgtg
gcgctttctc atagctcacg ctgtaggtat 3840ctcagttcgg tgtaggtcgt
tcgctccaag ctgggctgtg tgcacgaacc ccccgttcag 3900cccgaccgct
gcgccttatc cggtaactat cgtcttgagt ccaacccggt aagacacgac
3960ttatcgccac tggcagcagc cactggtaac aggattagca gagcgaggta
tgtaggcggt 4020gctacagagt tcttgaagtg gtgggctaac tacggctaca
ctagaagaac agtatttggt 4080atctgcgctc tgctgaagcc agttaccttc
ggaaaaagag ttggtagctc ttgatccggc 4140aaacaaacca ccgctggtag
cggtggtttt tttgtttgca agcagcagat tacgcgcaga 4200aaaaaaggat
ctcaagaaga tcctttgatc ttttctacgg ggtctgacgc tcagtggaac
4260gacgcgcgcg taactcacgt taagggattt tggtcatgag cttgcgccgt
cccgtcaagt 4320cagcgtaatg ctctgcttt 4339156065DNAArtificial
SequenceSynthetic Construct 15gtttgacagc ttatcatcga ctgcacggtg
caccaatgct tctggcgtca ggcagccatc 60ggaagctgtg gtatggctgt gcaggtcgta
aatcactgca taattcgtgt cgctcaaggc 120gcactcccgt tctggataat
gttttttgcg ccgacatcat aacggttctg gcaaatattc 180tgaaatgagc
tgttgacaat taatcatccg gctcgtataa tgtgtggaat tgtgagcgga
240taacaatttc acacaggaaa cagcgccgct gagaaaaagc gaagcggcac
tgctctttaa 300caatttatca gacaatctgt gtgggcactc gaccggaatt
atcgattaac tttattatta 360aaaattaaag aggtatatat taatgtatcg
attaaataag gaggaataaa ccatgtgctc 420tgtttctacc gagaacgttt
ccttcactga gacggaaacc gaggcacgtc gtagcgcgaa 480ctacgagccg
aatagctggg actacgattt cctgctgtct tccgatactg acgaatctat
540tgaggtgtac aaagacaaag caaagaaact ggaggctgaa gtgcgccgcg
aaattaacaa 600cgagaaagct gaattcctga ctctgctgga gctgatcgat
aacgtacagc gcctgggtct 660gggttaccgc ttcgaatctg atatccgtcg
cgcactggat cgtttcgtaa gcagcggcgg 720tttcgatggc gtgaccaaaa
cgagcctgca cgctaccgcg ctgtccttcc gtctgctgcg 780tcagcacggc
ttcgaagttt ctcaggaagc attctccggt ttcaaagatc aaaacggtaa
840cttcctggaa aacctgaaag aagacactaa ggcgatcctg agcctgtatg
aggcaagctt 900tctggccctg gagggtgaga acatcctgga tgaggcgcgc
gtattcgcca tctcccatct 960gaaagagctg tctgaagaga aaatcggtaa
ggaactggca gagcaggtta atcacgcact 1020ggaactgccg ctgcatcgtc
gtacccagcg tctggaggcg gtttggtcca tcgaagcgta 1080ccgcaaaaag
gaggatgcta accaggttct gctggaactg gccatcctgg actacaacat
1140gatccagtcc gtttaccagc gtgatctgcg tgaaacctcc cgttggtggc
gccgtgtggg 1200cctggcgacc aaactgcact tcgctaagga ccgcctgatt
gagtcttttt actgggcagt 1260cggcgttgcg ttcgaacctc agtattctga
ctgccgtaac agcgttgcga aaatgttcag 1320cttcgttact attatcgacg
acatctacga cgtttacggt actctggacg agctggaact 1380gtttaccgac
gctgtcgaac gttgggatgt taacgccatc aacgatctgc ctgactacat
1440gaaactgtgc ttcctggcac tgtataacac gatcaacgaa attgcatacg
acaacctgaa 1500agacaaaggt gaaaacatcc tgccgtacct gactaaagcg
tgggcggatc tgtgtaacgc 1560ttttctgcaa gaagcgaaat ggctgtataa
caaatccact ccgacctttg acgattattt 1620cggcaatgcc tggaaatcca
gctctggccc gctgcaactg atcttcgctt attttgcggt 1680tgtccaaaac
atcaaaaagg aggaaattga aaacctgcaa aaataccacg atatcattag
1740ccgtccttct catatctttc gcctgtgcaa cgacctggca agcgcgtccg
cagagatcgc 1800acgtggcgaa accgctaact ctgtttcctg ctacatgcgc
accaagggca tttccgaaga 1860gctggcaacc gagagcgtaa tgaatctgat
cgacgaaacc tgtaagaaaa tgaacaaaga 1920aaaactgggt ggctccctgt
tcgctaaacc gttcgtagag actgctatta acctggcacg 1980tcagagccac
tgcacctacc acaatggtga cgcacatact agcccggatg aactgactcg
2040taaacgtgta ctgtctgtta tcaccgaacc gattctgccg ttcgaacgtt
aactgcagct 2100ggtaccatat gggaattcga agctttctag aacaaaaact
catctcagaa gaggatctga 2160atagcgccgt cgaccatcat catcatcatc
attgagttta aacggtctcc agcttggctg 2220ttttggcgga tgagagaaga
ttttcagcct gatacagatt aaatcagaac gcagaagcgg 2280tctgataaaa
cagaatttgc ctggcggcag tagcgcggtg gtcccacctg accccatgcc
2340gaactcagaa gtgaaacgcc gtagcgccga tggtagtgtg gggtctcccc
atgcgagagt 2400agggaactgc caggcatcaa ataaaacgaa aggctcagtc
gaaagactgg gcctttcgtt 2460ttatctgttg tttgtcggtg aacgctctcc
tgagtaggac aaatccgccg ggagcggatt 2520tgaacgttgc gaagcaacgg
cccggagggt ggcgggcagg acgcccgcca taaactgcca 2580ggcatcaaat
taagcagaag gccatcctga cggatggcct ttttgcgttt ctacaaactc
2640tttttgttta tttttctaaa tacattcaaa tatgtatccg ctcatgagac
aataaccctg 2700ataaatgctt caataatatt gaaaaaggaa gagtatgagt
attcaacatt tccgtgtcgc 2760ccttattccc ttttttgcgg cattttgcct
tcctgttttt gctcacccag aaacgctggt 2820gaaagtaaaa gatgctgaag
atcagttggg tgcacgagtg ggttacatcg aactggatct 2880caacagcggt
aagatccttg agagttttcg ccccgaagaa cgttttccaa tgatgagcac
2940ttttaaagtt ctgctatgtg gcgcggtatt atcccgtgtt gacgccgggc
aagagcaact 3000cggtcgccgc atacactatt ctcagaatga cttggttgag
tactcaccag tcacagaaaa 3060gcatcttacg gatggcatga cagtaagaga
attatgcagt gctgccataa ccatgagtga 3120taacactgcg gccaacttac
ttctgacaac gatcggagga ccgaaggagc taaccgcttt 3180tttgcacaac
atgggggatc atgtaactcg ccttgatcgt tgggaaccgg agctgaatga
3240agccatacca aacgacgagc gtgacaccac gatgcctgta gcaatggcaa
caacgttgcg 3300caaactatta actggcgaac tacttactct agcttcccgg
caacaattaa tagactggat 3360ggaggcggat aaagttgcag gaccacttct
gcgctcggcc cttccggctg gctggtttat 3420tgctgataaa tctggagccg
gtgagcgtgg gtctcgcggt atcattgcag cactggggcc 3480agatggtaag
ccctcccgta tcgtagttat ctacacgacg gggagtcagg caactatgga
3540tgaacgaaat agacagatcg ctgagatagg tgcctcactg attaagcatt
ggtaactgtc 3600agaccaagtt tactcatata tactttagat tgatttaaaa
cttcattttt aatttaaaag 3660gatctaggtg aagatccttt ttgataatct
catgaccaaa atcccttaac gtgagttttc 3720gttccactga gcgtcagacc
ccgtagaaaa gatcaaagga tcttcttgag atcctttttt 3780tctgcgcgta
atctgctgct tgcaaacaaa aaaaccaccg ctaccagcgg tggtttgttt
3840gccggatcaa gagctaccaa ctctttttcc gaaggtaact ggcttcagca
gagcgcagat 3900accaaatact gtccttctag tgtagccgta gttaggccac
cacttcaaga actctgtagc 3960accgcctaca tacctcgctc tgctaatcct
gttaccagtg gctgctgcca gtggcgataa 4020gtcgtgtctt accgggttgg
actcaagacg atagttaccg gataaggcgc agcggtcggg 4080ctgaacgggg
ggttcgtgca cacagcccag cttggagcga acgacctaca ccgaactgag
4140atacctacag cgtgagctat gagaaagcgc cacgcttccc gaagggagaa
aggcggacag 4200gtatccggta agcggcaggg tcggaacagg agagcgcacg
agggagcttc cagggggaaa 4260cgcctggtat ctttatagtc ctgtcgggtt
tcgccacctc tgacttgagc gtcgattttt 4320gtgatgctcg tcaggggggc
ggagcctatg gaaaaacgcc agcaacgcgg cctttttacg 4380gttcctggcc
ttttgctggc cttttgctca catgttcttt cctgcgttat cccctgattc
4440tgtggataac cgtattaccg cctttgagtg agctgatacc gctcgccgca
gccgaacgac 4500cgagcgcagc gagtcagtga gcgaggaagc ggaagagcgc
ctgatgcggt attttctcct 4560tacgcatctg tgcggtattt cacaccgcat
atggtgcact ctcagtacaa tctgctctga 4620tgccgcatag ttaagccagt
atacactccg ctatcgctac gtgactgggt catggctgcg 4680ccccgacacc
cgccaacacc cgctgacgcg ccctgacggg cttgtctgct cccggcatcc
4740gcttacagac aagctgtgac cgtctccggg agctgcatgt gtcagaggtt
ttcaccgtca 4800tcaccgaaac gcgcgaggca gcagatcaat tcgcgcgcga
aggcgaagcg gcatgcattt 4860acgttgacac catcgaatgg tgcaaaacct
ttcgcggtat ggcatgatag cgcccggaag 4920agagtcaatt cagggtggtg
aatgtgaaac cagtaacgtt atacgatgtc gcagagtatg 4980ccggtgtctc
ttatcagacc gtttcccgcg tggtgaacca ggccagccac gtttctgcga
5040aaacgcggga aaaagtggaa gcggcgatgg cggagctgaa ttacattccc
aaccgcgtgg 5100cacaacaact ggcgggcaaa cagtcgttgc tgattggcgt
tgccacctcc agtctggccc 5160tgcacgcgcc gtcgcaaatt gtcgcggcga
ttaaatctcg cgccgatcaa ctgggtgcca 5220gcgtggtggt gtcgatggta
gaacgaagcg gcgtcgaagc ctgtaaagcg gcggtgcaca 5280atcttctcgc
gcaacgcgtc agtgggctga tcattaacta tccgctggat gaccaggatg
5340ccattgctgt ggaagctgcc tgcactaatg ttccggcgtt atttcttgat
gtctctgacc 5400agacacccat caacagtatt attttctccc atgaagacgg
tacgcgactg ggcgtggagc 5460atctggtcgc attgggtcac cagcaaatcg
cgctgttagc gggcccatta agttctgtct 5520cggcgcgtct gcgtctggct
ggctggcata aatatctcac tcgcaatcaa attcagccga 5580tagcggaacg
ggaaggcgac tggagtgcca tgtccggttt tcaacaaacc atgcaaatgc
5640tgaatgaggg
catcgttccc actgcgatgc tggttgccaa cgatcagatg gcgctgggcg
5700caatgcgcgc cattaccgag tccgggctgc gcgttggtgc ggatatctcg
gtagtgggat 5760acgacgatac cgaagacagc tcatgttata tcccgccgtc
aaccaccatc aaacaggatt 5820ttcgcctgct ggggcaaacc agcgtggacc
gcttgctgca actctctcag ggccaggcgg 5880tgaagggcaa tcagctgttg
cccgtctcac tggtgaaaag aaaaaccacc ctggcgccca 5940atacgcaaac
cgcctctccc cgcgcgttgg ccgattcatt aatgcagctg gcacgacagg
6000tttcccgact ggaaagcggg cagtgagcgc aacgcaatta atgtgagtta
gcgcgaattg 6060atctg 6065166912DNAArtificial SequenceSynthetic
Construct 16ttgtctgctc ccggcatccg cttacagaca agctgtgacc gtctccggga
gctgcatgtg 60tcagaggttt tcaccgtcat caccgaaacg cgcgaggcag cagatcaatt
cgcgcgcgaa 120ggcgaagcgg catgcattta cgttgacacc atcgaatggt
gcaaaacctt tcgcggtatg 180gcatgatagc gcccggaaga gagtcaattc
agggtggtga atgtgaaacc agtaacgtta 240tacgatgtcg cagagtatgc
cggtgtctct tatcagaccg tttcccgcgt ggtgaaccag 300gccagccacg
tttctgcgaa aacgcgggaa aaagtggaag cggcgatggc ggagctgaat
360tacattccca accgcgtggc acaacaactg gcgggcaaac agtcgttgct
gattggcgtt 420gccacctcca gtctggccct gcacgcgccg tcgcaaattg
tcgcggcgat taaatctcgc 480gccgatcaac tgggtgccag cgtggtggtg
tcgatggtag aacgaagcgg cgtcgaagcc 540tgtaaagcgg cggtgcacaa
tcttctcgcg caacgcgtca gtgggctgat cattaactat 600ccgctggatg
accaggatgc cattgctgtg gaagctgcct gcactaatgt tccggcgtta
660tttcttgatg tctctgacca gacacccatc aacagtatta ttttctccca
tgaagacggt 720acgcgactgg gcgtggagca tctggtcgca ttgggtcacc
agcaaatcgc gctgttagcg 780ggcccattaa gttctgtctc ggcgcgtctg
cgtctggctg gctggcataa atatctcact 840cgcaatcaaa ttcagccgat
agcggaacgg gaaggcgact ggagtgccat gtccggtttt 900caacaaacca
tgcaaatgct gaatgagggc atcgttccca ctgcgatgct ggttgccaac
960gatcagatgg cgctgggcgc aatgcgcgcc attaccgagt ccgggctgcg
cgttggtgcg 1020gatatctcgg tagtgggata cgacgatacc gaagacagct
catgttatat cccgccgtca 1080accaccatca aacaggattt tcgcctgctg
gggcaaacca gcgtggaccg cttgctgcaa 1140ctctctcagg gccaggcggt
gaagggcaat cagctgttgc ccgtctcact ggtgaaaaga 1200aaaaccaccc
tggcgcccaa tacgcaaacc gcctctcccc gcgcgttggc cgattcatta
1260atgcagctgg cacgacaggt ttcccgactg gaaagcgggc agtgagcgca
acgcaattaa 1320tgtgagttag cgcgaattga tctggtttga cagcttatca
tcgactgcac ggtgcaccaa 1380tgcttctggc gtcaggcagc catcggaagc
tgtggtatgg ctgtgcaggt cgtaaatcac 1440tgcataattc gtgtcgctca
aggcgcactc ccgttctgga taatgttttt tgcgccgaca 1500tcataacggt
tctggcaaat attctgaaat gagctgttga caattaatca tccggctcgt
1560ataatgtgtg gaattgtgag cggataacaa tttcacacag gaaacagcgc
cgctgagaaa 1620aagcgaagcg gcactgctct ttaacaattt atcagacaat
ctgtgtgggc actcgaccgg 1680aattatcgat taactttatt attaaaaatt
aaagaggtat atattaatgt atcgattaaa 1740taaggaggaa taaaccatgt
gtgcgacctc ttctcaattt actcagatta ccgagcataa 1800ttcccgtcgt
tccgcaaact atcagccaaa cctgtggaat ttcgaattcc tgcaatccct
1860ggagaacgac ctgaaagtgg aaaagctgga ggagaaagcg accaaactgg
aggaagaagt 1920tcgctgcatg atcaaccgtg tagacaccca gccgctgtcc
ctgctggagc tgatcgacga 1980tgtgcagcgc ctgggtctga cctacaaatt
tgaaaaagac atcattaaag ccctggaaaa 2040catcgtactg ctggacgaaa
acaaaaagaa caaatctgac ctgcacgcaa ccgctctgtc 2100tttccgtctg
ctgcgtcagc acggtttcga ggtttctcag gatgtttttg agcgtttcaa
2160ggataaagaa ggtggtttca gcggtgaact gaaaggtgac gtccaaggcc
tgctgagcct 2220gtatgaagcg tcttacctgg gtttcgaggg tgagaacctg
ctggaggagg cgcgtacctt 2280ttccatcacc cacctgaaga acaacctgaa
agaaggcatt aataccaagg ttgcagaaca 2340agtgagccac gccctggaac
tgccatatca ccagcgtctg caccgtctgg aggcacgttg 2400gttcctggat
aaatacgaac cgaaagaacc gcatcaccag ctgctgctgg agctggcgaa
2460gctggatttt aacatggtac agaccctgca ccagaaagag ctgcaagatc
tgtcccgctg 2520gtggaccgag atgggcctgg ctagcaaact ggattttgta
cgcgaccgcc tgatggaagt 2580ttatttctgg gcactgggta tggcgccaga
cccgcagttt ggtgaatgtc gcaaagctgt 2640tactaaaatg tttggtctgg
tgacgatcat cgatgacgtg tatgacgttt atggcactct 2700ggacgaactg
caactgttca ccgatgctgt agagcgctgg gacgttaacg ctattaacac
2760cctgccggac tatatgaaac tgtgtttcct ggcactgtac aacaccgtta
acgacacgtc 2820ctattctatt ctgaaagaga aaggtcataa caacctgtcc
tatctgacga aaagctggcg 2880tgaactgtgc aaagcctttc tgcaagaggc
gaaatggtcc aacaacaaaa ttatcccggc 2940tttctccaag tacctggaaa
acgccagcgt ttcctcctcc ggtgtagcgc tgctggcgcc 3000gtcttacttt
tccgtatgcc agcagcagga agacatctcc gaccacgcgc tgcgttccct
3060gaccgacttc catggtctgg tgcgttctag ctgcgttatc ttccgcctgt
gcaacgatct 3120ggccacctct gcggcggagc tggaacgtgg cgagactacc
aattctatca ttagctacat 3180gcacgaaaac gatggtacca gcgaggaaca
ggcccgcgaa gaactgcgta aactgatcga 3240cgccgaatgg aaaaagatga
atcgtgaacg cgttagcgac tccaccctgc tgcctaaagc 3300gttcatggaa
atcgcagtta acatggcacg tgtttcccac tgcacctacc agtatggcga
3360tggtctgggt cgcccagact acgcgactga aaaccgcatc aaactgctgc
tgattgaccc 3420tttcccgatt aaccagctga tgtatgtcta actgcatcgc
ccttaggagg taaaaaaaaa 3480tgactgccga caacaatagt atgccccatg
gtgcagtatc tagttacgcc aaattagtgc 3540aaaaccaaac acctgaagac
attttggaag agtttcctga aattattcca ttacaacaaa 3600gacctaatac
ccgatctagt gagacgtcaa atgacgaaag cggagaaaca tgtttttctg
3660gtcatgatga ggagcaaatt aagttaatga atgaaaattg tattgttttg
gattgggacg 3720ataatgctat tggtgccggt accaagaaag tttgtcattt
aatggaaaat attgaaaagg 3780gtttactaca tcgtgcattc tccgtcttta
ttttcaatga acaaggtgaa ttacttttac 3840aacaaagagc cactgaaaaa
ataactttcc ctgatctttg gactaacaca tgctgctctc 3900atccactatg
tattgatgac gaattaggtt tgaagggtaa gctagacgat aagattaagg
3960gcgctattac tgcggcggtg agaaaactag atcatgaatt aggtattcca
gaagatgaaa 4020ctaagacaag gggtaagttt cactttttaa acagaatcca
ttacatggca ccaagcaatg 4080aaccatgggg tgaacatgaa attgattaca
tcctatttta taagatcaac gctaaagaaa 4140acttgactgt caacccaaac
gtcaatgaag ttagagactt caaatgggtt tcaccaaatg 4200atttgaaaac
tatgtttgct gacccaagtt acaagtttac gccttggttt aagattattt
4260gcgagaatta cttattcaac tggtgggagc aattagatga cctttctgaa
gtggaaaatg 4320acaggcaaat tcatagaatg ctataacaac gcgtcctgca
gctggtacca tatgggaatt 4380cgaagctttc tagaacaaaa actcatctca
gaagaggatc tgaatagcgc cgtcgaccat 4440catcatcatc atcattgagt
ttaaacggtc tccagcttgg ctgttttggc ggatgagaga 4500agattttcag
cctgatacag attaaatcag aacgcagaag cggtctgata aaacagaatt
4560tgcctggcgg cagtagcgcg gtggtcccac ctgaccccat gccgaactca
gaagtgaaac 4620gccgtagcgc cgatggtagt gtggggtctc cccatgcgag
agtagggaac tgccaggcat 4680caaataaaac gaaaggctca gtcgaaagac
tgggcctttc gttttatctg ttgtttgtcg 4740gtgaacgctc tcctgagtag
gacaaatccg ccgggagcgg atttgaacgt tgcgaagcaa 4800cggcccggag
ggtggcgggc aggacgcccg ccataaactg ccaggcatca aattaagcag
4860aaggccatcc tgacggatgg cctttttgcg tttctacaaa ctctttttgt
ttatttttct 4920aaatacattc aaatatgtat ccgcttaacc ggaattgcca
gctggggcgc cctctggtaa 4980ggttgggaag ccctgcaaag taaactggat
ggctttctcg ccgccaagga tctgatggcg 5040caggggatca agctctgatc
aagagacagg atgaggatcg tttcgcatga ttgaacaaga 5100tggattgcac
gcaggttctc cggccgcttg ggtggagagg ctattcggct atgactgggc
5160acaacagaca atcggctgct ctgatgccgc cgtgttccgg ctgtcagcgc
aggggcgccc 5220ggttcttttt gtcaagaccg acctgtccgg tgccctgaat
gaactgcaag acgaggcagc 5280gcggctatcg tggctggcca cgacgggcgt
tccttgcgca gctgtgctcg acgttgtcac 5340tgaagcggga agggactggc
tgctattggg cgaagtgccg gggcaggatc tcctgtcatc 5400tcaccttgct
cctgccgaga aagtatccat catggctgat gcaatgcggc ggctgcatac
5460gcttgatccg gctacctgcc cattcgacca ccaagcgaaa catcgcatcg
agcgagcacg 5520tactcggatg gaagccggtc ttgtcgatca ggatgatctg
gacgaagagc atcaggggct 5580cgcgccagcc gaactgttcg ccaggctcaa
ggcgagcatg cccgacggcg aggatctcgt 5640cgtgacccat ggcgatgcct
gcttgccgaa tatcatggtg gaaaatggcc gcttttctgg 5700attcatcgac
tgtggccggc tgggtgtggc ggaccgctat caggacatag cgttggctac
5760ccgtgatatt gctgaagagc ttggcggcga atgggctgac cgcttcctcg
tgctttacgg 5820tatcgccgct cccgattcgc agcgcatcgc cttctatcgc
cttcttgacg agttcttctg 5880acatgaccaa aatcccttaa cgtgagtttt
cgttccactg agcgtcagac cccgtagaaa 5940agatcaaagg atcttcttga
gatccttttt ttctgcgcgt aatctgctgc ttgcaaacaa 6000aaaaaccacc
gctaccagcg gtggtttgtt tgccggatca agagctacca actctttttc
6060cgaaggtaac tggcttcagc agagcgcaga taccaaatac tgtccttcta
gtgtagccgt 6120agttaggcca ccacttcaag aactctgtag caccgcctac
atacctcgct ctgctaatcc 6180tgttaccagt ggctgctgcc agtggcgata
agtcgtgtct taccgggttg gactcaagac 6240gatagttacc ggataaggcg
cagcggtcgg gctgaacggg gggttcgtgc acacagccca 6300gcttggagcg
aacgacctac accgaactga gatacctaca gcgtgagcta tgagaaagcg
6360ccacgcttcc cgaagggaga aaggcggaca ggtatccggt aagcggcagg
gtcggaacag 6420gagagcgcac gagggagctt ccagggggaa acgcctggta
tctttatagt cctgtcgggt 6480ttcgccacct ctgacttgag cgtcgatttt
tgtgatgctc gtcagggggg cggagcctat 6540ggaaaaacgc cagcaacgcg
gcctttttac ggttcctggc cttttgctgg ccttttgctc 6600acatgttctt
tcctgcgtta tcccctgatt ctgtggataa ccgtattacc gcctttgagt
6660gagctgatac cgctcgccgc agccgaacga ccgagcgcag cgagtcagtg
agcgaggaag 6720cggaagagcg cctgatgcgg tattttctcc ttacgcatct
gtgcggtatt tcacaccgca 6780tatggtgcac tctcagtaca atctgctctg
atgccgcata gttaagccag tatacactcc 6840gctatcgcta cgtgactggg
tcatggctgc gccccgacac ccgccaacac ccgctgacgc 6900gccctgacgg gc
6912177902DNAArtificial SequenceSynthetic Construct 17ttgtctgctc
ccggcatccg cttacagaca agctgtgacc gtctccggga gctgcatgtg 60tcagaggttt
tcaccgtcat caccgaaacg cgcgaggcag cagatcaatt cgcgcgcgaa
120ggcgaagcgg catgcattta cgttgacacc atcgaatggt gcaaaacctt
tcgcggtatg 180gcatgatagc gcccggaaga gagtcaattc agggtggtga
atgtgaaacc agtaacgtta 240tacgatgtcg cagagtatgc cggtgtctct
tatcagaccg tttcccgcgt ggtgaaccag 300gccagccacg tttctgcgaa
aacgcgggaa aaagtggaag cggcgatggc ggagctgaat 360tacattccca
accgcgtggc acaacaactg gcgggcaaac agtcgttgct gattggcgtt
420gccacctcca gtctggccct gcacgcgccg tcgcaaattg tcgcggcgat
taaatctcgc 480gccgatcaac tgggtgccag cgtggtggtg tcgatggtag
aacgaagcgg cgtcgaagcc 540tgtaaagcgg cggtgcacaa tcttctcgcg
caacgcgtca gtgggctgat cattaactat 600ccgctggatg accaggatgc
cattgctgtg gaagctgcct gcactaatgt tccggcgtta 660tttcttgatg
tctctgacca gacacccatc aacagtatta ttttctccca tgaagacggt
720acgcgactgg gcgtggagca tctggtcgca ttgggtcacc agcaaatcgc
gctgttagcg 780ggcccattaa gttctgtctc ggcgcgtctg cgtctggctg
gctggcataa atatctcact 840cgcaatcaaa ttcagccgat agcggaacgg
gaaggcgact ggagtgccat gtccggtttt 900caacaaacca tgcaaatgct
gaatgagggc atcgttccca ctgcgatgct ggttgccaac 960gatcagatgg
cgctgggcgc aatgcgcgcc attaccgagt ccgggctgcg cgttggtgcg
1020gatatctcgg tagtgggata cgacgatacc gaagacagct catgttatat
cccgccgtca 1080accaccatca aacaggattt tcgcctgctg gggcaaacca
gcgtggaccg cttgctgcaa 1140ctctctcagg gccaggcggt gaagggcaat
cagctgttgc ccgtctcact ggtgaaaaga 1200aaaaccaccc tggcgcccaa
tacgcaaacc gcctctcccc gcgcgttggc cgattcatta 1260atgcagctgg
cacgacaggt ttcccgactg gaaagcgggc agtgagcgca acgcaattaa
1320tgtgagttag cgcgaattga tctggtttga cagcttatca tcgactgcac
ggtgcaccaa 1380tgcttctggc gtcaggcagc catcggaagc tgtggtatgg
ctgtgcaggt cgtaaatcac 1440tgcataattc gtgtcgctca aggcgcactc
ccgttctgga taatgttttt tgcgccgaca 1500tcataacggt tctggcaaat
attctgaaat gagctgttga caattaatca tccggctcgt 1560ataatgtgtg
gaattgtgag cggataacaa tttcacacag gaaacagcgc cgctgagaaa
1620aagcgaagcg gcactgctct ttaacaattt atcagacaat ctgtgtgggc
actcgaccgg 1680aattatcgat taactttatt attaaaaatt aaagaggtat
atattaatgt atcgattaaa 1740taaggaggaa taaaccatgt gtgcgacctc
ttctcaattt actcagatta ccgagcataa 1800ttcccgtcgt tccgcaaact
atcagccaaa cctgtggaat ttcgaattcc tgcaatccct 1860ggagaacgac
ctgaaagtgg aaaagctgga ggagaaagcg accaaactgg aggaagaagt
1920tcgctgcatg atcaaccgtg tagacaccca gccgctgtcc ctgctggagc
tgatcgacga 1980tgtgcagcgc ctgggtctga cctacaaatt tgaaaaagac
atcattaaag ccctggaaaa 2040catcgtactg ctggacgaaa acaaaaagaa
caaatctgac ctgcacgcaa ccgctctgtc 2100tttccgtctg ctgcgtcagc
acggtttcga ggtttctcag gatgtttttg agcgtttcaa 2160ggataaagaa
ggtggtttca gcggtgaact gaaaggtgac gtccaaggcc tgctgagcct
2220gtatgaagcg tcttacctgg gtttcgaggg tgagaacctg ctggaggagg
cgcgtacctt 2280ttccatcacc cacctgaaga acaacctgaa agaaggcatt
aataccaagg ttgcagaaca 2340agtgagccac gccctggaac tgccatatca
ccagcgtctg caccgtctgg aggcacgttg 2400gttcctggat aaatacgaac
cgaaagaacc gcatcaccag ctgctgctgg agctggcgaa 2460gctggatttt
aacatggtac agaccctgca ccagaaagag ctgcaagatc tgtcccgctg
2520gtggaccgag atgggcctgg ctagcaaact ggattttgta cgcgaccgcc
tgatggaagt 2580ttatttctgg gcactgggta tggcgccaga cccgcagttt
ggtgaatgtc gcaaagctgt 2640tactaaaatg tttggtctgg tgacgatcat
cgatgacgtg tatgacgttt atggcactct 2700ggacgaactg caactgttca
ccgatgctgt agagcgctgg gacgttaacg ctattaacac 2760cctgccggac
tatatgaaac tgtgtttcct ggcactgtac aacaccgtta acgacacgtc
2820ctattctatt ctgaaagaga aaggtcataa caacctgtcc tatctgacga
aaagctggcg 2880tgaactgtgc aaagcctttc tgcaagaggc gaaatggtcc
aacaacaaaa ttatcccggc 2940tttctccaag tacctggaaa acgccagcgt
ttcctcctcc ggtgtagcgc tgctggcgcc 3000gtcttacttt tccgtatgcc
agcagcagga agacatctcc gaccacgcgc tgcgttccct 3060gaccgacttc
catggtctgg tgcgttctag ctgcgttatc ttccgcctgt gcaacgatct
3120ggccacctct gcggcggagc tggaacgtgg cgagactacc aattctatca
ttagctacat 3180gcacgaaaac gatggtacca gcgaggaaca ggcccgcgaa
gaactgcgta aactgatcga 3240cgccgaatgg aaaaagatga atcgtgaacg
cgttagcgac tccaccctgc tgcctaaagc 3300gttcatggaa atcgcagtta
acatggcacg tgtttcccac tgcacctacc agtatggcga 3360tggtctgggt
cgcccagact acgcgactga aaaccgcatc aaactgctgc tgattgaccc
3420tttcccgatt aaccagctga tgtatgtcta actgcattcg cccttaggag
gtaaaaaaac 3480atgagttttg atattgccaa atacccgacc ctggcactgg
tcgactccac ccaggagtta 3540cgactgttgc cgaaagagag tttaccgaaa
ctctgcgacg aactgcgccg ctatttactc 3600gacagcgtga gccgttccag
cgggcacttc gcctccgggc tgggcacggt cgaactgacc 3660gtggcgctgc
actatgtcta caacaccccg tttgaccaat tgatttggga tgtggggcat
3720caggcttatc cgcataaaat tttgaccgga cgccgcgaca aaatcggcac
catccgtcag 3780aaaggcggtc tgcacccgtt cccgtggcgc ggcgaaagcg
aatatgacgt attaagcgtc 3840gggcattcat caacctccat cagtgccgga
attggtattg cggttgctgc cgaaaaagaa 3900ggcaaaaatc gccgcaccgt
ctgtgtcatt ggcgatggcg cgattaccgc aggcatggcg 3960tttgaagcga
tgaatcacgc gggcgatatc cgtcctgata tgctggtgat tctcaacgac
4020aatgaaatgt cgatttccga aaatgtcggc gcgctcaaca accatctggc
acagctgctt 4080tccggtaagc tttactcttc actgcgcgaa ggcgggaaaa
aagttttctc tggcgtgccg 4140ccaattaaag agctgctcaa acgcaccgaa
gaacatatta aaggcatggt agtgcctggc 4200acgttgtttg aagagctggg
ctttaactac atcggcccgg tggacggtca cgatgtgctg 4260gggcttatca
ccacgctaaa gaacatgcgc gacctgaaag gcccgcagtt cctgcatatc
4320atgaccaaaa aaggtcgtgg ttatgaaccg gcagaaaaag acccgatcac
tttccacgcc 4380gtgcctaaat ttgatccctc cagcggttgt ttgccgaaaa
gtagcggcgg tttgccgagc 4440tattcaaaaa tctttggcga ctggttgtgc
gaaacggcag cgaaagacaa caagctgatg 4500gcgattactc cggcgatgcg
tgaaggttcc ggcatggtcg agttttcacg taaattcccg 4560gatcgctact
tcgacgtggc aattgccgag caacacgcgg tgacctttgc tgcgggtctg
4620gcgattggtg ggtacaaacc cattgtcgcg atttactcca ctttcctgca
acgcgcctat 4680gatcaggtgc tgcatgacgt ggcgattcaa aagcttccgg
tcctgttcgc catcgaccgc 4740gcgggcattg ttggtgctga cggtcaaacc
catcagggtg cttttgatct ctcttacctg 4800cgctgcatac cggaaatggt
cattatgacc ccgagcgatg aaaacgaatg tcgccagatg 4860ctctataccg
gctatcacta taacgatggc ccgtcagcgg tgcgctaccc gcgtggcaac
4920gcggtcggcg tggaactgac gccgctggaa aaactaccaa ttggcaaagg
cattgtgaag 4980cgtcgtggcg agaaactggc gatccttaac tttggtacgc
tgatgccaga agcggcgaaa 5040gtcgccgaat cgctgaacgc cacgctggtc
gatatgcgtt ttgtgaaacc gcttgatgaa 5100gcgttaattc tggaaatggc
cgccagccat gaagcgctgg tcaccgtaga agaaaacgcc 5160attatgggcg
gcgcaggcag cggcgtgaac gaagtgctga tggcccatcg taaaccagta
5220cccgtgctga acattggcct gccggacttc tttattccgc aaggaactca
ggaagaaatg 5280cgcgccgaac tcggcctcga tgccgctggt atggaagcca
aaatcaaggc ctggctggca 5340taactgcagc tggtaccata tgggaattcg
aagctttcta gaacaaaaac tcatctcaga 5400agaggatctg aatagcgccg
tcgaccatca tcatcatcat cattgagttt aaacggtctc 5460cagcttggct
gttttggcgg atgagagaag attttcagcc tgatacagat taaatcagaa
5520cgcagaagcg gtctgataaa acagaatttg cctggcggca gtagcgcggt
ggtcccacct 5580gaccccatgc cgaactcaga agtgaaacgc cgtagcgccg
atggtagtgt ggggtctccc 5640catgcgagag tagggaactg ccaggcatca
aataaaacga aaggctcagt cgaaagactg 5700ggcctttcgt tttatctgtt
gtttgtcggt gaacgctctc ctgagtagga caaatccgcc 5760gggagcggat
ttgaacgttg cgaagcaacg gcccggaggg tggcgggcag gacgcccgcc
5820ataaactgcc aggcatcaaa ttaagcagaa ggccatcctg acggatggcc
tttttgcgtt 5880tctacaaact ctttttgttt atttttctaa atacattcaa
atatgtatcc gcttaaccgg 5940aattgccagc tggggcgccc tctggtaagg
ttgggaagcc ctgcaaagta aactggatgg 6000ctttctcgcc gccaaggatc
tgatggcgca ggggatcaag ctctgatcaa gagacaggat 6060gaggatcgtt
tcgcatgatt gaacaagatg gattgcacgc aggttctccg gccgcttggg
6120tggagaggct attcggctat gactgggcac aacagacaat cggctgctct
gatgccgccg 6180tgttccggct gtcagcgcag gggcgcccgg ttctttttgt
caagaccgac ctgtccggtg 6240ccctgaatga actgcaagac gaggcagcgc
ggctatcgtg gctggccacg acgggcgttc 6300cttgcgcagc tgtgctcgac
gttgtcactg aagcgggaag ggactggctg ctattgggcg 6360aagtgccggg
gcaggatctc ctgtcatctc accttgctcc tgccgagaaa gtatccatca
6420tggctgatgc aatgcggcgg ctgcatacgc ttgatccggc tacctgccca
ttcgaccacc 6480aagcgaaaca tcgcatcgag cgagcacgta ctcggatgga
agccggtctt gtcgatcagg 6540atgatctgga cgaagagcat caggggctcg
cgccagccga actgttcgcc aggctcaagg 6600cgagcatgcc cgacggcgag
gatctcgtcg tgacccatgg cgatgcctgc ttgccgaata 6660tcatggtgga
aaatggccgc ttttctggat tcatcgactg tggccggctg ggtgtggcgg
6720accgctatca ggacatagcg ttggctaccc gtgatattgc tgaagagctt
ggcggcgaat 6780gggctgaccg cttcctcgtg ctttacggta tcgccgctcc
cgattcgcag cgcatcgcct 6840tctatcgcct tcttgacgag ttcttctgac
gcatgaccaa aatcccttaa cgtgagtttt 6900cgttccactg agcgtcagac
cccgtagaaa agatcaaagg atcttcttga gatccttttt 6960ttctgcgcgt
aatctgctgc ttgcaaacaa aaaaaccacc gctaccagcg gtggtttgtt
7020tgccggatca agagctacca actctttttc cgaaggtaac tggcttcagc
agagcgcaga 7080taccaaatac tgtccttcta gtgtagccgt agttaggcca
ccacttcaag aactctgtag 7140caccgcctac atacctcgct ctgctaatcc
tgttaccagt ggctgctgcc agtggcgata 7200agtcgtgtct taccgggttg
gactcaagac gatagttacc ggataaggcg cagcggtcgg 7260gctgaacggg
gggttcgtgc acacagccca gcttggagcg aacgacctac accgaactga
7320gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga
aaggcggaca 7380ggtatccggt aagcggcagg gtcggaacag gagagcgcac
gagggagctt ccagggggaa 7440acgcctggta tctttatagt cctgtcgggt
ttcgccacct ctgacttgag cgtcgatttt 7500tgtgatgctc
gtcagggggg cggagcctat ggaaaaacgc cagcaacgcg gcctttttac
7560ggttcctggc cttttgctgg ccttttgctc acatgttctt tcctgcgtta
tcccctgatt 7620ctgtggataa ccgtattacc gcctttgagt gagctgatac
cgctcgccgc agccgaacga 7680ccgagcgcag cgagtcagtg agcgaggaag
cggaagagcg cctgatgcgg tattttctcc 7740ttacgcatct gtgcggtatt
tcacaccgca tatggtgcac tctcagtaca atctgctctg 7800atgccgcata
gttaagccag tatacactcc gctatcgcta cgtgactggg tcatggctgc
7860gccccgacac ccgccaacac ccgctgacgc gccctgacgg gc
7902186783DNAArtificial SequenceSynthetic Construct 18ctggcgtaat
agcgaagagg cccgcaccga tcgcccttcc caacagttgc gcagcctgaa 60tggcgaatgg
cgcctgatgc ggtattttct ccttacgcat ctgtgcggta tttcacaccg
120catatggtgc actctcagta caatctgctc tgatgccgca tagttaagcc
agccccgaca 180cccgccaaca cccgctgacg agcttagtaa agccctcgct
agattttaat gcggatgttg 240cgattacttc gccaactatt gcgataacaa
gaaaaagcca gcctttcatg atatatctcc 300caatttgtgt agggcttatt
atgcacgctt aaaaataata aaagcagact tgacctgata 360gtttggctgt
gagcaattat gtgcttagtg catctaacgc ttgagttaag ccgcgccgcg
420aagcggcgtc ggcttgaacg aattgttaga cattatttgc cgactacctt
ggtgatctcg 480cctttcacgt agtggacaaa ttcttccaac tgatctgcgc
gcgaggccaa gcgatcttct 540tcttgtccaa gataagcctg tctagcttca
agtatgacgg gctgatactg ggccggcagg 600cgctccattg cccagtcggc
agcgacatcc ttcggcgcga ttttgccggt tactgcgctg 660taccaaatgc
gggacaacgt aagcactaca tttcgctcat cgccagccca gtcgggcggc
720gagttccata gcgttaaggt ttcatttagc gcctcaaata gatcctgttc
aggaaccgga 780tcaaagagtt cctccgccgc tggacctacc aaggcaacgc
tatgttctct tgcttttgtc 840agcaagatag ccagatcaat gtcgatcgtg
gctggctcga agatacctgc aagaatgtca 900ttgcgctgcc attctccaaa
ttgcagttcg cgcttagctg gataacgcca cggaatgatg 960tcgtcgtgca
caacaatggt gacttctaca gcgcggagaa tctcgctctc tccaggggaa
1020gccgaagttt ccaaaaggtc gttgatcaaa gctcgccgcg ttgtttcatc
aagccttacg 1080gtcaccgtaa ccagcaaatc aatatcactg tgtggcttca
ggccgccatc cactgcggag 1140ccgtacaaat gtacggccag caacgtcggt
tcgagatggc gctcgatgac gccaactacc 1200tctgatagtt gagtcgatac
ttcggcgatc accgcttccc tcatgatgtt taactttgtt 1260ttagggcgac
tgccctgctg cgtaacatcg ttgctgctcc ataacatcaa acatcgaccc
1320acggcgtaac gcgcttgctg cttggatgcc cgaggcatag actgtacccc
aaaaaaacag 1380tcataacaag ccatgaaaac cgccactgcg ccgttaccac
cgctgcgttc ggtcaaggtt 1440ctggaccagt tgcgtgagcg catacgctac
ttgcattaca gcttacgaac cgaacaggct 1500tatgtccact gggttcgtgc
cttcatccgt ttccacggtg tgcgtcaccc ggcaaccttg 1560ggcagcagcg
aagtcgaggc atttctgtcc tggctggcga acgagcgcaa ggtttcggtc
1620tccacgcatc gtcaggcatt ggcggccttg ctgttcttct acggcaaggt
gctgtgcacg 1680gatctgccct ggcttcagga gatcggaaga cctcggccgt
cgcggcgctt gccggtggtg 1740ctgaccccgg atgaagtggt tcgcatcctc
ggttttctgg aaggcgagca tcgtttgttc 1800gcccagcttc tgtatggaac
gggcatgcgg atcagtgagg gtttgcaact gcgggtcaag 1860gatctggatt
tcgatcacgg cacgatcatc gtgcgggagg gcaagggctc caaggatcgg
1920gccttgatgt tacccgagag cttggcaccc agcctgcgcg agcaggggaa
ttaattccca 1980cgggttttgc tgcccgcaaa cgggctgttc tggtgttgct
agtttgttat cagaatcgca 2040gatccggctt cagccggttt gccggctgaa
agcgctattt cttccagaat tgccatgatt 2100ttttccccac gggaggcgtc
actggctccc gtgttgtcgg cagctttgat tcgataagca 2160gcatcgcctg
tttcaggctg tctatgtgtg actgttgagc tgtaacaagt tgtctcaggt
2220gttcaatttc atgttctagt tgctttgttt tactggtttc acctgttcta
ttaggtgtta 2280catgctgttc atctgttaca ttgtcgatct gttcatggtg
aacagctttg aatgcaccaa 2340aaactcgtaa aagctctgat gtatctatct
tttttacacc gttttcatct gtgcatatgg 2400acagttttcc ctttgatatg
taacggtgaa cagttgttct acttttgttt gttagtcttg 2460atgcttcact
gatagataca agagccataa gaacctcaga tccttccgta tttagccagt
2520atgttctcta gtgtggttcg ttgtttttgc gtgagccatg agaacgaacc
attgagatca 2580tacttacttt gcatgtcact caaaaatttt gcctcaaaac
tggtgagctg aatttttgca 2640gttaaagcat cgtgtagtgt ttttcttagt
ccgttatgta ggtaggaatc tgatgtaatg 2700gttgttggta ttttgtcacc
attcattttt atctggttgt tctcaagttc ggttacgaga 2760tccatttgtc
tatctagttc aacttggaaa atcaacgtat cagtcgggcg gcctcgctta
2820tcaaccacca atttcatatt gctgtaagtg tttaaatctt tacttattgg
tttcaaaacc 2880cattggttaa gccttttaaa ctcatggtag ttattttcaa
gcattaacat gaacttaaat 2940tcatcaaggc taatctctat atttgccttg
tgagttttct tttgtgttag ttcttttaat 3000aaccactcat aaatcctcat
agagtatttg ttttcaaaag acttaacatg ttccagatta 3060tattttatga
atttttttaa ctggaaaaga taaggcaata tctcttcact aaaaactaat
3120tctaattttt cgcttgagaa cttggcatag tttgtccact ggaaaatctc
aaagccttta 3180accaaaggat tcctgatttc cacagttctc gtcatcagct
ctctggttgc tttagctaat 3240acaccataag cattttccct actgatgttc
atcatctgag cgtattggtt ataagtgaac 3300gataccgtcc gttctttcct
tgtagggttt tcaatcgtgg ggttgagtag tgccacacag 3360cataaaatta
gcttggtttc atgctccgtt aagtcatagc gactaatcgc tagttcattt
3420gctttgaaaa caactaattc agacatacat ctcaattggt ctaggtgatt
ttaatcacta 3480taccaattga gatgggctag tcaatgataa ttactagtcc
ttttcctttg agttgtgggt 3540atctgtaaat tctgctagac ctttgctgga
aaacttgtaa attctgctag accctctgta 3600aattccgcta gacctttgtg
tgtttttttt gtttatattc aagtggttat aatttataga 3660ataaagaaag
aataaaaaaa gataaaaaga atagatccca gccctgtgta taactcacta
3720ctttagtcag ttccgcagta ttacaaaagg atgtcgcaaa cgctgtttgc
tcctctacaa 3780aacagacctt aaaaccctaa aggcttaagt agcaccctcg
caagctcggg caaatcgctg 3840aatattcctt ttgtctccga ccatcaggca
cctgagtcgc tgtctttttc gtgacattca 3900gttcgctgcg ctcacggctc
tggcagtgaa tgggggtaaa tggcactaca ggcgcctttt 3960atggattcat
gcaaggaaac tacccataat acaagaaaag cccgtcacgg gcttctcagg
4020gcgttttatg gcgggtctgc tatgtggtgc tatctgactt tttgctgttc
agcagttcct 4080gccctctgat tttccagtct gaccacttcg gattatcccg
tgacaggtca ttcagactgg 4140ctaatgcacc cagtaaggca gcggtatcat
caacaggctt acccgtctta ctgtcgggaa 4200ttcgcgttgg ccgattcatt
aatgcagatt ctgaaatgag ctgttgacaa ttaatcatcc 4260ggctcgtata
atgtgtggaa ttgtgagcgg ataacaattt cacacaggaa acagcgccgc
4320tgagaaaaag cgaagcggca ctgctcttta acaatttatc agacaatctg
tgtgggcact 4380cgaccggaat tatcgattaa ctttattatt aaaaattaaa
gaggtatata ttaatgtatc 4440gattaaataa ggaggaataa accatgtgtg
cgacctcttc tcaatttact cagattaccg 4500agcataattc ccgtcgttcc
gcaaactatc agccaaacct gtggaatttc gaattcctgc 4560aatccctgga
gaacgacctg aaagtggaaa agctggagga gaaagcgacc aaactggagg
4620aagaagttcg ctgcatgatc aaccgtgtag acacccagcc gctgtccctg
ctggagctga 4680tcgacgatgt gcagcgcctg ggtctgacct acaaatttga
aaaagacatc attaaagccc 4740tggaaaacat cgtactgctg gacgaaaaca
aaaagaacaa atctgacctg cacgcaaccg 4800ctctgtcttt ccgtctgctg
cgtcagcacg gtttcgaggt ttctcaggat gtttttgagc 4860gtttcaagga
taaagaaggt ggtttcagcg gtgaactgaa aggtgacgtc caaggcctgc
4920tgagcctgta tgaagcgtct tacctgggtt tcgagggtga gaacctgctg
gaggaggcgc 4980gtaccttttc catcacccac ctgaagaaca acctgaaaga
aggcattaat accaaggttg 5040cagaacaagt gagccacgcc ctggaactgc
catatcacca gcgtctgcac cgtctggagg 5100cacgttggtt cctggataaa
tacgaaccga aagaaccgca tcaccagctg ctgctggagc 5160tggcgaagct
ggattttaac atggtacaga ccctgcacca gaaagagctg caagatctgt
5220cccgctggtg gaccgagatg ggcctggcta gcaaactgga ttttgtacgc
gaccgcctga 5280tggaagttta tttctgggca ctgggtatgg cgccagaccc
gcagtttggt gaatgtcgca 5340aagctgttac taaaatgttt ggtctggtga
cgatcatcga tgacgtgtat gacgtttatg 5400gcactctgga cgaactgcaa
ctgttcaccg atgctgtaga gcgctgggac gttaacgcta 5460ttaacaccct
gccggactat atgaaactgt gtttcctggc actgtacaac accgttaacg
5520acacgtccta ttctattctg aaagagaaag gtcataacaa cctgtcctat
ctgacgaaaa 5580gctggcgtga actgtgcaaa gcctttctgc aagaggcgaa
atggtccaac aacaaaatta 5640tcccggcttt ctccaagtac ctggaaaacg
ccagcgtttc ctcctccggt gtagcgctgc 5700tggcgccgtc ttacttttcc
gtatgccagc agcaggaaga catctccgac cacgcgctgc 5760gttccctgac
cgacttccat ggtctggtgc gttctagctg cgttatcttc cgcctgtgca
5820acgatctggc cacctctgcg gcggagctgg aacgtggcga gactaccaat
tctatcatta 5880gctacatgca cgaaaacgat ggtaccagcg aggaacaggc
ccgcgaagaa ctgcgtaaac 5940tgatcgacgc cgaatggaaa aagatgaatc
gtgaacgcgt tagcgactcc accctgctgc 6000ctaaagcgtt catggaaatc
gcagttaaca tggcacgtgt ttcccactgc acctaccagt 6060atggcgatgg
tctgggtcgc ccagactacg cgactgaaaa ccgcatcaaa ctgctgctga
6120ttgacccttt cccgattaac cagctgatgt atgtctaact gcagctggta
ccatatggga 6180attcgaagct ttctagaaca aaaactcatc tcagaagagg
atctgaatag cgccgtcgac 6240catcatcatc atcatcattg agtttaaacg
gtctccagct tggctgtttt ggcggatgag 6300agaagatttt cagcctgata
cagattaaat cagaacgcag aagcggtctg ataaaacaga 6360atttgcctgg
cggcagtagc gcggtggtcc cacctgaccc catgccgaac tcagaagtga
6420aacgccgtag cgccgatggt agtgtggggt ctccccatgc gagagtaggg
aactgccagg 6480catcaaataa aacgaaaggc tcagtcgaaa gactgggcct
ttcgttttat ctgttgtttg 6540tcggtgaacg ctctcctgag taggacaaat
ccgccgggag cggatttgaa cgttgcgaag 6600caacggcccg gagggtggcg
ggcaggacgc ccgccataaa ctgccaggca tcaaattaag 6660cagaaggcca
tcctgacgga tggccttttt gcgtttctac aaactctttt tgtttatttt
6720tctaaataca ttcaaatatg tatccgctca tgagacaata accctgataa
atgcttcaat 6780aat 6783196783DNAArtificial SequenceSynthetic
Construct 19cccgtcttac tgtcgggaat tcgcgttggc cgattcatta atgcagatta
ttgaagcatt 60tatcagggtt attgtctcat gagcggatac atatttgaat gtatttagaa
aaataaacaa 120aaagagtttg tagaaacgca aaaaggccat ccgtcaggat
ggccttctgc ttaatttgat 180gcctggcagt ttatggcggg cgtcctgccc
gccaccctcc gggccgttgc ttcgcaacgt 240tcaaatccgc tcccggcgga
tttgtcctac tcaggagagc gttcaccgac aaacaacaga 300taaaacgaaa
ggcccagtct ttcgactgag cctttcgttt tatttgatgc ctggcagttc
360cctactctcg catggggaga ccccacacta ccatcggcgc tacggcgttt
cacttctgag 420ttcggcatgg ggtcaggtgg gaccaccgcg ctactgccgc
caggcaaatt ctgttttatc 480agaccgcttc tgcgttctga tttaatctgt
atcaggctga aaatcttctc tcatccgcca 540aaacagccaa gctggagacc
gtttaaactc aatgatgatg atgatgatgg tcgacggcgc 600tattcagatc
ctcttctgag atgagttttt gttctagaaa gcttcgaatt cccatatggt
660accagctgca gttagacata catcagctgg ttaatcggga aagggtcaat
cagcagcagt 720ttgatgcggt tttcagtcgc gtagtctggg cgacccagac
catcgccata ctggtaggtg 780cagtgggaaa cacgtgccat gttaactgcg
atttccatga acgctttagg cagcagggtg 840gagtcgctaa cgcgttcacg
attcatcttt ttccattcgg cgtcgatcag tttacgcagt 900tcttcgcggg
cctgttcctc gctggtacca tcgttttcgt gcatgtagct aatgatagaa
960ttggtagtct cgccacgttc cagctccgcc gcagaggtgg ccagatcgtt
gcacaggcgg 1020aagataacgc agctagaacg caccagacca tggaagtcgg
tcagggaacg cagcgcgtgg 1080tcggagatgt cttcctgctg ctggcatacg
gaaaagtaag acggcgccag cagcgctaca 1140ccggaggagg aaacgctggc
gttttccagg tacttggaga aagccgggat aattttgttg 1200ttggaccatt
tcgcctcttg cagaaaggct ttgcacagtt cacgccagct tttcgtcaga
1260taggacaggt tgttatgacc tttctctttc agaatagaat aggacgtgtc
gttaacggtg 1320ttgtacagtg ccaggaaaca cagtttcata tagtccggca
gggtgttaat agcgttaacg 1380tcccagcgct ctacagcatc ggtgaacagt
tgcagttcgt ccagagtgcc ataaacgtca 1440tacacgtcat cgatgatcgt
caccagacca aacattttag taacagcttt gcgacattca 1500ccaaactgcg
ggtctggcgc catacccagt gcccagaaat aaacttccat caggcggtcg
1560cgtacaaaat ccagtttgct agccaggccc atctcggtcc accagcggga
cagatcttgc 1620agctctttct ggtgcagggt ctgtaccatg ttaaaatcca
gcttcgccag ctccagcagc 1680agctggtgat gcggttcttt cggttcgtat
ttatccagga accaacgtgc ctccagacgg 1740tgcagacgct ggtgatatgg
cagttccagg gcgtggctca cttgttctgc aaccttggta 1800ttaatgcctt
ctttcaggtt gttcttcagg tgggtgatgg aaaaggtacg cgcctcctcc
1860agcaggttct caccctcgaa acccaggtaa gacgcttcat acaggctcag
caggccttgg 1920acgtcacctt tcagttcacc gctgaaacca ccttctttat
ccttgaaacg ctcaaaaaca 1980tcctgagaaa cctcgaaacc gtgctgacgc
agcagacgga aagacagagc ggttgcgtgc 2040aggtcagatt tgttcttttt
gttttcgtcc agcagtacga tgttttccag ggctttaatg 2100atgtcttttt
caaatttgta ggtcagaccc aggcgctgca catcgtcgat cagctccagc
2160agggacagcg gctgggtgtc tacacggttg atcatgcagc gaacttcttc
ctccagtttg 2220gtcgctttct cctccagctt ttccactttc aggtcgttct
ccagggattg caggaattcg 2280aaattccaca ggtttggctg atagtttgcg
gaacgacggg aattatgctc ggtaatctga 2340gtaaattgag aagaggtcgc
acacatggtt tattcctcct tatttaatcg atacattaat 2400atatacctct
ttaattttta ataataaagt taatcgataa ttccggtcga gtgcccacac
2460agattgtctg ataaattgtt aaagagcagt gccgcttcgc tttttctcag
cggcgctgtt 2520tcctgtgtga aattgttatc cgctcacaat tccacacatt
atacgagccg gatgattaat 2580tgtcaacagc tcatttcaga atctggcgta
atagcgaaga ggcccgcacc gatcgccctt 2640cccaacagtt gcgcagcctg
aatggcgaat ggcgcctgat gcggtatttt ctccttacgc 2700atctgtgcgg
tatttcacac cgcatatggt gcactctcag tacaatctgc tctgatgccg
2760catagttaag ccagccccga cacccgccaa cacccgctga cgagcttagt
aaagccctcg 2820ctagatttta atgcggatgt tgcgattact tcgccaacta
ttgcgataac aagaaaaagc 2880cagcctttca tgatatatct cccaatttgt
gtagggctta ttatgcacgc ttaaaaataa 2940taaaagcaga cttgacctga
tagtttggct gtgagcaatt atgtgcttag tgcatctaac 3000gcttgagtta
agccgcgccg cgaagcggcg tcggcttgaa cgaattgtta gacattattt
3060gccgactacc ttggtgatct cgcctttcac gtagtggaca aattcttcca
actgatctgc 3120gcgcgaggcc aagcgatctt cttcttgtcc aagataagcc
tgtctagctt caagtatgac 3180gggctgatac tgggccggca ggcgctccat
tgcccagtcg gcagcgacat ccttcggcgc 3240gattttgccg gttactgcgc
tgtaccaaat gcgggacaac gtaagcacta catttcgctc 3300atcgccagcc
cagtcgggcg gcgagttcca tagcgttaag gtttcattta gcgcctcaaa
3360tagatcctgt tcaggaaccg gatcaaagag ttcctccgcc gctggaccta
ccaaggcaac 3420gctatgttct cttgcttttg tcagcaagat agccagatca
atgtcgatcg tggctggctc 3480gaagatacct gcaagaatgt cattgcgctg
ccattctcca aattgcagtt cgcgcttagc 3540tggataacgc cacggaatga
tgtcgtcgtg cacaacaatg gtgacttcta cagcgcggag 3600aatctcgctc
tctccagggg aagccgaagt ttccaaaagg tcgttgatca aagctcgccg
3660cgttgtttca tcaagcctta cggtcaccgt aaccagcaaa tcaatatcac
tgtgtggctt 3720caggccgcca tccactgcgg agccgtacaa atgtacggcc
agcaacgtcg gttcgagatg 3780gcgctcgatg acgccaacta cctctgatag
ttgagtcgat acttcggcga tcaccgcttc 3840cctcatgatg tttaactttg
ttttagggcg actgccctgc tgcgtaacat cgttgctgct 3900ccataacatc
aaacatcgac ccacggcgta acgcgcttgc tgcttggatg cccgaggcat
3960agactgtacc ccaaaaaaac agtcataaca agccatgaaa accgccactg
cgccgttacc 4020accgctgcgt tcggtcaagg ttctggacca gttgcgtgag
cgcatacgct acttgcatta 4080cagcttacga accgaacagg cttatgtcca
ctgggttcgt gccttcatcc gtttccacgg 4140tgtgcgtcac ccggcaacct
tgggcagcag cgaagtcgag gcatttctgt cctggctggc 4200gaacgagcgc
aaggtttcgg tctccacgca tcgtcaggca ttggcggcct tgctgttctt
4260ctacggcaag gtgctgtgca cggatctgcc ctggcttcag gagatcggaa
gacctcggcc 4320gtcgcggcgc ttgccggtgg tgctgacccc ggatgaagtg
gttcgcatcc tcggttttct 4380ggaaggcgag catcgtttgt tcgcccagct
tctgtatgga acgggcatgc ggatcagtga 4440gggtttgcaa ctgcgggtca
aggatctgga tttcgatcac ggcacgatca tcgtgcggga 4500gggcaagggc
tccaaggatc gggccttgat gttacccgag agcttggcac ccagcctgcg
4560cgagcagggg aattaattcc cacgggtttt gctgcccgca aacgggctgt
tctggtgttg 4620ctagtttgtt atcagaatcg cagatccggc ttcagccggt
ttgccggctg aaagcgctat 4680ttcttccaga attgccatga ttttttcccc
acgggaggcg tcactggctc ccgtgttgtc 4740ggcagctttg attcgataag
cagcatcgcc tgtttcaggc tgtctatgtg tgactgttga 4800gctgtaacaa
gttgtctcag gtgttcaatt tcatgttcta gttgctttgt tttactggtt
4860tcacctgttc tattaggtgt tacatgctgt tcatctgtta cattgtcgat
ctgttcatgg 4920tgaacagctt tgaatgcacc aaaaactcgt aaaagctctg
atgtatctat cttttttaca 4980ccgttttcat ctgtgcatat ggacagtttt
ccctttgata tgtaacggtg aacagttgtt 5040ctacttttgt ttgttagtct
tgatgcttca ctgatagata caagagccat aagaacctca 5100gatccttccg
tatttagcca gtatgttctc tagtgtggtt cgttgttttt gcgtgagcca
5160tgagaacgaa ccattgagat catacttact ttgcatgtca ctcaaaaatt
ttgcctcaaa 5220actggtgagc tgaatttttg cagttaaagc atcgtgtagt
gtttttctta gtccgttatg 5280taggtaggaa tctgatgtaa tggttgttgg
tattttgtca ccattcattt ttatctggtt 5340gttctcaagt tcggttacga
gatccatttg tctatctagt tcaacttgga aaatcaacgt 5400atcagtcggg
cggcctcgct tatcaaccac caatttcata ttgctgtaag tgtttaaatc
5460tttacttatt ggtttcaaaa cccattggtt aagcctttta aactcatggt
agttattttc 5520aagcattaac atgaacttaa attcatcaag gctaatctct
atatttgcct tgtgagtttt 5580cttttgtgtt agttctttta ataaccactc
ataaatcctc atagagtatt tgttttcaaa 5640agacttaaca tgttccagat
tatattttat gaattttttt aactggaaaa gataaggcaa 5700tatctcttca
ctaaaaacta attctaattt ttcgcttgag aacttggcat agtttgtcca
5760ctggaaaatc tcaaagcctt taaccaaagg attcctgatt tccacagttc
tcgtcatcag 5820ctctctggtt gctttagcta atacaccata agcattttcc
ctactgatgt tcatcatctg 5880agcgtattgg ttataagtga acgataccgt
ccgttctttc cttgtagggt tttcaatcgt 5940ggggttgagt agtgccacac
agcataaaat tagcttggtt tcatgctccg ttaagtcata 6000gcgactaatc
gctagttcat ttgctttgaa aacaactaat tcagacatac atctcaattg
6060gtctaggtga ttttaatcac tataccaatt gagatgggct agtcaatgat
aattactagt 6120ccttttcctt tgagttgtgg gtatctgtaa attctgctag
acctttgctg gaaaacttgt 6180aaattctgct agaccctctg taaattccgc
tagacctttg tgtgtttttt ttgtttatat 6240tcaagtggtt ataatttata
gaataaagaa agaataaaaa aagataaaaa gaatagatcc 6300cagccctgtg
tataactcac tactttagtc agttccgcag tattacaaaa ggatgtcgca
6360aacgctgttt gctcctctac aaaacagacc ttaaaaccct aaaggcttaa
gtagcaccct 6420cgcaagctcg ggcaaatcgc tgaatattcc ttttgtctcc
gaccatcagg cacctgagtc 6480gctgtctttt tcgtgacatt cagttcgctg
cgctcacggc tctggcagtg aatgggggta 6540aatggcacta caggcgcctt
ttatggattc atgcaaggaa actacccata atacaagaaa 6600agcccgtcac
gggcttctca gggcgtttta tggcgggtct gctatgtggt gctatctgac
6660tttttgctgt tcagcagttc ctgccctctg attttccagt ctgaccactt
cggattatcc 6720cgtgacaggt cattcagact ggctaatgca cccagtaagg
cagcggtatc atcaacaggc 6780tta 6783207687DNAArtificial
SequenceSynthetic Construct 20ctggcgtaat agcgaagagg cccgcaccga
tcgcccttcc caacagttgc gcagcctgaa 60tggcgaatgg cgcctgatgc ggtattttct
ccttacgcat ctgtgcggta tttcacaccg 120catatggtgc actctcagta
caatctgctc tgatgccgca tagttaagcc agccccgaca 180cccgccaaca
cccgctgacg agcttagtaa agccctcgct agattttaat gcggatgttg
240cgattacttc gccaactatt gcgataacaa gaaaaagcca gcctttcatg
atatatctcc 300caatttgtgt agggcttatt atgcacgctt aaaaataata
aaagcagact tgacctgata 360gtttggctgt gagcaattat gtgcttagtg
catctaacgc ttgagttaag ccgcgccgcg 420aagcggcgtc ggcttgaacg
aattgttaga cattatttgc cgactacctt ggtgatctcg 480cctttcacgt
agtggacaaa ttcttccaac tgatctgcgc gcgaggccaa gcgatcttct
540tcttgtccaa gataagcctg tctagcttca agtatgacgg gctgatactg
ggccggcagg 600cgctccattg cccagtcggc agcgacatcc ttcggcgcga
ttttgccggt tactgcgctg 660taccaaatgc gggacaacgt aagcactaca
tttcgctcat cgccagccca gtcgggcggc 720gagttccata gcgttaaggt
ttcatttagc gcctcaaata gatcctgttc aggaaccgga 780tcaaagagtt
cctccgccgc tggacctacc aaggcaacgc tatgttctct tgcttttgtc
840agcaagatag ccagatcaat gtcgatcgtg gctggctcga agatacctgc
aagaatgtca 900ttgcgctgcc attctccaaa ttgcagttcg cgcttagctg
gataacgcca cggaatgatg 960tcgtcgtgca caacaatggt gacttctaca
gcgcggagaa tctcgctctc tccaggggaa 1020gccgaagttt ccaaaaggtc
gttgatcaaa gctcgccgcg ttgtttcatc aagccttacg 1080gtcaccgtaa
ccagcaaatc aatatcactg tgtggcttca ggccgccatc cactgcggag
1140ccgtacaaat gtacggccag caacgtcggt tcgagatggc gctcgatgac
gccaactacc 1200tctgatagtt gagtcgatac ttcggcgatc accgcttccc
tcatgatgtt taactttgtt 1260ttagggcgac tgccctgctg cgtaacatcg
ttgctgctcc ataacatcaa acatcgaccc 1320acggcgtaac gcgcttgctg
cttggatgcc cgaggcatag actgtacccc aaaaaaacag 1380tcataacaag
ccatgaaaac cgccactgcg ccgttaccac cgctgcgttc ggtcaaggtt
1440ctggaccagt tgcgtgagcg catacgctac ttgcattaca gcttacgaac
cgaacaggct 1500tatgtccact gggttcgtgc cttcatccgt ttccacggtg
tgcgtcaccc ggcaaccttg 1560ggcagcagcg aagtcgaggc atttctgtcc
tggctggcga acgagcgcaa ggtttcggtc 1620tccacgcatc gtcaggcatt
ggcggccttg ctgttcttct acggcaaggt gctgtgcacg 1680gatctgccct
ggcttcagga gatcggaaga cctcggccgt cgcggcgctt gccggtggtg
1740ctgaccccgg atgaagtggt tcgcatcctc ggttttctgg aaggcgagca
tcgtttgttc 1800gcccagcttc tgtatggaac gggcatgcgg atcagtgagg
gtttgcaact gcgggtcaag 1860gatctggatt tcgatcacgg cacgatcatc
gtgcgggagg gcaagggctc caaggatcgg 1920gccttgatgt tacccgagag
cttggcaccc agcctgcgcg agcaggggaa ttaattccca 1980cgggttttgc
tgcccgcaaa cgggctgttc tggtgttgct agtttgttat cagaatcgca
2040gatccggctt cagccggttt gccggctgaa agcgctattt cttccagaat
tgccatgatt 2100ttttccccac gggaggcgtc actggctccc gtgttgtcgg
cagctttgat tcgataagca 2160gcatcgcctg tttcaggctg tctatgtgtg
actgttgagc tgtaacaagt tgtctcaggt 2220gttcaatttc atgttctagt
tgctttgttt tactggtttc acctgttcta ttaggtgtta 2280catgctgttc
atctgttaca ttgtcgatct gttcatggtg aacagctttg aatgcaccaa
2340aaactcgtaa aagctctgat gtatctatct tttttacacc gttttcatct
gtgcatatgg 2400acagttttcc ctttgatatg taacggtgaa cagttgttct
acttttgttt gttagtcttg 2460atgcttcact gatagataca agagccataa
gaacctcaga tccttccgta tttagccagt 2520atgttctcta gtgtggttcg
ttgtttttgc gtgagccatg agaacgaacc attgagatca 2580tacttacttt
gcatgtcact caaaaatttt gcctcaaaac tggtgagctg aatttttgca
2640gttaaagcat cgtgtagtgt ttttcttagt ccgttatgta ggtaggaatc
tgatgtaatg 2700gttgttggta ttttgtcacc attcattttt atctggttgt
tctcaagttc ggttacgaga 2760tccatttgtc tatctagttc aacttggaaa
atcaacgtat cagtcgggcg gcctcgctta 2820tcaaccacca atttcatatt
gctgtaagtg tttaaatctt tacttattgg tttcaaaacc 2880cattggttaa
gccttttaaa ctcatggtag ttattttcaa gcattaacat gaacttaaat
2940tcatcaaggc taatctctat atttgccttg tgagttttct tttgtgttag
ttcttttaat 3000aaccactcat aaatcctcat agagtatttg ttttcaaaag
acttaacatg ttccagatta 3060tattttatga atttttttaa ctggaaaaga
taaggcaata tctcttcact aaaaactaat 3120tctaattttt cgcttgagaa
cttggcatag tttgtccact ggaaaatctc aaagccttta 3180accaaaggat
tcctgatttc cacagttctc gtcatcagct ctctggttgc tttagctaat
3240acaccataag cattttccct actgatgttc atcatctgag cgtattggtt
ataagtgaac 3300gataccgtcc gttctttcct tgtagggttt tcaatcgtgg
ggttgagtag tgccacacag 3360cataaaatta gcttggtttc atgctccgtt
aagtcatagc gactaatcgc tagttcattt 3420gctttgaaaa caactaattc
agacatacat ctcaattggt ctaggtgatt ttaatcacta 3480taccaattga
gatgggctag tcaatgataa ttactagtcc ttttcctttg agttgtgggt
3540atctgtaaat tctgctagac ctttgctgga aaacttgtaa attctgctag
accctctgta 3600aattccgcta gacctttgtg tgtttttttt gtttatattc
aagtggttat aatttataga 3660ataaagaaag aataaaaaaa gataaaaaga
atagatccca gccctgtgta taactcacta 3720ctttagtcag ttccgcagta
ttacaaaagg atgtcgcaaa cgctgtttgc tcctctacaa 3780aacagacctt
aaaaccctaa aggcttaagt agcaccctcg caagctcggg caaatcgctg
3840aatattcctt ttgtctccga ccatcaggca cctgagtcgc tgtctttttc
gtgacattca 3900gttcgctgcg ctcacggctc tggcagtgaa tgggggtaaa
tggcactaca ggcgcctttt 3960atggattcat gcaaggaaac tacccataat
acaagaaaag cccgtcacgg gcttctcagg 4020gcgttttatg gcgggtctgc
tatgtggtgc tatctgactt tttgctgttc agcagttcct 4080gccctctgat
tttccagtct gaccacttcg gattatcccg tgacaggtca ttcagactgg
4140ctaatgcacc cagtaaggca gcggtatcat caacaggctt acccgtctta
ctgtcgggaa 4200ttcgcgttgg ccgattcatt aatgcagatt ctgaaatgag
ctgttgacaa ttaatcatcc 4260ggctcgtata atgtgtggaa ttgtgagcgg
ataacaattt cacacaggaa acagcgccgc 4320tgagaaaaag cgaagcggca
ctgctcttta acaatttatc agacaatctg tgtgggcact 4380cgaccggaat
tatcgattaa ctttattatt aaaaattaaa gaggtatata ttaatgtatc
4440gattaaataa ggaggaataa accatgtgtg cgacctcttc tcaatttact
cagattaccg 4500agcataattc ccgtcgttcc gcaaactatc agccaaacct
gtggaatttc gaattcctgc 4560aatccctgga gaacgacctg aaagtggaaa
agctggagga gaaagcgacc aaactggagg 4620aagaagttcg ctgcatgatc
aaccgtgtag acacccagcc gctgtccctg ctggagctga 4680tcgacgatgt
gcagcgcctg ggtctgacct acaaatttga aaaagacatc attaaagccc
4740tggaaaacat cgtactgctg gacgaaaaca aaaagaacaa atctgacctg
cacgcaaccg 4800ctctgtcttt ccgtctgctg cgtcagcacg gtttcgaggt
ttctcaggat gtttttgagc 4860gtttcaagga taaagaaggt ggtttcagcg
gtgaactgaa aggtgacgtc caaggcctgc 4920tgagcctgta tgaagcgtct
tacctgggtt tcgagggtga gaacctgctg gaggaggcgc 4980gtaccttttc
catcacccac ctgaagaaca acctgaaaga aggcattaat accaaggttg
5040cagaacaagt gagccacgcc ctggaactgc catatcacca gcgtctgcac
cgtctggagg 5100cacgttggtt cctggataaa tacgaaccga aagaaccgca
tcaccagctg ctgctggagc 5160tggcgaagct ggattttaac atggtacaga
ccctgcacca gaaagagctg caagatctgt 5220cccgctggtg gaccgagatg
ggcctggcta gcaaactgga ttttgtacgc gaccgcctga 5280tggaagttta
tttctgggca ctgggtatgg cgccagaccc gcagtttggt gaatgtcgca
5340aagctgttac taaaatgttt ggtctggtga cgatcatcga tgacgtgtat
gacgtttatg 5400gcactctgga cgaactgcaa ctgttcaccg atgctgtaga
gcgctgggac gttaacgcta 5460ttaacaccct gccggactat atgaaactgt
gtttcctggc actgtacaac accgttaacg 5520acacgtccta ttctattctg
aaagagaaag gtcataacaa cctgtcctat ctgacgaaaa 5580gctggcgtga
actgtgcaaa gcctttctgc aagaggcgaa atggtccaac aacaaaatta
5640tcccggcttt ctccaagtac ctggaaaacg ccagcgtttc ctcctccggt
gtagcgctgc 5700tggcgccgtc ttacttttcc gtatgccagc agcaggaaga
catctccgac cacgcgctgc 5760gttccctgac cgacttccat ggtctggtgc
gttctagctg cgttatcttc cgcctgtgca 5820acgatctggc cacctctgcg
gcggagctgg aacgtggcga gactaccaat tctatcatta 5880gctacatgca
cgaaaacgat ggtaccagcg aggaacaggc ccgcgaagaa ctgcgtaaac
5940tgatcgacgc cgaatggaaa aagatgaatc gtgaacgcgt tagcgactcc
accctgctgc 6000ctaaagcgtt catggaaatc gcagttaaca tggcacgtgt
ttcccactgc acctaccagt 6060atggcgatgg tctgggtcgc ccagactacg
cgactgaaaa ccgcatcaaa ctgctgctga 6120ttgacccttt cccgattaac
cagctgatgt atgtctaact gcatcgccct taggaggtaa 6180aaaaaaatga
ctgccgacaa caatagtatg ccccatggtg cagtatctag ttacgccaaa
6240ttagtgcaaa accaaacacc tgaagacatt ttggaagagt ttcctgaaat
tattccatta 6300caacaaagac ctaatacccg atctagtgag acgtcaaatg
acgaaagcgg agaaacatgt 6360ttttctggtc atgatgagga gcaaattaag
ttaatgaatg aaaattgtat tgttttggat 6420tgggacgata atgctattgg
tgccggtacc aagaaagttt gtcatttaat ggaaaatatt 6480gaaaagggtt
tactacatcg tgcattctcc gtctttattt tcaatgaaca aggtgaatta
6540cttttacaac aaagagccac tgaaaaaata actttccctg atctttggac
taacacatgc 6600tgctctcatc cactatgtat tgatgacgaa ttaggtttga
agggtaagct agacgataag 6660attaagggcg ctattactgc ggcggtgaga
aaactagatc atgaattagg tattccagaa 6720gatgaaacta agacaagggg
taagtttcac tttttaaaca gaatccatta catggcacca 6780agcaatgaac
catggggtga acatgaaatt gattacatcc tattttataa gatcaacgct
6840aaagaaaact tgactgtcaa cccaaacgtc aatgaagtta gagacttcaa
atgggtttca 6900ccaaatgatt tgaaaactat gtttgctgac ccaagttaca
agtttacgcc ttggtttaag 6960attatttgcg agaattactt attcaactgg
tgggagcaat tagatgacct ttctgaagtg 7020gaaaatgaca ggcaaattca
tagaatgcta taacgacgcg tcctgcagct ggtaccatat 7080gggaattcga
agctttctag aacgaaaact catctcagaa gaggatctga atagcgccgt
7140cgaccatcat catcatcatc attgagttta aacggtctcc agcttggctg
ttttggcgga 7200tgagagaaga ttttcagcct gatacagatt aaatcagaac
gcagaagcgg tctgataaaa 7260cagaatttgc ctggcggcag tagcgcggtg
gtcccacctg accccatgcc gaactcagaa 7320gtgaaacgcc gtagcgccga
tggtagtgtg gggtctcccc atgcgagagt agggaactgc 7380caggcatcaa
ataaaacgaa aggctcagtc gaaagactgg gcctttcgtt ttatctgttg
7440tttgtcggtg aacgctctcc tgagtaggac aaatccgccg ggagcggatt
tgaacgttgc 7500gaagcaacgg cccggagggt ggcgggcagg acgcccgcca
taaactgcca ggcatcaaat 7560taagcagaag gccatcctga cggatggcct
ttttgcgttt ctacaaactc tttttgttta 7620tttttctaaa tacattcaaa
tatgtatccg ctcatgagac aataaccctg ataaatgctt 7680caataat
7687218675DNAArtificial SequenceSynthetic Construct 21cccgtcttac
tgtcgggaat tcgcgttggc cgattcatta atgcagatta ttgaagcatt 60tatcagggtt
attgtctcat gagcggatac atatttgaat gtatttagaa aaataaacaa
120aaagagtttg tagaaacgca aaaaggccat ccgtcaggat ggccttctgc
ttaatttgat 180gcctggcagt ttatggcggg cgtcctgccc gccaccctcc
gggccgttgc ttcgcaacgt 240tcaaatccgc tcccggcgga tttgtcctac
tcaggagagc gttcaccgac aaacaacaga 300taaaacgaaa ggcccagtct
ttcgactgag cctttcgttt tatttgatgc ctggcagttc 360cctactctcg
catggggaga ccccacacta ccatcggcgc tacggcgttt cacttctgag
420ttcggcatgg ggtcaggtgg gaccaccgcg ctactgccgc caggcaaatt
ctgttttatc 480agaccgcttc tgcgttctga tttaatctgt atcaggctga
aaatcttctc tcatccgcca 540aaacagccaa gctggagacc gtttaaactc
aatgatgatg atgatgatgg tcgacggcgc 600tattcagatc ctcttctgag
atgagttttt gttctagaaa gcttcgaatt cccatatggt 660accagctgca
gttatgccag ccaggccttg attttggctt ccataccagc ggcatcgagg
720ccgagttcgg cgcgcatttc ttcctgagtt ccttgcggaa taaagaagtc
cggcaggcca 780atgttcagca cgggtactgg tttacgatgg gccatcagca
cttcgttcac gccgctgcct 840gcgccgccca taatggcgtt ttcttctacg
gtgaccagcg cttcatggct ggcggccatt 900tccagaatta acgcttcatc
aagcggtttc acaaaacgca tatcgaccag cgtggcgttc 960agcgattcgg
cgactttcgc cgcttctggc atcagcgtac caaagttaag gatcgccagt
1020ttctcgccac gacgcttcac aatgcctttg ccaattggta gtttttccag
cggcgtcagt 1080tccacgccga ccgcgttgcc acgcgggtag cgcaccgctg
acgggccatc gttatagtga 1140tagccggtat agagcatctg gcgacattcg
ttttcatcgc tcggggtcat aatgaccatt 1200tccggtatgc agcgcaggta
agagagatca aaagcaccct gatgggtttg accgtcagca 1260ccaacaatgc
ccgcgcggtc gatggcgaac aggaccggaa gcttttgaat cgccacgtca
1320tgcagcacct gatcataggc gcgttgcagg aaagtggagt aaatcgcgac
aatgggtttg 1380tacccaccaa tcgccagacc cgcagcaaag gtcaccgcgt
gttgctcggc aattgccacg 1440tcgaagtagc gatccgggaa tttacgtgaa
aactcgacca tgccggaacc ttcacgcatc 1500gccggagtaa tcgccatcag
cttgttgtct ttcgctgccg tttcgcacaa ccagtcgcca 1560aagatttttg
aatagctcgg caaaccgccg ctacttttcg gcaaacaacc gctggaggga
1620tcaaatttag gcacggcgtg gaaagtgatc gggtcttttt ctgccggttc
ataaccacga 1680ccttttttgg tcatgatatg caggaactgc gggcctttca
ggtcgcgcat gttctttagc 1740gtggtgataa gccccagcac atcgtgaccg
tccaccgggc cgatgtagtt aaagcccagc 1800tcttcaaaca acgtgccagg
cactaccatg cctttaatat gttcttcggt gcgtttgagc 1860agctctttaa
ttggcggcac gccagagaaa acttttttcc cgccttcgcg cagtgaagag
1920taaagcttac cggaaagcag ctgtgccaga tggttgttga gcgcgccgac
attttcggaa 1980atcgacattt cattgtcgtt gagaatcacc agcatatcag
gacggatatc gcccgcgtga 2040ttcatcgctt caaacgccat gcctgcggta
atcgcgccat cgccaatgac acagacggtg 2100cggcgatttt tgccttcttt
ttcggcagca accgcaatac caattccggc actgatggag 2160gttgatgaat
gcccgacgct taatacgtca tattcgcttt cgccgcgcca cgggaacggg
2220tgcagaccgc ctttctgacg gatggtgccg attttgtcgc ggcgtccggt
caaaatttta 2280tgcggataag cctgatgccc cacatcccaa atcaattggt
caaacggggt gttgtagaca 2340tagtgcagcg ccacggtcag ttcgaccgtg
cccagcccgg aggcgaagtg cccgctggaa 2400cggctcacgc tgtcgagtaa
atagcggcgc agttcgtcgc agagtttcgg taaactctct 2460ttcggcaaca
gtcgtaactc ctgggtggag tcgaccagtg ccagggtcgg gtatttggca
2520atatcaaaac tcatgttttt ttacctccta agggcgaatg cagttagaca
tacatcagct 2580ggttaatcgg gaaagggtca atcagcagca gtttgatgcg
gttttcagtc gcgtagtctg 2640ggcgacccag accatcgcca tactggtagg
tgcagtggga aacacgtgcc atgttaactg 2700cgatttccat gaacgcttta
ggcagcaggg tggagtcgct aacgcgttca cgattcatct 2760ttttccattc
ggcgtcgatc agtttacgca gttcttcgcg ggcctgttcc tcgctggtac
2820catcgttttc gtgcatgtag ctaatgatag aattggtagt ctcgccacgt
tccagctccg 2880ccgcagaggt ggccagatcg ttgcacaggc ggaagataac
gcagctagaa cgcaccagac 2940catggaagtc ggtcagggaa cgcagcgcgt
ggtcggagat gtcttcctgc tgctggcata 3000cggaaaagta agacggcgcc
agcagcgcta caccggagga ggaaacgctg gcgttttcca 3060ggtacttgga
gaaagccggg ataattttgt tgttggacca tttcgcctct tgcagaaagg
3120ctttgcacag ttcacgccag cttttcgtca gataggacag gttgttatga
cctttctctt 3180tcagaataga ataggacgtg tcgttaacgg tgttgtacag
tgccaggaaa cacagtttca 3240tatagtccgg cagggtgtta atagcgttaa
cgtcccagcg ctctacagca tcggtgaaca 3300gttgcagttc gtccagagtg
ccataaacgt catacacgtc atcgatgatc gtcaccagac 3360caaacatttt
agtaacagct ttgcgacatt caccaaactg cgggtctggc gccataccca
3420gtgcccagaa ataaacttcc atcaggcggt cgcgtacaaa atccagtttg
ctagccaggc 3480ccatctcggt ccaccagcgg gacagatctt gcagctcttt
ctggtgcagg gtctgtacca 3540tgttaaaatc cagcttcgcc agctccagca
gcagctggtg atgcggttct ttcggttcgt 3600atttatccag gaaccaacgt
gcctccagac ggtgcagacg ctggtgatat ggcagttcca 3660gggcgtggct
cacttgttct gcaaccttgg tattaatgcc ttctttcagg ttgttcttca
3720ggtgggtgat ggaaaaggta cgcgcctcct ccagcaggtt ctcaccctcg
aaacccaggt 3780aagacgcttc atacaggctc agcaggcctt ggacgtcacc
tttcagttca ccgctgaaac 3840caccttcttt atccttgaaa cgctcaaaaa
catcctgaga aacctcgaaa ccgtgctgac 3900gcagcagacg gaaagacaga
gcggttgcgt gcaggtcaga tttgttcttt ttgttttcgt 3960ccagcagtac
gatgttttcc agggctttaa tgatgtcttt ttcaaatttg taggtcagac
4020ccaggcgctg cacatcgtcg atcagctcca gcagggacag cggctgggtg
tctacacggt 4080tgatcatgca gcgaacttct tcctccagtt tggtcgcttt
ctcctccagc ttttccactt 4140tcaggtcgtt ctccagggat tgcaggaatt
cgaaattcca caggtttggc tgatagtttg 4200cggaacgacg ggaattatgc
tcggtaatct gagtaaattg agaagaggtc gcacacatgg 4260tttattcctc
cttatttaat cgatacatta atatatacct ctttaatttt taataataaa
4320gttaatcgat aattccggtc gagtgcccac acagattgtc tgataaattg
ttaaagagca 4380gtgccgcttc gctttttctc agcggcgctg tttcctgtgt
gaaattgtta tccgctcaca 4440attccacaca ttatacgagc cggatgatta
attgtcaaca gctcatttca gaatctggcg 4500taatagcgaa gaggcccgca
ccgatcgccc ttcccaacag ttgcgcagcc tgaatggcga 4560atggcgcctg
atgcggtatt ttctccttac gcatctgtgc ggtatttcac accgcatatg
4620gtgcactctc agtacaatct gctctgatgc cgcatagtta agccagcccc
gacacccgcc 4680aacacccgct gacgagctta gtaaagccct cgctagattt
taatgcggat gttgcgatta 4740cttcgccaac tattgcgata acaagaaaaa
gccagccttt catgatatat ctcccaattt 4800gtgtagggct tattatgcac
gcttaaaaat aataaaagca gacttgacct gatagtttgg 4860ctgtgagcaa
ttatgtgctt agtgcatcta acgcttgagt taagccgcgc cgcgaagcgg
4920cgtcggcttg aacgaattgt tagacattat ttgccgacta ccttggtgat
ctcgcctttc 4980acgtagtgga caaattcttc caactgatct gcgcgcgagg
ccaagcgatc ttcttcttgt 5040ccaagataag cctgtctagc ttcaagtatg
acgggctgat actgggccgg caggcgctcc 5100attgcccagt cggcagcgac
atccttcggc gcgattttgc cggttactgc gctgtaccaa 5160atgcgggaca
acgtaagcac tacatttcgc tcatcgccag cccagtcggg cggcgagttc
5220catagcgtta aggtttcatt tagcgcctca aatagatcct gttcaggaac
cggatcaaag 5280agttcctccg ccgctggacc taccaaggca acgctatgtt
ctcttgcttt tgtcagcaag 5340atagccagat caatgtcgat cgtggctggc
tcgaagatac ctgcaagaat gtcattgcgc 5400tgccattctc caaattgcag
ttcgcgctta gctggataac gccacggaat gatgtcgtcg 5460tgcacaacaa
tggtgacttc tacagcgcgg agaatctcgc tctctccagg ggaagccgaa
5520gtttccaaaa ggtcgttgat caaagctcgc cgcgttgttt catcaagcct
tacggtcacc 5580gtaaccagca aatcaatatc actgtgtggc ttcaggccgc
catccactgc ggagccgtac 5640aaatgtacgg ccagcaacgt cggttcgaga
tggcgctcga tgacgccaac tacctctgat 5700agttgagtcg atacttcggc
gatcaccgct tccctcatga tgtttaactt tgttttaggg 5760cgactgccct
gctgcgtaac atcgttgctg ctccataaca tcaaacatcg acccacggcg
5820taacgcgctt gctgcttgga tgcccgaggc atagactgta ccccaaaaaa
acagtcataa 5880caagccatga aaaccgccac tgcgccgtta ccaccgctgc
gttcggtcaa ggttctggac 5940cagttgcgtg agcgcatacg ctacttgcat
tacagcttac gaaccgaaca ggcttatgtc 6000cactgggttc gtgccttcat
ccgtttccac ggtgtgcgtc acccggcaac cttgggcagc 6060agcgaagtcg
aggcatttct gtcctggctg gcgaacgagc gcaaggtttc ggtctccacg
6120catcgtcagg cattggcggc cttgctgttc ttctacggca aggtgctgtg
cacggatctg 6180ccctggcttc aggagatcgg aagacctcgg ccgtcgcggc
gcttgccggt ggtgctgacc 6240ccggatgaag tggttcgcat cctcggtttt
ctggaaggcg agcatcgttt gttcgcccag 6300cttctgtatg gaacgggcat
gcggatcagt gagggtttgc aactgcgggt caaggatctg 6360gatttcgatc
acggcacgat catcgtgcgg gagggcaagg gctccaagga tcgggccttg
6420atgttacccg agagcttggc acccagcctg cgcgagcagg ggaattaatt
cccacgggtt 6480ttgctgcccg caaacgggct gttctggtgt tgctagtttg
ttatcagaat cgcagatccg 6540gcttcagccg gtttgccggc tgaaagcgct
atttcttcca gaattgccat gattttttcc 6600ccacgggagg cgtcactggc
tcccgtgttg tcggcagctt tgattcgata agcagcatcg 6660cctgtttcag
gctgtctatg tgtgactgtt gagctgtaac aagttgtctc aggtgttcaa
6720tttcatgttc tagttgcttt gttttactgg tttcacctgt tctattaggt
gttacatgct 6780gttcatctgt tacattgtcg atctgttcat ggtgaacagc
tttgaatgca ccaaaaactc 6840gtaaaagctc tgatgtatct atctttttta
caccgttttc atctgtgcat atggacagtt 6900ttccctttga tatgtaacgg
tgaacagttg ttctactttt gtttgttagt cttgatgctt 6960cactgataga
tacaagagcc ataagaacct cagatccttc cgtatttagc cagtatgttc
7020tctagtgtgg ttcgttgttt ttgcgtgagc catgagaacg aaccattgag
atcatactta 7080ctttgcatgt cactcaaaaa ttttgcctca aaactggtga
gctgaatttt tgcagttaaa 7140gcatcgtgta gtgtttttct tagtccgtta
tgtaggtagg aatctgatgt aatggttgtt 7200ggtattttgt caccattcat
ttttatctgg ttgttctcaa gttcggttac gagatccatt 7260tgtctatcta
gttcaacttg gaaaatcaac gtatcagtcg ggcggcctcg cttatcaacc
7320accaatttca tattgctgta agtgtttaaa tctttactta ttggtttcaa
aacccattgg 7380ttaagccttt taaactcatg gtagttattt tcaagcatta
acatgaactt aaattcatca 7440aggctaatct ctatatttgc cttgtgagtt
ttcttttgtg ttagttcttt taataaccac 7500tcataaatcc tcatagagta
tttgttttca aaagacttaa catgttccag attatatttt 7560atgaattttt
ttaactggaa aagataaggc aatatctctt cactaaaaac taattctaat
7620ttttcgcttg agaacttggc atagtttgtc cactggaaaa tctcaaagcc
tttaaccaaa 7680ggattcctga tttccacagt tctcgtcatc agctctctgg
ttgctttagc taatacacca 7740taagcatttt ccctactgat gttcatcatc
tgagcgtatt ggttataagt gaacgatacc 7800gtccgttctt tccttgtagg
gttttcaatc gtggggttga gtagtgccac acagcataaa 7860attagcttgg
tttcatgctc cgttaagtca tagcgactaa tcgctagttc atttgctttg
7920aaaacaacta attcagacat acatctcaat tggtctaggt gattttaatc
actataccaa 7980ttgagatggg ctagtcaatg ataattacta gtccttttcc
tttgagttgt gggtatctgt 8040aaattctgct
agacctttgc tggaaaactt gtaaattctg ctagaccctc tgtaaattcc
8100gctagacctt tgtgtgtttt ttttgtttat attcaagtgg ttataattta
tagaataaag 8160aaagaataaa aaaagataaa aagaatagat cccagccctg
tgtataactc actactttag 8220tcagttccgc agtattacaa aaggatgtcg
caaacgctgt ttgctcctct acaaaacaga 8280ccttaaaacc ctaaaggctt
aagtagcacc ctcgcaagct cgggcaaatc gctgaatatt 8340ccttttgtct
ccgaccatca ggcacctgag tcgctgtctt tttcgtgaca ttcagttcgc
8400tgcgctcacg gctctggcag tgaatggggg taaatggcac tacaggcgcc
ttttatggat 8460tcatgcaagg aaactaccca taatacaaga aaagcccgtc
acgggcttct cagggcgttt 8520tatggcgggt ctgctatgtg gtgctatctg
actttttgct gttcagcagt tcctgccctc 8580tgattttcca gtctgaccac
ttcggattat cccgtgacag gtcattcaga ctggctaatg 8640cacccagtaa
ggcagcggta tcatcaacag gctta 8675228032DNAArtificial
SequenceSynthetic Construct 22tcgctgcgct cggtcgttcg gctgcggcga
gcggtatcag ctcactcaaa ggcggtaata 60cggttatcca cagaatcagg ggataacgca
ggaaagaaca tgtgagcaaa aggccagcaa 120aaggccagga accgtaaaaa
ggccgcgttg ctggcgtttt tccataggct ccgcccccct 180gacgagcatc
acaaaaatcg acgctcaagt cagaggtggc gaaacccgac aggactataa
240agataccagg cgtttccccc tggaagctcc ctcgtgcgct ctcctgttcc
gaccctgccg 300cttaccggat acctgtccgc ctttctccct tcgggaagcg
tggcgctttc tcatagctca 360cgctgtaggt atctcagttc ggtgtaggtc
gttcgctcca agctgggctg tgtgcacgaa 420ccccccgttc agcccgaccg
ctgcgcctta tccggtaact atcgtcttga gtccaacccg 480gtaagacacg
acttatcgcc actggcagca gccactggta acaggattag cagagcgagg
540tatgtaggcg gtgctacaga gttcttgaag tggtggccta actacggcta
cactagaaga 600acagtatttg gtatctgcgc tctgctgaag ccagttacct
tcggaaaaag agttggtagc 660tcttgatccg gcaaacaaac caccgctggt
agcggtggtt tttttgtttg caagcagcag 720attacgcgca gaaaaaaagg
atctcaagaa gatcctttga tcttttctac ggggtctgac 780gctcagtgga
acgaaaactc acgttaaggg attttggtca tgagattatc aaaaaggatc
840ttcacctaga tccttttaaa ttaaaaatga agttttaaat caatctaaag
tatatatgag 900taaacttggt ctgacagtta ccaatgctta atcagtgagg
cacctatctc agcgatctgt 960ctatttcgtt catccatagt tgcctgactc
cccgtcgtgt agataactac gatacgggag 1020ggcttaccat ctggccccag
tgctgcaatg ataccgcgag acccacgctc accggctcca 1080gatttatcag
caataaacca gccagccgga agggccgagc gcagaagtgg tcctgcaact
1140ttatccgcct ccatccagtc tattaattgt tgccgggaag ctagagtaag
tagttcgcca 1200gttaatagtt tgcgcaacgt tgttgccatt gctacaggca
tcgtggtgtc acgctcgtcg 1260tttggtatgg cttcattcag ctccggttcc
caacgatcaa ggcgagttac atgatccccc 1320atgttgtgca aaaaagcggt
tagctccttc ggtcctccga tcgttgtcag aagtaagttg 1380gccgcagtgt
tatcactcat ggttatggca gcactgcata attctcttac tgtcatgcca
1440tccgtaagat gcttttctgt gactggtgag tactcaacca agtcattctg
agaatagtgt 1500atgcggcgac cgagttgctc ttgcccggcg tcaatacggg
ataataccgc gccacatagc 1560agaactttaa aagtgctcat cattggaaaa
cgttcttcgg ggcgaaaact ctcaaggatc 1620ttaccgctgt tgagatccag
ttcgatgtaa cccactcgtg cacccaactg atcttcagca 1680tcttttactt
tcaccagcgt ttctgggtga gcaaaaacag gaaggcaaaa tgccgcaaaa
1740aagggaataa gggcgacacg gaaatgttga atactcatac tcttcctttt
tcaatattat 1800tgaagcattt atcagggtta ttgtctcatg agcggataca
tatttgaatg tatttagaaa 1860aataaacaaa taggggttcc gcgcacattt
ccccgaaaag tgccacctga cgtctaagaa 1920accattatta tcatgacatt
aacctataaa aataggcgta tcacgaggcc ctttcgtctc 1980gcgcgtttcg
gtgatgacgg tgaaaacctc tgacacatgc agctcccgga gacggtcaca
2040gcttgtctgt aagcggatgc cgggagcaga caagcccgtc agggcgcgtc
agcgggtgtt 2100ggcgggtgtc ggggctggct taactatgcg gcatcagagc
agattgtact gagagtgcac 2160catagatctg gagctgtaat ataaaaacct
tcttcaacta acggggcagg ttagtgacat 2220tagaaaaccg actgtaaaaa
gtacagtcgg cattatctca tattataaaa gccagtcatt 2280aggcctatct
gacaattcct gaatagagtt cataaacaat cctgcatgat aaccatcaca
2340aacagaatga tgtacctgta aagatagcgg taaatatatt gaattacctt
tattaatgaa 2400ttttcctgct gtaataatgg gtagaaggta attactatta
ttattgatat ttaagttaaa 2460cccagtaaat gaagtccatg gaataataga
aagagaaaaa gcattttcag gtataggtgt 2520tttgggaaac aatttccccg
aaccattata tttctctaca tcagaaaggt ataaatcata 2580aaactctttg
aagtcattct ttacaggagt ccaaatacca gagaatgttt tagatacacc
2640atcaaaaatt gtataaagtg gctctaactt atcccaataa cctaactctc
cgtcgctatt 2700gtaaccagtt ctaaaagctg tatttgagtt tatcaccctt
gtcactaaga aaataaatgc 2760agggtaaaat ttatatcctt cttgttttat
gtttcggtat aaaacactaa tatcaatttc 2820tgtggttata ctaaaagtcg
tttgttggtt caaataatga ttaaatatct cttttctctt 2880ccaattgtct
aaatcaattt tattaaagtt catttgatat gcctcctaaa tttttatcta
2940aagtgaattt aggaggctta cttgtctgct ttcttcatta gaatcaatcc
ttttttaaaa 3000gtcaatatta ctgtaacata aatatatatt ttaaaaatat
cccactttat ccaattttcg 3060tttgttgaac taatgggtgc tttagttgaa
gaataaaaga cctatgcggt gtgaaatacc 3120gcacagatgc gtaaggagaa
aataccgcat caggcgccat tcgccattca ggctgcgcaa 3180ctgttgggaa
gggcgatcgg tgcgggcctc ttcgctatta cgccagctgg cgaaaggggg
3240atgtgctgca aggcgattaa gttgggtaac gccagggttt tcccagtcac
gacgttgtaa 3300aacgacggcc agtgccaagc ttgcatgcct gcactccatt
ttcttctgct atcaaaataa 3360cagactcgtg attttccaaa cgagctttca
aaaaagcctc tgccccttgc aaatcggatg 3420cctgtctata aaattcccga
tattggttaa acagcggcgc aatggcggcc gcatctgatg 3480tctttgcttg
gcgaatgttc atcttatttc ttcctccctc tcaataattt tttcattcta
3540tcccttttct gtaaagttta tttttcagaa tacttttatc atcatgcttt
gaaaaaatat 3600cacgataata tccattgttc tcacggaagc acacgcaggt
catttgaacg aattttttcg 3660acaggaattt gccgggactc aggagcattt
aacctaaaaa agcatgacat ttcagcataa 3720tgaacattta ctcatgtcta
ttttcgttct tttctgtatg aaaatagtta tttcgagtct 3780ctacggaaat
agcgagagat gatataccta aatagagata aaatcatctc aaaaaaatgg
3840gtctactaaa atattattcc atctattaca ataaattcac agaatagtct
tttaagtaag 3900tctactctga atttttttaa aaggagaggg taaagagtga
aaacagtagt tattattgat 3960gcattacgaa caccaattgg aaaatataaa
ggcagcttaa gtcaagtaag tgccgtagac 4020ttaggaacac atgttacaac
acaactttta aaaagacatt ccactatttc tgaagaaatt 4080gatcaagtaa
tctttggaaa tgttttacaa gctggaaatg gccaaaatcc cgcacgacaa
4140atagcaataa acagcggttt gtctcatgaa attcccgcaa tgacggttaa
tgaggtctgc 4200ggatcaggaa tgaaggccgt tattttggcg aaacaattga
ttcaattagg agaagcggaa 4260gttttaattg ctggcgggat tgagaatatg
tcccaagcac ctaaattaca acgttttaat 4320tacgaaacag aaagctacga
tgcgcctttt tctagtatga tgtatgatgg attaacggat 4380gcctttagtg
gtcaggcaat gggcttaact gctgaaaatg tggccgaaaa gtatcatgta
4440actagagaag agcaagatca attttctgta cattcacaat taaaagcagc
tcaagcacaa 4500gcagaaggga tattcgctga cgaaatagcc ccattagaag
tatcaggaac gcttgtggag 4560aaagatgaag ggattcgccc taattcgagc
gttgagaagc taggaacgct taaaacagtt 4620tttaaagaag acggtactgt
aacagcaggg aatgcatcaa ccattaatga tggggcttct 4680gctttgatta
ttgcttcaca agaatatgcc gaagcacacg gtcttcctta tttagctatt
4740attcgagaca gtgtggaagt cggtattgat ccagcctata tgggaatttc
gccgattaaa 4800gccattcaaa aactgttagc gcgcaatcaa cttactacgg
aagaaattga tctgtatgaa 4860atcaacgaag catttgcagc aacttcaatc
gtggtccaaa gagaactggc tttaccagag 4920gaaaaggtca acatttatgg
tggcggtatt tcattaggtc atgcgattgg tgccacaggt 4980gctcgtttat
taacgagttt aagttatcaa ttaaatcaaa aagaaaagaa atatggagtg
5040gcttctttat gtatcggcgg tggcttagga ctcgctatgc tactagagag
acctcagcaa 5100aaaaaaaaca gccgatttta tcaaatgagt cctgaggaac
gcctggcttc tcttcttaat 5160gaaggccaga tttctgctga tacaaaaaaa
gaatttgaaa atacggcttt atcttcgcag 5220attgccaatc atatgattga
aaatcaaatc agtgaaacag aagtgccgat gggcgttggc 5280ttacatttaa
cagtggacga aactgattat ttggtaccaa tggcgacaga agagccctca
5340gttattgcgg ctttgagtaa tggtgcaaaa atagcacaag gatttaaaac
agtgaatcaa 5400caacgcttaa tgcgtggaca aatcgttttt tacgatgttg
cagatcccga gtcattgatt 5460gataaactac aagtaagaga agcggaagtt
tttcaacaag cagagttaag ttatccatct 5520atcgttaaac ggggcggcgg
cttaagagat ttgcaatatc gtacttttga tgaatcattt 5580gtatctgtcg
actttttagt agatgttaag gatgcaatgg gggcaaatat cgttaacgct
5640atgttggaag gtgtggccga gttgttccgt gaatggtttg cggagcaaaa
gattttattc 5700agtattttaa gtaattatgc cacggagtcg gttgttacga
tgaaaacggc tattccagtt 5760tcacgtttaa gtaaggggag caatggccgg
gaaattgctg aaaaaattgt tttagcttca 5820cgctatgctt cattagatcc
ttatcgggca gtcacgcata acaaaggaat catgaatggc 5880attgaagctg
tagttttagc tacaggaaat gatacacgcg ctgttagcgc ttcttgtcat
5940gcttttgcgg tgaaggaagg tcgctaccaa ggcttgacta gttggacgct
ggatggcgaa 6000caactaattg gtgaaatttc agttccgctt gctttagcca
cggttggcgg tgccacaaaa 6060gtcttaccta aatctcaagc agctgctgat
ttgttagcag tgacggatgc aaaagaacta 6120agtcgagtag tagcggctgt
tggtttggca caaaatttag cggcgttacg ggccttagtc 6180tctgaaggaa
ttcaaaaagg acacatggct ctacaagcac gttctttagc gatgacggtc
6240ggagctactg gtaaagaagt tgaggcagtc gctcaacaat taaaacgtca
aaaaacgatg 6300aaccaagacc gagccatggc tattttaaat gatttaagaa
aacaataaaa ggagagggtg 6360acaattggga ttgataaaat tagttttttt
gtgccccctt attatattga tatgacggca 6420ctggctgaag ccagaaatgt
agaccctgga aaatttcata ttggtattgg gcaagaccaa 6480atggcggtga
acccaatcag ccaagatatt gtgacatttg cagccaatgc cgcagaagcg
6540atcttgacca aagaagataa agaggccatt gatatggtga ttgtcgggac
tgagtccagt 6600atcgatgagt caaaagcggc cgcagttgtc ttacatcgtt
taatggggat tcaacctttc 6660gctcgctctt tcgaaatcaa ggaagcttgt
tacggagcaa cagcaggctt acagttagct 6720aagaatcacg tagccttaca
tccagataaa aaagtcttgg tcgtagcggc agatattgca 6780aaatatggct
taaattctgg cggtgagcct acacaaggag ctggggcggt tgcaatgtta
6840gttgctagtg aaccgcgcat tttggcttta aaagaggata atgtgatgct
gacgcaagat 6900atctatgact tttggcgtcc aacaggccac ccgtatccta
tggtcgatgg tcctttgtca 6960aacgaaacct acatccaatc ttttgcccaa
gtctgggatg aacataaaaa acgaaccggt 7020cttgattttg cagattatga
tgctttagcg ttccatattc cttacacaaa aatgggcaaa 7080aaagccttat
tagcaaaaat ctccgaccaa actgaagcag aacaggaacg aattttagcc
7140cgttatgaag aaagtatcgt ctatagtcgt cgcgtaggaa acttgtatac
gggttcactt 7200tatctgggac tcatttccct tttagaaaat gcaacgactt
taaccgcagg caatcaaatt 7260ggtttattca gttatggttc tggtgctgtc
gctgaatttt tcactggtga attagtagct 7320ggttatcaaa atcatttaca
aaaagaaact catttagcac tgctggataa tcggacagaa 7380ctttctatcg
ctgaatatga agccatgttt gcagaaactt tagacacaga cattgatcaa
7440acgttagaag atgaattaaa atatagtatt tctgctatta ataataccgt
tcgttcttat 7500cgaaactaaa aaaaaccggc cttggccccg ccggtttttt
attatttttc ttcctccgca 7560tgttcaatcc gctccataat cgacggatgg
ctccctctga aaattttaac gagaaacggc 7620gggttgaccc ggctcagtcc
cgtaacggcc aagtcctgaa acgtctcaat cgccgcttcc 7680cggtttccgg
tcagctcaat gccgtaacgg tcggcggcgt tttcctgata ccgggagacg
7740gcattcgtaa tcgggatccc cgggtaccga gctcgaattc gtaatcatgt
catagctgtt 7800tcctgtgtga aattgttatc cgctcacaat tccacacaac
atacgagccg gaagcataaa 7860gtgtaaagcc tggggtgcct aatgagtgag
ctaactcaca ttaattgcgt tgcgctcact 7920gcccgctttc cagtcgggaa
acctgtcgtg ccagctgcat taatgaatcg gccaacgcgc 7980ggggagaggc
ggtttgcgta ttgggcgctc ttccgcttcc tcgctcactg ac
8032238000DNAArtificial SequenceSynthetic Construct 23gtttgacagc
ttatcatcga ctgcacggtg caccaatgct tctggcgtca ggcagccatc 60ggaagctgtg
gtatggctgt gcaggtcgta aatcactgca taattcgtgt cgctcaaggc
120gcactcccgt tctggataat gttttttgcg ccgacatcat aacggttctg
gcaaatattc 180tgaaatgagc tgttgacaat taatcatccg gctcgtataa
tgtgtggaat tgtgagcgga 240taacaatttc acacaggaaa cagcgccgct
gagaaaaagc gaagcggcac tgctctttaa 300caatttatca gacaatctgt
gtgggcactc gaccggaatt atcgattaac tttattatta 360aaaattaaag
aggtatatat taatgtatcg attaaataag gaggaataaa ccatggatcc
420gagctcagga ggtaaaaaaa catgaaaaca gtagttatta ttgatgcatt
acgaacacca 480attggaaaat ataaaggcag cttaagtcaa gtaagtgccg
tagacttagg aacacatgtt 540acaacacaac ttttaaaaag acattccact
atttctgaag aaattgatca agtaatcttt 600ggaaatgttt tacaagctgg
aaatggccaa aatcccgcac gacaaatagc aataaacagc 660ggtttgtctc
atgaaattcc cgcaatgacg gttaatgagg tctgcggatc aggaatgaag
720gccgttattt tggcgaaaca attgattcaa ttaggagaag cggaagtttt
aattgctggc 780gggattgaga atatgtccca agcacctaaa ttacaacgtt
ttaattacga aacagaaagc 840tacgatgcgc ctttttctag tatgatgtat
gatggattaa cggatgcctt tagtggtcag 900gcaatgggct taactgctga
aaatgtggcc gaaaagtatc atgtaactag agaagagcaa 960gatcaatttt
ctgtacattc acaattaaaa gcagctcaag cacaagcaga agggatattc
1020gctgacgaaa tagccccatt agaagtatca ggaacgcttg tggagaaaga
tgaagggatt 1080cgccctaatt cgagcgttga gaagctagga acgcttaaaa
cagtttttaa agaagacggt 1140actgtaacag cagggaatgc atcaaccatt
aatgatgggg cttctgcttt gattattgct 1200tcacaagaat atgccgaagc
acacggtctt ccttatttag ctattattcg agacagtgtg 1260gaagtcggta
ttgatccagc ctatatggga atttcgccga ttaaagccat tcaaaaactg
1320ttagcgcgca atcaacttac tacggaagaa attgatctgt atgaaatcaa
cgaagcattt 1380gcagcaactt caatcgtggt ccaaagagaa ctggctttac
cagaggaaaa ggtcaacatt 1440tatggtggcg gtatttcatt aggtcatgcg
attggtgcca caggtgctcg tttattaacg 1500agtttaagtt atcaattaaa
tcaaaaagaa aagaaatatg gagtggcttc tttatgtatc 1560ggcggtggct
taggactcgc tatgctacta gagagacctc agcaaaaaaa aaacagccga
1620ttttatcaaa tgagtcctga ggaacgcctg gcttctcttc ttaatgaagg
ccagatttct 1680gctgatacaa aaaaagaatt tgaaaatacg gctttatctt
cgcagattgc caatcatatg 1740attgaaaatc aaatcagtga aacagaagtg
ccgatgggcg ttggcttaca tttaacagtg 1800gacgaaactg attatttggt
accaatggcg acagaagagc cctcagttat tgcggctttg 1860agtaatggtg
caaaaatagc acaaggattt aaaacagtga atcaacaacg cttaatgcgt
1920ggacaaatcg ttttttacga tgttgcagat cccgagtcat tgattgataa
actacaagta 1980agagaagcgg aagtttttca acaagcagag ttaagttatc
catctatcgt taaacggggc 2040ggcggcttaa gagatttgca atatcgtact
tttgatgaat catttgtatc tgtcgacttt 2100ttagtagatg ttaaggatgc
aatgggggca aatatcgtta acgctatgtt ggaaggtgtg 2160gccgagttgt
tccgtgaatg gtttgcggag caaaagattt tattcagtat tttaagtaat
2220tatgccacgg agtcggttgt tacgatgaaa acggctattc cagtttcacg
tttaagtaag 2280gggagcaatg gccgggaaat tgctgaaaaa attgttttag
cttcacgcta tgcttcatta 2340gatccttatc gggcagtcac gcataacaaa
ggaatcatga atggcattga agctgtagtt 2400ttagctacag gaaatgatac
acgcgctgtt agcgcttctt gtcatgcttt tgcggtgaag 2460gaaggtcgct
accaaggctt gactagttgg acgctggatg gcgaacaact aattggtgaa
2520atttcagttc cgcttgcttt agccacggtt ggcggtgcca caaaagtctt
acctaaatct 2580caagcagctg ctgatttgtt agcagtgacg gatgcaaaag
aactaagtcg agtagtagcg 2640gctgttggtt tggcacaaaa tttagcggcg
ttacgggcct tagtctctga aggaattcaa 2700aaaggacaca tggctctaca
agcacgttct ttagcgatga cggtcggagc tactggtaaa 2760gaagttgagg
cagtcgctca acaattaaaa cgtcaaaaaa cgatgaacca agaccgagcc
2820atggctattt taaatgattt aagaaaacaa taaaggaggt aaaaaaacat
gacaattggg 2880attgataaaa ttagtttttt tgtgccccct tattatattg
atatgacggc actggctgaa 2940gccagaaatg tagaccctgg aaaatttcat
attggtattg ggcaagacca aatggcggtg 3000aacccaatca gccaagatat
tgtgacattt gcagccaatg ccgcagaagc gatcttgacc 3060aaagaagata
aagaggccat tgatatggtg attgtcggga ctgagtccag tatcgatgag
3120tcaaaagcgg ccgcagttgt cttacatcgt ttaatgggga ttcaaccttt
cgctcgctct 3180ttcgaaatca aggaagcttg ttacggagca acagcaggct
tacagttagc taagaatcac 3240gtagccttac atccagataa aaaagtcttg
gtcgtagcgg cagatattgc aaaatatggc 3300ttaaattctg gcggtgagcc
tacacaagga gctggggcgg ttgcaatgtt agttgctagt 3360gaaccgcgca
ttttggcttt aaaagaggat aatgtgatgc tgacgcaaga tatctatgac
3420ttttggcgtc caacaggcca cccgtatcct atggtcgatg gtcctttgtc
aaacgaaacc 3480tacatccaat cttttgccca agtctgggat gaacataaaa
aacgaaccgg tcttgatttt 3540gcagattatg atgctttagc gttccatatt
ccttacacaa aaatgggcaa aaaagcctta 3600ttagcaaaaa tctccgacca
aactgaagca gaacaggaac gaattttagc ccgttatgaa 3660gaaagtatcg
tctatagtcg tcgcgtagga aacttgtata cgggttcact ttatctggga
3720ctcatttccc ttttagaaaa tgcaacgact ttaaccgcag gcaatcaaat
tggtttattc 3780agttatggtt ctggtgctgt cgctgaattt ttcactggtg
aattagtagc tggttatcaa 3840aatcatttac aaaaagaaac tcatttagca
ctgctggata atcggacaga actttctatc 3900gctgaatatg aagccatgtt
tgcagaaact ttagacacag acattgatca aacgttagaa 3960gatgaattaa
aatatagtat ttctgctatt aataataccg ttcgttctta tcgaaactaa
4020gagatctgca gctggtacca tatgggaatt cgaagcttgg gcccgaacaa
aaactcatct 4080cagaagagga tctgaatagc gccgtcgacc atcatcatca
tcatcattga gtttaaacgg 4140tctccagctt ggctgttttg gcggatgaga
gaagattttc agcctgatac agattaaatc 4200agaacgcaga agcggtctga
taaaacagaa tttgcctggc ggcagtagcg cggtggtccc 4260acctgacccc
atgccgaact cagaagtgaa acgccgtagc gccgatggta gtgtggggtc
4320tccccatgcg agagtaggga actgccaggc atcaaataaa acgaaaggct
cagtcgaaag 4380actgggcctt tcgttttatc tgttgtttgt cggtgaacgc
tctcctgagt aggacaaatc 4440cgccgggagc ggatttgaac gttgcgaagc
aacggcccgg agggtggcgg gcaggacgcc 4500cgccataaac tgccaggcat
caaattaagc agaaggccat cctgacggat ggcctttttg 4560cgtttctaca
aactcttttt gtttattttt ctaaatacat tcaaatatgt atccgctcat
4620gagacaataa ccctgataaa tgcttcaata atattgaaaa aggaagagta
tgagtattca 4680acatttccgt gtcgccctta ttcccttttt tgcggcattt
tgccttcctg tttttgctca 4740cccagaaacg ctggtgaaag taaaagatgc
tgaagatcag ttgggtgcac gagtgggtta 4800catcgaactg gatctcaaca
gcggtaagat ccttgagagt tttcgccccg aagaacgttt 4860tccaatgatg
agcactttta aagttctgct atgtggcgcg gtattatccc gtgttgacgc
4920cgggcaagag caactcggtc gccgcataca ctattctcag aatgacttgg
ttgagtactc 4980accagtcaca gaaaagcatc ttacggatgg catgacagta
agagaattat gcagtgctgc 5040cataaccatg agtgataaca ctgcggccaa
cttacttctg acaacgatcg gaggaccgaa 5100ggagctaacc gcttttttgc
acaacatggg ggatcatgta actcgccttg atcgttggga 5160accggagctg
aatgaagcca taccaaacga cgagcgtgac accacgatgc ctgtagcaat
5220ggcaacaacg ttgcgcaaac tattaactgg cgaactactt actctagctt
cccggcaaca 5280attaatagac tggatggagg cggataaagt tgcaggacca
cttctgcgct cggcccttcc 5340ggctggctgg tttattgctg ataaatctgg
agccggtgag cgtgggtctc gcggtatcat 5400tgcagcactg gggccagatg
gtaagccctc ccgtatcgta gttatctaca cgacggggag 5460tcaggcaact
atggatgaac gaaatagaca gatcgctgag ataggtgcct cactgattaa
5520gcattggtaa ctgtcagacc aagtttactc atatatactt tagattgatt
taaaacttca 5580tttttaattt aaaaggatct aggtgaagat cctttttgat
aatctcatga ccaaaatccc 5640ttaacgtgag ttttcgttcc actgagcgtc
agaccccgta gaaaagatca aaggatcttc 5700ttgagatcct ttttttctgc
gcgtaatctg ctgcttgcaa acaaaaaaac caccgctacc 5760agcggtggtt
tgtttgccgg atcaagagct accaactctt tttccgaagg taactggctt
5820cagcagagcg cagataccaa atactgtcct tctagtgtag ccgtagttag
gccaccactt 5880caagaactct gtagcaccgc ctacatacct cgctctgcta
atcctgttac cagtggctgc 5940tgccagtggc gataagtcgt gtcttaccgg
gttggactca agacgatagt taccggataa 6000ggcgcagcgg tcgggctgaa
cggggggttc gtgcacacag cccagcttgg agcgaacgac 6060ctacaccgaa
ctgagatacc tacagcgtga gctatgagaa agcgccacgc ttcccgaagg
6120gagaaaggcg gacaggtatc cggtaagcgg cagggtcgga acaggagagc
gcacgaggga 6180gcttccaggg ggaaacgcct ggtatcttta tagtcctgtc
gggtttcgcc acctctgact 6240tgagcgtcga
tttttgtgat gctcgtcagg ggggcggagc ctatggaaaa acgccagcaa
6300cgcggccttt ttacggttcc tggccttttg ctggcctttt gctcacatgt
tctttcctgc 6360gttatcccct gattctgtgg ataaccgtat taccgccttt
gagtgagctg ataccgctcg 6420ccgcagccga acgaccgagc gcagcgagtc
agtgagcgag gaagcggaag agcgcctgat 6480gcggtatttt ctccttacgc
atctgtgcgg tatttcacac cgcatatggt gcactctcag 6540tacaatctgc
tctgatgccg catagttaag ccagtataca ctccgctatc gctacgtgac
6600tgggtcatgg ctgcgccccg acacccgcca acacccgctg acgcgccctg
acgggcttgt 6660ctgctcccgg catccgctta cagacaagct gtgaccgtct
ccgggagctg catgtgtcag 6720aggttttcac cgtcatcacc gaaacgcgcg
aggcagcaga tcaattcgcg cgcgaaggcg 6780aagcggcatg catttacgtt
gacaccatcg aatggtgcaa aacctttcgc ggtatggcat 6840gatagcgccc
ggaagagagt caattcaggg tggtgaatgt gaaaccagta acgttatacg
6900atgtcgcaga gtatgccggt gtctcttatc agaccgtttc ccgcgtggtg
aaccaggcca 6960gccacgtttc tgcgaaaacg cgggaaaaag tggaagcggc
gatggcggag ctgaattaca 7020ttcccaaccg cgtggcacaa caactggcgg
gcaaacagtc gttgctgatt ggcgttgcca 7080cctccagtct ggccctgcac
gcgccgtcgc aaattgtcgc ggcgattaaa tctcgcgccg 7140atcaactggg
tgccagcgtg gtggtgtcga tggtagaacg aagcggcgtc gaagcctgta
7200aagcggcggt gcacaatctt ctcgcgcaac gcgtcagtgg gctgatcatt
aactatccgc 7260tggatgacca ggatgccatt gctgtggaag ctgcctgcac
taatgttccg gcgttatttc 7320ttgatgtctc tgaccagaca cccatcaaca
gtattatttt ctcccatgaa gacggtacgc 7380gactgggcgt ggagcatctg
gtcgcattgg gtcaccagca aatcgcgctg ttagcgggcc 7440cattaagttc
tgtctcggcg cgtctgcgtc tggctggctg gcataaatat ctcactcgca
7500atcaaattca gccgatagcg gaacgggaag gcgactggag tgccatgtcc
ggttttcaac 7560aaaccatgca aatgctgaat gagggcatcg ttcccactgc
gatgctggtt gccaacgatc 7620agatggcgct gggcgcaatg cgcgccatta
ccgagtccgg gctgcgcgtt ggtgcggata 7680tctcggtagt gggatacgac
gataccgaag acagctcatg ttatatcccg ccgtcaacca 7740ccatcaaaca
ggattttcgc ctgctggggc aaaccagcgt ggaccgcttg ctgcaactct
7800ctcagggcca ggcggtgaag ggcaatcagc tgttgcccgt ctcactggtg
aaaagaaaaa 7860ccaccctggc gcccaatacg caaaccgcct ctccccgcgc
gttggccgat tcattaatgc 7920agctggcacg acaggtttcc cgactggaaa
gcgggcagtg agcgcaacgc aattaatgtg 7980agttagcgcg aattgatctg
80002410433DNAArtificial SequenceSynthetic Construct 24cccgtcttac
tgtcgggaat tcgcgttggc cgattcatta atgcagattc tgaaatgagc 60tgttgacaat
taatcatccg gctcgtataa tgtgtggaat tgtgagcgga taacaatttc
120acacaggaaa cagcgccgct gagaaaaagc gaagcggcac tgctctttaa
caatttatca 180gacaatctgt gtgggcactc gaccggaatt atcgattaac
tttattatta aaaattaaag 240aggtatatat taatgtatcg attaaataag
gaggaataaa ccatggatcc gagctcagga 300ggtaaaaaaa catgaaaaca
gtagttatta ttgatgcatt acgaacacca attggaaaat 360ataaaggcag
cttaagtcaa gtaagtgccg tagacttagg aacacatgtt acaacacaac
420ttttaaaaag acattccact atttctgaag aaattgatca agtaatcttt
ggaaatgttt 480tacaagctgg aaatggccaa aatcccgcac gacaaatagc
aataaacagc ggtttgtctc 540atgaaattcc cgcaatgacg gttaatgagg
tctgcggatc aggaatgaag gccgttattt 600tggcgaaaca attgattcaa
ttaggagaag cggaagtttt aattgctggc gggattgaga 660atatgtccca
agcacctaaa ttacaacgtt ttaattacga aacagaaagc tacgatgcgc
720ctttttctag tatgatgtat gatggattaa cggatgcctt tagtggtcag
gcaatgggct 780taactgctga aaatgtggcc gaaaagtatc atgtaactag
agaagagcaa gatcaatttt 840ctgtacattc acaattaaaa gcagctcaag
cacaagcaga agggatattc gctgacgaaa 900tagccccatt agaagtatca
ggaacgcttg tggagaaaga tgaagggatt cgccctaatt 960cgagcgttga
gaagctagga acgcttaaaa cagtttttaa agaagacggt actgtaacag
1020cagggaatgc atcaaccatt aatgatgggg cttctgcttt gattattgct
tcacaagaat 1080atgccgaagc acacggtctt ccttatttag ctattattcg
agacagtgtg gaagtcggta 1140ttgatccagc ctatatggga atttcgccga
ttaaagccat tcaaaaactg ttagcgcgca 1200atcaacttac tacggaagaa
attgatctgt atgaaatcaa cgaagcattt gcagcaactt 1260caatcgtggt
ccaaagagaa ctggctttac cagaggaaaa ggtcaacatt tatggtggcg
1320gtatttcatt aggtcatgcg attggtgcca caggtgctcg tttattaacg
agtttaagtt 1380atcaattaaa tcaaaaagaa aagaaatatg gagtggcttc
tttatgtatc ggcggtggct 1440taggactcgc tatgctacta gagagacctc
agcaaaaaaa aaacagccga ttttatcaaa 1500tgagtcctga ggaacgcctg
gcttctcttc ttaatgaagg ccagatttct gctgatacaa 1560aaaaagaatt
tgaaaatacg gctttatctt cgcagattgc caatcatatg attgaaaatc
1620aaatcagtga aacagaagtg ccgatgggcg ttggcttaca tttaacagtg
gacgaaactg 1680attatttggt accaatggcg acagaagagc cctcagttat
tgcggctttg agtaatggtg 1740caaaaatagc acaaggattt aaaacagtga
atcaacaacg cttaatgcgt ggacaaatcg 1800ttttttacga tgttgcagat
cccgagtcat tgattgataa actacaagta agagaagcgg 1860aagtttttca
acaagcagag ttaagttatc catctatcgt taaacggggc ggcggcttaa
1920gagatttgca atatcgtact tttgatgaat catttgtatc tgtcgacttt
ttagtagatg 1980ttaaggatgc aatgggggca aatatcgtta acgctatgtt
ggaaggtgtg gccgagttgt 2040tccgtgaatg gtttgcggag caaaagattt
tattcagtat tttaagtaat tatgccacgg 2100agtcggttgt tacgatgaaa
acggctattc cagtttcacg tttaagtaag gggagcaatg 2160gccgggaaat
tgctgaaaaa attgttttag cttcacgcta tgcttcatta gatccttatc
2220gggcagtcac gcataacaaa ggaatcatga atggcattga agctgtagtt
ttagctacag 2280gaaatgatac acgcgctgtt agcgcttctt gtcatgcttt
tgcggtgaag gaaggtcgct 2340accaaggctt gactagttgg acgctggatg
gcgaacaact aattggtgaa atttcagttc 2400cgcttgcttt agccacggtt
ggcggtgcca caaaagtctt acctaaatct caagcagctg 2460ctgatttgtt
agcagtgacg gatgcaaaag aactaagtcg agtagtagcg gctgttggtt
2520tggcacaaaa tttagcggcg ttacgggcct tagtctctga aggaattcaa
aaaggacaca 2580tggctctaca agcacgttct ttagcgatga cggtcggagc
tactggtaaa gaagttgagg 2640cagtcgctca acaattaaaa cgtcaaaaaa
cgatgaacca agaccgagcc atggctattt 2700taaatgattt aagaaaacaa
taaaggaggt aaaaaaacat gacaattggg attgataaaa 2760ttagtttttt
tgtgccccct tattatattg atatgacggc actggctgaa gccagaaatg
2820tagaccctgg aaaatttcat attggtattg ggcaagacca aatggcggtg
aacccaatca 2880gccaagatat tgtgacattt gcagccaatg ccgcagaagc
gatcttgacc aaagaagata 2940aagaggccat tgatatggtg attgtcggga
ctgagtccag tatcgatgag tcaaaagcgg 3000ccgcagttgt cttacatcgt
ttaatgggga ttcaaccttt cgctcgctct ttcgaaatca 3060aggaagcttg
ttacggagca acagcaggct tacagttagc taagaatcac gtagccttac
3120atccagataa aaaagtcttg gtcgtagcgg cagatattgc aaaatatggc
ttaaattctg 3180gcggtgagcc tacacaagga gctggggcgg ttgcaatgtt
agttgctagt gaaccgcgca 3240ttttggcttt aaaagaggat aatgtgatgc
tgacgcaaga tatctatgac ttttggcgtc 3300caacaggcca cccgtatcct
atggtcgatg gtcctttgtc aaacgaaacc tacatccaat 3360cttttgccca
agtctgggat gaacataaaa aacgaaccgg tcttgatttt gcagattatg
3420atgctttagc gttccatatt ccttacacaa aaatgggcaa aaaagcctta
ttagcaaaaa 3480tctccgacca aactgaagca gaacaggaac gaattttagc
ccgttatgaa gaaagtatcg 3540tctatagtcg tcgcgtagga aacttgtata
cgggttcact ttatctggga ctcatttccc 3600ttttagaaaa tgcaacgact
ttaaccgcag gcaatcaaat tggtttattc agttatggtt 3660ctggtgctgt
cgctgaattt ttcactggtg aattagtagc tggttatcaa aatcatttac
3720aaaaagaaac tcatttagca ctgctggata atcggacaga actttctatc
gctgaatatg 3780aagccatgtt tgcagaaact ttagacacag acattgatca
aacgttagaa gatgaattaa 3840aatatagtat ttctgctatt aataataccg
ttcgttctta tcgaaactaa agatctgcat 3900cctgcattcg cccttaggag
gtaaaaaaac atgtgtgcga cctcttctca atttactcag 3960attaccgagc
ataattcccg tcgttccgca aactatcagc caaacctgtg gaatttcgaa
4020ttcctgcaat ccctggagaa cgacctgaaa gtggaaaagc tggaggagaa
agcgaccaaa 4080ctggaggaag aagttcgctg catgatcaac cgtgtagaca
cccagccgct gtccctgctg 4140gagctgatcg acgatgtgca gcgcctgggt
ctgacctaca aatttgaaaa agacatcatt 4200aaagccctgg aaaacatcgt
actgctggac gaaaacaaaa agaacaaatc tgacctgcac 4260gcaaccgctc
tgtctttccg tctgctgcgt cagcacggtt tcgaggtttc tcaggatgtt
4320tttgagcgtt tcaaggataa agaaggtggt ttcagcggtg aactgaaagg
tgacgtccaa 4380ggcctgctga gcctgtatga agcgtcttac ctgggtttcg
agggtgagaa cctgctggag 4440gaggcgcgta ccttttccat cacccacctg
aagaacaacc tgaaagaagg cattaatacc 4500aaggttgcag aacaagtgag
ccacgccctg gaactgccat atcaccagcg tctgcaccgt 4560ctggaggcac
gttggttcct ggataaatac gaaccgaaag aaccgcatca ccagctgctg
4620ctggagctgg cgaagctgga ttttaacatg gtacagaccc tgcaccagaa
agagctgcaa 4680gatctgtccc gctggtggac cgagatgggc ctggctagca
aactggattt tgtacgcgac 4740cgcctgatgg aagtttattt ctgggcactg
ggtatggcgc cagacccgca gtttggtgaa 4800tgtcgcaaag ctgttactaa
aatgtttggt ctggtgacga tcatcgatga cgtgtatgac 4860gtttatggca
ctctggacga actgcaactg ttcaccgatg ctgtagagcg ctgggacgtt
4920aacgctatta acaccctgcc ggactatatg aaactgtgtt tcctggcact
gtacaacacc 4980gttaacgaca cgtcctattc tattctgaaa gagaaaggtc
ataacaacct gtcctatctg 5040acgaaaagct ggcgtgaact gtgcaaagcc
tttctgcaag aggcgaaatg gtccaacaac 5100aaaattatcc cggctttctc
caagtacctg gaaaacgcca gcgtttcctc ctccggtgta 5160gcgctgctgg
cgccgtctta cttttccgta tgccagcagc aggaagacat ctccgaccac
5220gcgctgcgtt ccctgaccga cttccatggt ctggtgcgtt ctagctgcgt
tatcttccgc 5280ctgtgcaacg atctggccac ctctgcggcg gagctggaac
gtggcgagac taccaattct 5340atcattagct acatgcacga aaacgatggt
accagcgagg aacaggcccg cgaagaactg 5400cgtaaactga tcgacgccga
atggaaaaag atgaatcgtg aacgcgttag cgactccacc 5460ctgctgccta
aagcgttcat ggaaatcgca gttaacatgg cacgtgtttc ccactgcacc
5520taccagtatg gcgatggtct gggtcgccca gactacgcga ctgaaaaccg
catcaaactg 5580ctgctgattg accctttccc gattaaccag ctgatgtatg
tctaactgca gctggtacca 5640tatgggaatt cgaagcttgg gcccgaacaa
aaactcatct cagaagagga tctgaatagc 5700gccgtcgacc atcatcatca
tcatcattga gtttaaacgg tctccagctt ggctgttttg 5760gcggatgaga
gaagattttc agcctgatac agattaaatc agaacgcaga agcggtctga
5820taaaacagaa tttgcctggc ggcagtagcg cggtggtccc acctgacccc
atgccgaact 5880cagaagtgaa acgccgtagc gccgatggta gtgtggggtc
tccccatgcg agagtaggga 5940actgccaggc atcaaataaa acgaaaggct
cagtcgaaag actgggcctt tcgttttatc 6000tgttgtttgt cggtgaacgc
tctcctgagt aggacaaatc cgccgggagc ggatttgaac 6060gttgcgaagc
aacggcccgg agggtggcgg gcaggacgcc cgccataaac tgccaggcat
6120caaattaagc agaaggccat cctgacggat ggcctttttg cgtttctaca
aactcttttt 6180gtttattttt ctaaatacat tcaaatatgt atccgctcat
gagacaataa ccctgataaa 6240tgcttcaata atctggcgta atagcgaaga
ggcccgcacc gatcgccctt cccaacagtt 6300gcgcagcctg aatggcgaat
ggcgcctgat gcggtatttt ctccttacgc atctgtgcgg 6360tatttcacac
cgcatatggt gcactctcag tacaatctgc tctgatgccg catagttaag
6420ccagccccga cacccgccaa cacccgctga cgagcttagt aaagccctcg
ctagatttta 6480atgcggatgt tgcgattact tcgccaacta ttgcgataac
aagaaaaagc cagcctttca 6540tgatatatct cccaatttgt gtagggctta
ttatgcacgc ttaaaaataa taaaagcaga 6600cttgacctga tagtttggct
gtgagcaatt atgtgcttag tgcatctaac gcttgagtta 6660agccgcgccg
cgaagcggcg tcggcttgaa cgaattgtta gacattattt gccgactacc
6720ttggtgatct cgcctttcac gtagtggaca aattcttcca actgatctgc
gcgcgaggcc 6780aagcgatctt cttcttgtcc aagataagcc tgtctagctt
caagtatgac gggctgatac 6840tgggccggca ggcgctccat tgcccagtcg
gcagcgacat ccttcggcgc gattttgccg 6900gttactgcgc tgtaccaaat
gcgggacaac gtaagcacta catttcgctc atcgccagcc 6960cagtcgggcg
gcgagttcca tagcgttaag gtttcattta gcgcctcaaa tagatcctgt
7020tcaggaaccg gatcaaagag ttcctccgcc gctggaccta ccaaggcaac
gctatgttct 7080cttgcttttg tcagcaagat agccagatca atgtcgatcg
tggctggctc gaagatacct 7140gcaagaatgt cattgcgctg ccattctcca
aattgcagtt cgcgcttagc tggataacgc 7200cacggaatga tgtcgtcgtg
cacaacaatg gtgacttcta cagcgcggag aatctcgctc 7260tctccagggg
aagccgaagt ttccaaaagg tcgttgatca aagctcgccg cgttgtttca
7320tcaagcctta cggtcaccgt aaccagcaaa tcaatatcac tgtgtggctt
caggccgcca 7380tccactgcgg agccgtacaa atgtacggcc agcaacgtcg
gttcgagatg gcgctcgatg 7440acgccaacta cctctgatag ttgagtcgat
acttcggcga tcaccgcttc cctcatgatg 7500tttaactttg ttttagggcg
actgccctgc tgcgtaacat cgttgctgct ccataacatc 7560aaacatcgac
ccacggcgta acgcgcttgc tgcttggatg cccgaggcat agactgtacc
7620ccaaaaaaac agtcataaca agccatgaaa accgccactg cgccgttacc
accgctgcgt 7680tcggtcaagg ttctggacca gttgcgtgag cgcatacgct
acttgcatta cagcttacga 7740accgaacagg cttatgtcca ctgggttcgt
gccttcatcc gtttccacgg tgtgcgtcac 7800ccggcaacct tgggcagcag
cgaagtcgag gcatttctgt cctggctggc gaacgagcgc 7860aaggtttcgg
tctccacgca tcgtcaggca ttggcggcct tgctgttctt ctacggcaag
7920gtgctgtgca cggatctgcc ctggcttcag gagatcggaa gacctcggcc
gtcgcggcgc 7980ttgccggtgg tgctgacccc ggatgaagtg gttcgcatcc
tcggttttct ggaaggcgag 8040catcgtttgt tcgcccagct tctgtatgga
acgggcatgc ggatcagtga gggtttgcaa 8100ctgcgggtca aggatctgga
tttcgatcac ggcacgatca tcgtgcggga gggcaagggc 8160tccaaggatc
gggccttgat gttacccgag agcttggcac ccagcctgcg cgagcagggg
8220aattaattcc cacgggtttt gctgcccgca aacgggctgt tctggtgttg
ctagtttgtt 8280atcagaatcg cagatccggc ttcagccggt ttgccggctg
aaagcgctat ttcttccaga 8340attgccatga ttttttcccc acgggaggcg
tcactggctc ccgtgttgtc ggcagctttg 8400attcgataag cagcatcgcc
tgtttcaggc tgtctatgtg tgactgttga gctgtaacaa 8460gttgtctcag
gtgttcaatt tcatgttcta gttgctttgt tttactggtt tcacctgttc
8520tattaggtgt tacatgctgt tcatctgtta cattgtcgat ctgttcatgg
tgaacagctt 8580tgaatgcacc aaaaactcgt aaaagctctg atgtatctat
cttttttaca ccgttttcat 8640ctgtgcatat ggacagtttt ccctttgata
tgtaacggtg aacagttgtt ctacttttgt 8700ttgttagtct tgatgcttca
ctgatagata caagagccat aagaacctca gatccttccg 8760tatttagcca
gtatgttctc tagtgtggtt cgttgttttt gcgtgagcca tgagaacgaa
8820ccattgagat catacttact ttgcatgtca ctcaaaaatt ttgcctcaaa
actggtgagc 8880tgaatttttg cagttaaagc atcgtgtagt gtttttctta
gtccgttatg taggtaggaa 8940tctgatgtaa tggttgttgg tattttgtca
ccattcattt ttatctggtt gttctcaagt 9000tcggttacga gatccatttg
tctatctagt tcaacttgga aaatcaacgt atcagtcggg 9060cggcctcgct
tatcaaccac caatttcata ttgctgtaag tgtttaaatc tttacttatt
9120ggtttcaaaa cccattggtt aagcctttta aactcatggt agttattttc
aagcattaac 9180atgaacttaa attcatcaag gctaatctct atatttgcct
tgtgagtttt cttttgtgtt 9240agttctttta ataaccactc ataaatcctc
atagagtatt tgttttcaaa agacttaaca 9300tgttccagat tatattttat
gaattttttt aactggaaaa gataaggcaa tatctcttca 9360ctaaaaacta
attctaattt ttcgcttgag aacttggcat agtttgtcca ctggaaaatc
9420tcaaagcctt taaccaaagg attcctgatt tccacagttc tcgtcatcag
ctctctggtt 9480gctttagcta atacaccata agcattttcc ctactgatgt
tcatcatctg agcgtattgg 9540ttataagtga acgataccgt ccgttctttc
cttgtagggt tttcaatcgt ggggttgagt 9600agtgccacac agcataaaat
tagcttggtt tcatgctccg ttaagtcata gcgactaatc 9660gctagttcat
ttgctttgaa aacaactaat tcagacatac atctcaattg gtctaggtga
9720ttttaatcac tataccaatt gagatgggct agtcaatgat aattactagt
ccttttcctt 9780tgagttgtgg gtatctgtaa attctgctag acctttgctg
gaaaacttgt aaattctgct 9840agaccctctg taaattccgc tagacctttg
tgtgtttttt ttgtttatat tcaagtggtt 9900ataatttata gaataaagaa
agaataaaaa aagataaaaa gaatagatcc cagccctgtg 9960tataactcac
tactttagtc agttccgcag tattacaaaa ggatgtcgca aacgctgttt
10020gctcctctac aaaacagacc ttaaaaccct aaaggcttaa gtagcaccct
cgcaagctcg 10080ggcaaatcgc tgaatattcc ttttgtctcc gaccatcagg
cacctgagtc gctgtctttt 10140tcgtgacatt cagttcgctg cgctcacggc
tctggcagtg aatgggggta aatggcacta 10200caggcgcctt ttatggattc
atgcaaggaa actacccata atacaagaaa agcccgtcac 10260gggcttctca
gggcgtttta tggcgggtct gctatgtggt gctatctgac tttttgctgt
10320tcagcagttc ctgccctctg attttccagt ctgaccactt cggattatcc
cgtgacaggt 10380cattcagact ggctaatgca cccagtaagg cagcggtatc
atcaacaggc tta 104332510356DNAArtificial SequenceSynthetic
Construct 25caagaaaaat gccccgctta cgcagggcat ccatttatta ctcaaccgta
accgattttg 60ccaggttacg cggctggtca acgtcggtgc ctttgatcag cgcgacatgg
taagccagca 120gctgcagcgg aacggtgtag aagatcggtg caatcacctc
ttccacatgc ggcatctcga 180tgatgtgcat gttatcgcta cttacaaaac
ccgcatcctg atcggcgaag acatacaact 240gaccgccacg cgcgcgaact
tcttcaatgt tggatttcag tttttccagc aattcgttgt 300tcggtgcaac
aacaataacc ggcatatcgg catcaattag cgccagcgga ccgtgtttca
360gttcgccagc agcgtaggct tcagcgtgaa tgtaagagat ctctttcaac
ttcaatgcgc 420cttccagcgc gattgggtac tgatcgccac ggcccaggaa
cagcgcgtga tgtttgtcag 480agaaatcttc tgccagcgct tcaatgcgtt
tgtcctgaga cagcatctgc tcaatacggc 540tcggcagcgc ctgcagacca
tgcacgatgt catgttcaat ggaggcatcc agacctttca 600ggcgagacag
cttcgccacc agcatcaaca gcacagttaa ctgagtggtg aatgctttag
660tggatgccac gccgatttct gtacccgcgt tggtcattag cgccagatcg
gattcgcgca 720ccagagaaga acccggaacg ttacagattg ccagtgaacc
aaggtaaccc agctctttcg 780acagacgcag gccagccagg gtatccgcgg
tttcgccaga ctgtgacacg atcgcccttc 840ccaacagttg cgcagcctat
acgtacggca gtttaaggtt tacacctata aaagagagag 900ccgttatcgt
ctgtttgtgg atgtacagag tgatattatt gacacgccgg ggcgacggat
960ggtgatcccc ctggccagtg cacgtctgct gtcagataaa gtctcccgtg
aactttaccc 1020ggtggtgcat atcggggatg aaagctggcg catgatgacc
accgatatgg ccagtgtgcc 1080ggtctccgtt atcggggaag aagtggctga
tctcagccac cgcgaaaatg acatcaaaaa 1140cgccattaac ctgatgttct
ggggaatata aatgtcaggc atgagattat caaaaaggat 1200cttcacctag
atccttttca cgtagaaagc cagtccgcag aaacggtgct gaccccggat
1260gaatgtcagc tactgggcta tctggacaag ggaaaacgca agcgcaaaga
gaaagcaggt 1320agcttgcagt gggcttacat ggcgatagct agactgggcg
gttttatgga cagcaagcga 1380accggaattg ccagctgggg cgccctctgg
taaggttggg aagccctgca aagtaaactg 1440gatggctttc tcgccgccaa
ggatctgatg gcgcagggga tcaagctctg atcaagagac 1500aggatgagga
tcgtttcgca tgattgaaca agatggattg cacgcaggtt ctccggccgc
1560ttgggtggag aggctattcg gctatgactg ggcacaacag acaatcggct
gctctgatgc 1620cgccgtgttc cggctgtcag cgcaggggcg cccggttctt
tttgtcaaga ccgacctgtc 1680cggtgccctg aatgaactgc aagacgaggc
agcgcggcta tcgtggctgg ccacgacggg 1740cgttccttgc gcagctgtgc
tcgacgttgt cactgaagcg ggaagggact ggctgctatt 1800gggcgaagtg
ccggggcagg atctcctgtc atctcacctt gctcctgccg agaaagtatc
1860catcatggct gatgcaatgc ggcggctgca tacgcttgat ccggctacct
gcccattcga 1920ccaccaagcg aaacatcgca tcgagcgagc acgtactcgg
atggaagccg gtcttgtcga 1980tcaggatgat ctggacgaag agcatcaggg
gctcgcgcca gccgaactgt tcgccaggct 2040caaggcgagc atgcccgacg
gcgaggatct cgtcgtgacc catggcgatg cctgcttgcc 2100gaatatcatg
gtggaaaatg gccgcttttc tggattcatc gactgtggcc ggctgggtgt
2160ggcggaccgc tatcaggaca tagcgttggc tacccgtgat attgctgaag
agcttggcgg 2220cgaatgggct gaccgcttcc tcgtgcttta cggtatcgcc
gctcccgatt cgcagcgcat 2280cgccttctat cgccttcttg acgagttctt
ctgaattatt aacgcttaca atttcctgat 2340gcggtatttt ctccttacgc
atctgtgcgg tatttcacac cgcatacagg tggcactttt 2400cggggaaatg
tgcgcggaac ccctatttgt ttatttttct aaatacattc aaatatgtat
2460ccgctcatga gacaataacc ctgataaatg cttcaataat agcacgtgag
gagggccacc 2520atggccaagt tgaccagtgc cgttccggtg ctcaccgcgc
gcgacgtcgc cggagcggtc 2580gagttctgga ccgaccggct cgggttctcc
cctagtaacg gccgccagtg tgctggaatt 2640caggcagttc aacctgttga
tagtacgtac taagctctca tgtttcacgt actaagctct 2700catgtttaac
gtactaagct ctcatgttta acgaactaaa ccctcatggc taacgtacta
2760agctctcatg gctaacgtac taagctctca tgtttcacgt actaagctct
catgtttgaa 2820caataaaatt aatataaatc agcaacttaa atagcctcta
aggttttaag ttttataaga 2880aaaaaaagaa tatataaggc ttttaaagct
tttaaggttt aacggttgtg gacaacaagc 2940cagggatgta acgcactgag
aagcccttag agcctctcaa agcaattttc agtgacacag 3000gaacacttaa
cggctgacag cctgaattct gcagatatct gtttttccac tcttcgttca
3060ctttcgccag gtagctggtg aagacgaagg aagtcccgga gccatctgcg
cggcgtacta 3120cagcaatgtt ttgtgaaggc agtttcagac ccggattcag
tttggcgatg gcttcatcat 3180cccacttctt gattttgccc aggtagatgt
cgccgagggt tttaccatcc agcaccagtt 3240cgccagactt cagccctgga
atgttaaccg ccagcaccac gccgccaatc acggtcggga 3300actggaacag
accttcctga gccagttttt cgtcagacag cggcgcgtca gaggcaccaa
3360aatcaacggt attagcgata atctgtttta cgccaccgga agaaccgata
ccctggtagt 3420taactttatt accggtttct ttctggtaag tgtcagccca
tttggcatac accggcgcag 3480ggaaggttgc acctgcacct gtcaggcttg
cttctgcaaa cacagagaaa gcactcatcg 3540ataaggtcgc ggcgacaaca
gttgcgacgg tggtacgcat aactttcata atgtctcctg 3600ggaggattca
taaagcattg tttgttggct acgagaagca aaataggaca aacaggtgac
3660agttatatgt aaggaatatg acagttttat gacagagaga taaagtcttc
agtctgattt 3720aaataagcgt tgatattcag tcaattacaa acattaataa
cgaagagatg acagaaaaat 3780tttcattctg tgacagagaa aaagtagccg
aagatgacgg tttgtcacat ggagttggca 3840ggatgtttga ttaaaagcaa
ttaaccctca ctaaagggcg gccgcgaagt tcctattctc 3900tagaaagtat
aggaacttca ttctaccggg taggggaggc gcttttccca aggcagtctg
3960gagcatgcgc tttagcagcc ccgctgggca cttggcgcta cacaagtggc
ctctggcctc 4020gcacacattc cacatccacc ggtaggcgcc aaccggctcc
gttctttggt ggccccttcg 4080cgccaccttc cactcctccc ctagtcagga
agttcccccc cgccccgcag ctcgcgtcgt 4140gcaggacgtg acaaatggaa
gtagcacgtc tcactagtct cgtgcagatg gacagcaccg 4200ctgagcaatg
gaagcgggta ggcctttggg gcagcggcca atagcagctt tgctccttcg
4260ctttctgggc tcagaggctg ggaaggggtg ggtccggggg cgggctcagg
ggcgggctca 4320ggggcggggc gggcgcccga aggtcctccg gaggcccggc
attctgcacg cttcaaaagc 4380gcacgtctgc cgcgctgttc tcctcttcct
catctccggg cctttcgacc tgcagcagca 4440cgtgttgaca attaatcatc
ggcatagtat atcggcatag tataatacga caaggtgagg 4500aactaaacca
tggagaaaaa aatcactgga tataccaccg ttgatatatc ccaatggcat
4560cgtaaagaac attttgaggc atttcagtca gttgctcaat gtacctataa
ccagaccgtt 4620cagctggata ttacggcctt tttaaagacc gtaaagaaaa
ataagcacaa gttttatccg 4680gcctttattc acattcttgc ccgcctgatg
aatgctcatc cggaattccg tatggcaatg 4740aaagacggtg agctggtgat
atgggatagt gttcaccctt gttacaccgt tttccatgag 4800caaactgaaa
cgttttcatc gctctggagt gaataccacg acgatttccg gcagtttcta
4860cacatatatt cgcaagatgt ggcgtgttac ggtgaaaacc tggcctattt
ccctaaaggg 4920tttattgaga atatgttttt cgtctcagcc aatccctggg
tgagtttcac cagttttgat 4980ttaaacgtgg ccaatatgga caacttcttc
gcccccgttt tcaccatggg caaatattat 5040acgcaaggcg acaaggtgct
gatgccgctg gcgattcagg ttcatcatgc cgtttgtgat 5100ggcttccatg
tcggcagaat gcttaatgaa ttacaacagt actgcgatga gtggcagggc
5160ggggcgtaag cgggactctg gggttcgaat aaagaccgac caagcgacgt
ctgagagctc 5220cctggcgaat tcggtaccaa taaaagagct ttattttcat
gatctgtgtg ttggtttttg 5280tgtgcggcgc ggaagttcct attctctaga
aagtatagga acttcctcga gccctatagt 5340gagtcgtatt agcccttgac
gatgccacat cctgagcaaa taattcaacc actaattgtg 5400agcggataac
acaaggagga aacagctatg tcattaccgt tcttaacttc tgcaccggga
5460aaggttatta tttttggtga acactctgct gtgtacaaca agcctgccgt
cgctgctagt 5520gtgtctgcgt tgagaaccta cctgctaata agcgagtcat
ctgcaccaga tactattgaa 5580ttggacttcc cggacattag ctttaatcat
aagtggtcca tcaatgattt caatgccatc 5640accgaggatc aagtaaactc
ccaaaaattg gccaaggctc aacaagccac cgatggcttg 5700tctcaggaac
tcgttagtct tttggatccg ttgttagctc aactatccga atccttccac
5760taccatgcag cgttttgttt cctgtatatg tttgtttgcc tatgccccca
tgccaagaat 5820attaagtttt ctttaaagtc tactttaccc atcggtgctg
ggttgggctc aagcgcctct 5880atttctgtat cactggcctt agctatggcc
tacttggggg ggttaatagg atctaatgac 5940ttggaaaagc tgtcagaaaa
cgataagcat atagtgaatc aatgggcctt cataggtgaa 6000aagtgtattc
acggtacccc ttcaggaata gataacgctg tggccactta tggtaatgcc
6060ctgctatttg aaaaagactc acataatgga acaataaaca caaacaattt
taagttctta 6120gatgatttcc cagccattcc aatgatccta acctatacta
gaattccaag gtctacaaaa 6180gatcttgttg ctcgcgttcg tgtgttggtc
accgagaaat ttcctgaagt tatgaagcca 6240attctagatg ccatgggtga
atgtgcccta caaggcttag agatcatgac taagttaagt 6300aaatgtaaag
gcaccgatga cgaggctgta gaaactaata atgaactgta tgaacaacta
6360ttggaattga taagaataaa tcatggactg cttgtctcaa tcggtgtttc
tcatcctgga 6420ttagaactta ttaaaaatct gagcgatgat ttgagaattg
gctccacaaa acttaccggt 6480gctggtggcg gcggttgctc tttgactttg
ttacgaagag acattactca agagcaaatt 6540gacagcttca aaaagaaatt
gcaagatgat tttagttacg agacatttga aacagacttg 6600ggtgggactg
gctgctgttt gttaagcgca aaaaatttga ataaagatct taaaatcaaa
6660tccctagtat tccaattatt tgaaaataaa actaccacaa agcaacaaat
tgacgatcta 6720ttattgccag gaaacacgaa tttaccatgg acttcataag
ctaatttgcg ataggcctgc 6780acccttaagg aggaaaaaaa catgtcagag
ttgagagcct tcagtgcccc agggaaagcg 6840ttactagctg gtggatattt
agttttagat acaaaatatg aagcatttgt agtcggatta 6900tcggcaagaa
tgcatgctgt agcccatcct tacggttcat tgcaagggtc tgataagttt
6960gaagtgcgtg tgaaaagtaa acaatttaaa gatggggagt ggctgtacca
tataagtcct 7020aaaagtggct tcattcctgt ttcgataggc ggatctaaga
accctttcat tgaaaaagtt 7080atcgctaacg tatttagcta ctttaaacct
aacatggacg actactgcaa tagaaacttg 7140ttcgttattg atattttctc
tgatgatgcc taccattctc aggaggatag cgttaccgaa 7200catcgtggca
acagaagatt gagttttcat tcgcacagaa ttgaagaagt tcccaaaaca
7260gggctgggct cctcggcagg tttagtcaca gttttaacta cagctttggc
ctcctttttt 7320gtatcggacc tggaaaataa tgtagacaaa tatagagaag
ttattcataa tttagcacaa 7380gttgctcatt gtcaagctca gggtaaaatt
ggaagcgggt ttgatgtagc ggcggcagca 7440tatggatcta tcagatatag
aagattccca cccgcattaa tctctaattt gccagatatt 7500ggaagtgcta
cttacggcag taaactggcg catttggttg atgaagaaga ctggaatatt
7560acgattaaaa gtaaccattt accttcggga ttaactttat ggatgggcga
tattaagaat 7620ggttcagaaa cagtaaaact ggtccagaag gtaaaaaatt
ggtatgattc gcatatgcca 7680gaaagcttga aaatatatac agaactcgat
catgcaaatt ctagatttat ggatggacta 7740tctaaactag atcgcttaca
cgagactcat gacgattaca gcgatcagat atttgagtct 7800cttgagagga
atgactgtac ctgtcaaaag tatcctgaaa tcacagaagt tagagatgca
7860gttgccacaa ttagacgttc ctttagaaaa ataactaaag aatctggtgc
cgatatcgaa 7920cctcccgtac aaactagctt attggatgat tgccagacct
taaaaggagt tcttacttgc 7980ttaatacctg gtgctggtgg ttatgacgcc
attgcagtga ttactaagca agatgttgat 8040cttagggctc aaaccgctaa
tgacaaaaga ttttctaagg ttcaatggct ggatgtaact 8100caggctgact
ggggtgttag gaaagaaaaa gatccggaaa cttatcttga taaataactt
8160aaggtagctg catgcagaat tcgcccttaa ggaggaaaaa aaaatgaccg
tttacacagc 8220atccgttacc gcacccgtca acatcgcaac ccttaagtat
tgggggaaaa gggacacgaa 8280gttgaatctg cccaccaatt cgtccatatc
agtgacttta tcgcaagatg acctcagaac 8340gttgacctct gcggctactg
cacctgagtt tgaacgcgac actttgtggt taaatggaga 8400accacacagc
atcgacaatg aaagaactca aaattgtctg cgcgacctac gccaattaag
8460aaaggaaatg gaatcgaagg acgcctcatt gcccacatta tctcaatgga
aactccacat 8520tgtctccgaa aataactttc ctacagcagc tggtttagct
tcctccgctg ctggctttgc 8580tgcattggtc tctgcaattg ctaagttata
ccaattacca cagtcaactt cagaaatatc 8640tagaatagca agaaaggggt
ctggttcagc ttgtagatcg ttgtttggcg gatacgtggc 8700ctgggaaatg
ggaaaagctg aagatggtca tgattccatg gcagtacaaa tcgcagacag
8760ctctgactgg cctcagatga aagcttgtgt cctagttgtc agcgatatta
aaaaggatgt 8820gagttccact cagggtatgc aattgaccgt ggcaacctcc
gaactattta aagaaagaat 8880tgaacatgtc gtaccaaaga gatttgaagt
catgcgtaaa gccattgttg aaaaagattt 8940cgccaccttt gcaaaggaaa
caatgatgga ttccaactct ttccatgcca catgtttgga 9000ctctttccct
ccaatattct acatgaatga cacttccaag cgtatcatca gttggtgcca
9060caccattaat cagttttacg gagaaacaat cgttgcatac acgtttgatg
caggtccaaa 9120tgctgtgttg tactacttag ctgaaaatga gtcgaaactc
tttgcattta tctataaatt 9180gtttggctct gttcctggat gggacaagaa
atttactact gagcagcttg aggctttcaa 9240ccatcaattt gaatcatcta
actttactgc acgtgaattg gatcttgagt tgcaaaagga 9300tgttgccaga
gtgattttaa ctcaagtcgg ttcaggccca caagaaacaa acgaatcttt
9360gattgacgca aagactggtc taccaaagga ataagatcaa ttcgctgcat
cgcccttagg 9420aggtaaaaaa aaatgactgc cgacaacaat agtatgcccc
atggtgcagt atctagttac 9480gccaaattag tgcaaaacca aacacctgaa
gacattttgg aagagtttcc tgaaattatt 9540ccattacaac aaagacctaa
tacccgatct agtgagacgt caaatgacga aagcggagaa 9600acatgttttt
ctggtcatga tgaggagcaa attaagttaa tgaatgaaaa ttgtattgtt
9660ttggattggg acgataatgc tattggtgcc ggtaccaaga aagtttgtca
tttaatggaa 9720aatattgaaa agggtttact acatcgtgca ttctccgtct
ttattttcaa tgaacaaggt 9780gaattacttt tacaacaaag agccactgaa
aaaataactt tccctgatct ttggactaac 9840acatgctgct ctcatccact
atgtattgat gacgaattag gtttgaaggg taagctagac 9900gataagatta
agggcgctat tactgcggcg gtgagaaaac tagatcatga attaggtatt
9960ccagaagatg aaactaagac aaggggtaag tttcactttt taaacagaat
ccattacatg 10020gcaccaagca atgaaccatg gggtgaacat gaaattgatt
acatcctatt ttataagatc 10080aacgctaaag aaaacttgac tgtcaaccca
aacgtcaatg aagttagaga cttcaaatgg 10140gtttcaccaa atgatttgaa
aactatgttt gctgacccaa gttacaagtt tacgccttgg 10200tttaagatta
tttgcgagaa ttacttattc aactggtggg agcaattaga tgacctttct
10260gaagtggaaa atgacaggca aattcataga atgctataac aacgcgtcta
caaataaaaa 10320aggcacgtca gatgacgtgc cttttttctt ggggcc
10356266974DNAArtificial SequenceSynthetic Construct 26gtgcggccgc
aagcttgtcg acggagctcg aattcggatc cctgcagtta gacatacatc 60agctggttaa
tcgggaaagg gtcaatcagc agcagtttga tgcggttttc agtcgcgtag
120tctgggcgac ccagaccatc gccatactgg taggtgcagt gggaaacacg
tgccatgtta 180actgcgattt ccatgaacgc tttaggcagc agggtggagt
cgctaacgcg ttcacgattc 240atctttttcc attcggcgtc gatcagttta
cgcagttctt cgcgggcctg ttcctcgctg 300gtaccatcgt tttcgtgcat
gtagctaatg atagaattgg tagtctcgcc acgttccagc 360tccgccgcag
aggtggccag atcgttgcac aggcggaaga taacgcagct agaacgcacc
420agaccatgga agtcggtcag ggaacgcagc gcgtggtcgg agatgtcttc
ctgctgctgg 480catacggaaa agtaagacgg cgccagcagc gctacaccgg
aggaggaaac gctggcgttt 540tccaggtact tggagaaagc cgggataatt
ttgttgttgg accatttcgc ctcttgcaga 600aaggctttgc acagttcacg
ccagcttttc gtcagatagg acaggttgtt atgacctttc 660tctttcagaa
tagaatagga cgtgtcgtta acggtgttgt acagtgccag gaaacacagt
720ttcatatagt ccggcagggt gttaatagcg ttaacgtccc agcgctctac
agcatcggtg 780aacagttgca gttcgtccag agtgccataa acgtcataca
cgtcatcgat gatcgtcacc 840agaccaaaca ttttagtaac agctttgcga
cattcaccaa actgcgggtc tggcgccata 900cccagtgccc agaaataaac
ttccatcagg cggtcgcgta caaaatccag tttgctagcc 960aggcccatct
cggtccacca gcgggacaga tcttgcagct ctttctggtg cagggtctgt
1020accatgttaa aatccagctt cgccagctcc agcagcagct ggtgatgcgg
ttctttcggt 1080tcgtatttat ccaggaacca acgtgcctcc agacggtgca
gacgctggtg atatggcagt 1140tccagggcgt ggctcacttg ttctgcaacc
ttggtattaa tgccttcttt caggttgttc 1200ttcaggtggg tgatggaaaa
ggtacgcgcc tcctccagca ggttctcacc ctcgaaaccc 1260aggtaagacg
cttcatacag gctcagcagg ccttggacgt cacctttcag ttcaccgctg
1320aaaccacctt ctttatcctt gaaacgctca aaaacatcct gagaaacctc
gaaaccgtgc 1380tgacgcagca gacggaaaga cagagcggtt gcgtgcaggt
cagatttgtt ctttttgttt 1440tcgtccagca gtacgatgtt ttccagggct
ttaatgatgt ctttttcaaa tttgtaggtc 1500agacccaggc gctgcacatc
gtcgatcagc tccagcaggg acagcggctg ggtgtctaca 1560cggttgatca
tgcagcgaac ttcttcctcc agtttggtcg ctttctcctc cagcttttcc
1620actttcaggt cgttctccag ggattgcagg aattcgaaat tccacaggtt
tggctgatag 1680tttgcggaac gacgggaatt atgctcggta atctgagtaa
attgagaaga ggtcgcacac 1740atggtatatc tccttcttaa agttaaacaa
aattatttct agaggggaat tgttatccgc 1800tcacaattcc cctatagtga
gtcgtattaa tttcgcggga tcgagatctc gatcctctac 1860gccggacgca
tcgtggccgg catcaccggc gccacaggtg cggttgctgg cgcctatatc
1920gccgacatca ccgatgggga agatcgggct cgccacttcg ggctcatgag
cgcttgtttc 1980ggcgtgggta tggtggcagg ccccgtggcc gggggactgt
tgggcgccat ctccttgcat 2040gcaccattcc ttgcggcggc ggtgctcaac
ggcctcaacc tactactggg ctgcttccta 2100atgcaggagt cgcataaggg
agagcgtcga gatcccggac accatcgaat ggcgcaaaac 2160ctttcgcggt
atggcatgat agcgcccgga agagagtcaa ttcagggtgg tgaatgtgaa
2220accagtaacg ttatacgatg tcgcagagta tgccggtgtc tcttatcaga
ccgtttcccg 2280cgtggtgaac caggccagcc acgtttctgc gaaaacgcgg
gaaaaagtgg aagcggcgat 2340ggcggagctg aattacattc ccaaccgcgt
ggcacaacaa ctggcgggca aacagtcgtt 2400gctgattggc gttgccacct
ccagtctggc cctgcacgcg ccgtcgcaaa ttgtcgcggc 2460gattaaatct
cgcgccgatc aactgggtgc cagcgtggtg gtgtcgatgg tagaacgaag
2520cggcgtcgaa gcctgtaaag cggcggtgca caatcttctc gcgcaacgcg
tcagtgggct 2580gatcattaac tatccgctgg atgaccagga tgccattgct
gtggaagctg cctgcactaa 2640tgttccggcg ttatttcttg atgtctctga
ccagacaccc atcaacagta ttattttctc 2700ccatgaagac ggtacgcgac
tgggcgtgga gcatctggtc gcattgggtc accagcaaat 2760cgcgctgtta
gcgggcccat taagttctgt ctcggcgcgt ctgcgtctgg ctggctggca
2820taaatatctc actcgcaatc aaattcagcc gatagcggaa cgggaaggcg
actggagtgc 2880catgtccggt tttcaacaaa ccatgcaaat gctgaatgag
ggcatcgttc ccactgcgat 2940gctggttgcc aacgatcaga tggcgctggg
cgcaatgcgc gccattaccg agtccgggct 3000gcgcgttggt gcggatatct
cggtagtggg atacgacgat accgaagaca gctcatgtta 3060tatcccgccg
ttaaccacca tcaaacagga ttttcgcctg ctggggcaaa ccagcgtgga
3120ccgcttgctg caactctctc agggccaggc ggtgaagggc aatcagctgt
tgcccgtctc 3180actggtgaaa agaaaaacca ccctggcgcc caatacgcaa
accgcctctc cccgcgcgtt 3240ggccgattca ttaatgcagc tggcacgaca
ggtttcccga ctggaaagcg ggcagtgagc 3300gcaacgcaat taatgtaagt
tagctcactc attaggcacc gggatctcga ccgatgccct 3360tgagagcctt
caacccagtc agctccttcc ggtgggcgcg gggcatgact atcgtcgccg
3420cacttatgac tgtcttcttt atcatgcaac tcgtaggaca ggtgccggca
gcgctctggg 3480tcattttcgg cgaggaccgc tttcgctgga gcgcgacgat
gatcggcctg tcgcttgcgg 3540tattcggaat cttgcacgcc ctcgctcaag
ccttcgtcac tggtcccgcc accaaacgtt 3600tcggcgagaa gcaggccatt
atcgccggca tggcggcccc acgggtgcgc atgatcgtgc 3660tcctgtcgtt
gaggacccgg ctaggctggc ggggttgcct tactggttag cagaatgaat
3720caccgatacg cgagcgaacg tgaagcgact gctgctgcaa aacgtctgcg
acctgagcaa 3780caacatgaat ggtcttcggt ttccgtgttt cgtaaagtct
ggaaacgcgg aagtcagcgc 3840cctgcaccat tatgttccgg atctgcatcg
caggatgctg ctggctaccc tgtggaacac 3900ctacatctgt attaacgaag
cgctggcatt gaccctgagt gatttttctc tggtcccgcc 3960gcatccatac
cgccagttgt ttaccctcac aacgttccag taaccgggca tgttcatcat
4020cagtaacccg tatcgtgagc atcctctctc gtttcatcgg tatcattacc
cccatgaaca 4080gaaatccccc ttacacggag gcatcagtga ccaaacagga
aaaaaccgcc cttaacatgg 4140cccgctttat cagaagccag acattaacgc
ttctggagaa actcaacgag ctggacgcgg 4200atgaacaggc agacatctgt
gaatcgcttc acgaccacgc tgatgagctt taccgcagct 4260gcctcgcgcg
tttcggtgat gacggtgaaa acctctgaca catgcagctc ccggagacgg
4320tcacagcttg tctgtaagcg gatgccggga gcagacaagc ccgtcagggc
gcgtcagcgg 4380gtgttggcgg gtgtcggggc gcagccatga cccagtcacg
tagcgatagc ggagtgtata 4440ctggcttaac tatgcggcat cagagcagat
tgtactgaga gtgcaccata tatgcggtgt 4500gaaataccgc acagatgcgt
aaggagaaaa taccgcatca ggcgctcttc cgcttcctcg 4560ctcactgact
cgctgcgctc ggtcgttcgg ctgcggcgag cggtatcagc tcactcaaag
4620gcggtaatac ggttatccac agaatcaggg gataacgcag gaaagaacat
gtgagcaaaa 4680ggccagcaaa aggccaggaa ccgtaaaaag gccgcgttgc
tggcgttttt ccataggctc 4740cgcccccctg acgagcatca caaaaatcga
cgctcaagtc agaggtggcg aaacccgaca 4800ggactataaa gataccaggc
gtttccccct ggaagctccc tcgtgcgctc tcctgttccg 4860accctgccgc
ttaccggata cctgtccgcc tttctccctt cgggaagcgt ggcgctttct
4920catagctcac gctgtaggta tctcagttcg gtgtaggtcg ttcgctccaa
gctgggctgt 4980gtgcacgaac cccccgttca gcccgaccgc tgcgccttat
ccggtaacta tcgtcttgag 5040tccaacccgg taagacacga cttatcgcca
ctggcagcag ccactggtaa caggattagc 5100agagcgaggt atgtaggcgg
tgctacagag ttcttgaagt ggtggcctaa ctacggctac 5160actagaagga
cagtatttgg tatctgcgct ctgctgaagc cagttacctt cggaaaaaga
5220gttggtagct cttgatccgg caaacaaacc accgctggta gcggtggttt
ttttgtttgc 5280aagcagcaga ttacgcgcag aaaaaaagga tctcaagaag
atcctttgat cttttctacg 5340gggtctgacg ctcagtggaa cgaaaactca
cgttaaggga ttttggtcat gaacaataaa 5400actgtctgct tacataaaca
gtaatacaag gggtgttatg agccatattc aacgggaaac 5460gtcttgctct
aggccgcgat taaattccaa catggatgct gatttatatg ggtataaatg
5520ggctcgcgat aatgtcgggc aatcaggtgc gacaatctat cgattgtatg
ggaagcccga 5580tgcgccagag ttgtttctga aacatggcaa aggtagcgtt
gccaatgatg ttacagatga 5640gatggtcaga ctaaactggc tgacggaatt
tatgcctctt ccgaccatca agcattttat 5700ccgtactcct gatgatgcat
ggttactcac cactgcgatc cccgggaaaa cagcattcca 5760ggtattagaa
gaatatcctg attcaggtga aaatattgtt gatgcgctgg cagtgttcct
5820gcgccggttg cattcgattc ctgtttgtaa ttgtcctttt aacagcgatc
gcgtatttcg 5880tctcgctcag gcgcaatcac gaatgaataa cggtttggtt
gatgcgagtg attttgatga 5940cgagcgtaat ggctggcctg ttgaacaagt
ctggaaagaa atgcataaac ttttgccatt 6000ctcaccggat tcagtcgtca
ctcatggtga tttctcactt gataacctta tttttgacga 6060ggggaaatta
ataggttgta ttgatgttgg acgagtcgga atcgcagacc gataccagga
6120tcttgccatc ctatggaact gcctcggtga gttttctcct tcattacaga
aacggctttt 6180tcaaaaatat ggtattgata atcctgatat gaataaattg
cagtttcatt tgatgctcga 6240tgagtttttc taagaattaa ttcatgagcg
gatacatatt tgaatgtatt tagaaaaata 6300aacaaatagg ggttccgcgc
acatttcccc gaaaagtgcc acctgaaatt gtaaacgtta 6360atattttgtt
aaaattcgcg ttaaattttt gttaaatcag ctcatttttt aaccaatagg
6420ccgaaatcgg caaaatccct tataaatcaa aagaatagac cgagataggg
ttgagtgttg 6480ttccagtttg gaacaagagt ccactattaa agaacgtgga
ctccaacgtc aaagggcgaa 6540aaaccgtcta tcagggcgat ggcccactac
gtgaaccatc accctaatca agttttttgg 6600ggtcgaggtg ccgtaaagca
ctaaatcgga accctaaagg gagcccccga tttagagctt 6660gacggggaaa
gccggcgaac gtggcgagaa aggaagggaa gaaagcgaaa ggagcgggcg
6720ctagggcgct ggcaagtgta gcggtcacgc tgcgcgtaac caccacaccc
gccgcgctta 6780atgcgccgct acagggcgcg tcccattcgc caatccggat
atagttcctc ctttcagcaa 6840aaaacccctc aagacccgtt tagaggcccc
aaggggttat gctagttatt gctcagcggt 6900ggcagcagcc aactcagctt
cctttcgggc tttgttagca gccggatctc agtggtggtg 6960gtggtggtgc tcga
6974273913DNAArtificial SequenceSynthetic Construct 27gcggccgcgc
ccttgacgat gccacatcct gagcaaataa ttcaaccact aattgtgagc 60ggataacaca
aggaggaaac agccatggta tcctgttctg cgccgggtaa gatttacctg
120ttcggtgaac acgccgtagt ttatggcgaa actgcaattg cgtgtgcggt
ggaactgcgt 180acccgtgttc gcgcggaact caatgactct atcactattc
agagccagat cggccgcacc 240ggtctggatt
tcgaaaagca cccttatgtg tctgcggtaa ttgagaaaat gcgcaaatct
300attcctatta acggtgtttt cttgaccgtc gattccgaca tcccggtggg
ctccggtctg 360ggtagcagcg cagccgttac tatcgcgtct attggtgcgc
tgaacgagct gttcggcttt 420ggcctcagcc tgcaagaaat cgctaaactg
ggccacgaaa tcgaaattaa agtacagggt 480gccgcgtccc caaccgatac
gtatgtttct accttcggcg gcgtggttac catcccggaa 540cgtcgcaaac
tgaaaactcc ggactgcggc attgtgattg gcgataccgg cgttttctcc
600tccaccaaag agttagtagc taacgtacgt cagctgcgcg aaagctaccc
ggatttgatc 660gaaccgctga tgacctctat tggcaaaatc tctcgtatcg
gcgaacaact ggttctgtct 720ggcgactacg catccatcgg ccgcctgatg
aacgtcaacc agggtctcct ggacgccctg 780ggcgttaaca tcttagaact
gagccagctg atctattccg ctcgtgcggc aggtgcgttt 840ggcgctaaaa
tcacgggcgc tggcggcggt ggctgtatgg ttgcgctgac cgctccggaa
900aaatgcaacc aagtggcaga agcggtagca ggcgctggcg gtaaagtgac
tatcactaaa 960ccgaccgagc aaggtctgaa agtagattaa gccttgactt
aatagctgct tatttcgccc 1020ttatggtacc tagtaggagg aaaaaaacat
ggaaatgcgt caaccggctg tcgcaggtca 1080attctaccca ctgcgttgcg
agaacctgga aaacgaactg aaacgctgct tcgaaggcct 1140ggagatccgc
gaacaagaag tgctgggcgc agtctgtccg cacgccggtt atatgtactc
1200tggcaaagtt gcggcgcacg tctatgccac tctgccggaa gctgatacct
acgtaatctt 1260cggcccgaac cacaccggct acggtagccc tgtctctgtg
agccgtgaaa cttggaagac 1320cccgttgggc aatatcgatg ttgacctgga
actggcggac ggcttcctgg gttccatcgt 1380agatgcggat gaactcggtc
acaaatacga acactctatc gaagttcagc tgccgtttct 1440gcaataccgt
tttgaacgcg atttcaaaat tctgccaatc tgcatgggta tgcaagacga
1500agaaaccgcg gtcgaagtag gtaacctgct ggcggatctg atcagcgagt
ccggtaaacg 1560tgctgtgatc atcgcaagct ctgatttcac ccactatgag
acggctgaac gtgccaaaga 1620aatcgattcc gaagttattg attctatcct
gaactttgac atctctggca tgtacgatcg 1680cctgtatcgc cgtaacgcct
ctgtttgcgg ttacggcccg atcaccgcta tgctgacggc 1740aagcaaaaag
ctgggcggct ctcgtgcgac tttgctgaaa tacgcaaaca gcggtgacgt
1800gtccggtgat aaagacgctg tggtgggcta cgccgccatc atcgttgagt
aagctgatta 1860aaggttgaac agataggatt tcgtcatgga tcctacaagg
aggaaaaaaa catgaatgct 1920tctaatgaac cggtgattct gaaactgggt
ggctctgcta ttaccgacaa aggtgcctac 1980gaaggcgtag ttaaggaagc
tgatttgctg cgcatcgcac aggaagttag cggtttccgt 2040ggcaagatga
tcgtggttca tggtgctggt agcttcggcc atacgtacgc gaagaaatac
2100ggcctggacc gtaccttcga cccagagggc gcaattgtta ctcatgaatc
tgttaaaaag 2160ctcgcctcca aagttgtagg tgctctgaat agcttcggcg
tgcgtgctat cgcggtgcat 2220cctatggact gcgcagtatg ccgtaacggt
cgtatcgaaa cgatgtatct ggactccatc 2280aagttaatgc tggaaaaagg
tctggtgccg gttctgcacg gcgacgtcgc aatggatatt 2340gaactgggca
cttgtatcct gtccggtgat caaatcgttc cttacctggc caaagaactg
2400ggtatctccc gcctcggcct gggcagcgca gaggatggtg tgctggatat
ggagggcaaa 2460cctgtaccgg aaatcacccc agaaactttc gaagagttcc
gccactgcat cggtggttct 2520ggttctactg atgtaaccgg tggcatgctg
ggcaaagtgc tggaacttct ggaattgagc 2580aaaaattctt ccattactag
ctacattttc aacgctggta aagcagacaa catctaccgc 2640tttctgaatg
gtgagtccat cggcactcgc atcagcccgg acaagcgtgt ttaagctagt
2700tattaaccta aatgctctaa accagttatg agctctacaa ggaggaaaaa
aacatgatta 2760acactaccag ccgccgcaaa attgaacacc tgaaactctg
cgcagaatcc ccggttgaag 2820cgcgtcaggt atctgccggc tttgaagacg
ttactctgat ccaccgcgct ttaccggagc 2880tgaacatgga tgaactggac
ctcagcgttg atttcctggg taaacgcatc aaagcgccgt 2940tcctgattgc
gtctatcacg ggtggtcacc cagataccat cccggttaac gctgcgctgg
3000cagctgctgc tgaggagctg ggtgttggca tcggcgttgg ctctcagcgc
gcggccattg 3060atgatccgag ccaggaagac agcttccgtg tagtgcgtga
tgaagcccca gatgcgtttg 3120tttatggcaa cgtcggcgca gcacagatcc
gtcagtatgg tgttgaaggt gttgaaaaac 3180tgatcgaaat gattgacgca
gatgccttgg caatccacct gaactttctg caagaagcgg 3240tccaaccgga
aggtgaccgc gacgcgaccg gttgcctgga catgattacc gaaatttgct
3300ctcagattaa aactccggta atcgtgaaag aaaccggtgc aggcattagc
cgtgaagatg 3360cgattctgtt ccagaaagct ggcgtgagcg caatcgacgt
tggcggcgcg ggcggcacct 3420cctgggctgg cgtcgaggtc taccgtgcta
aagaaagccg tgactctgtt agcgagcgtt 3480taggtgagct gttttgggat
ttcggcattc cgacggtagc ttctctgatt gaatcccgcg 3540tttccttgcc
gctgatcgca accggcggta tccgtaacgg tctggacatt gctaaaagca
3600ttgctctcgg cgcaagcgct gccagcgccg ctctgccgtt cgttggtccg
tccctggagg 3660gcaaagaatc cgttgtacgt gtgctgagct gcatgctgga
agaatttaaa gcagcaatgt 3720ttttgtgcgg ttgcggcaac atcaaagacc
tgcacaactc tccagtagtg gtaactggtt 3780ggacccgcga atacctggag
cagcgcggtt ttaacgttaa ggacctctcc ctgccgggca 3840acgctctgta
agcttcaacg cgtctacaaa taaaaaaggc acgtcagatg acgtgccttt
3900tttcttgtct aga 3913286848DNAArtificial SequenceSynthetic
Construct 28gtttgacagc ttatcatcga ctgcacggtg caccaatgct tctggcgtca
ggcagccatc 60ggaagctgtg gtatggctgt gcaggtcgta aatcactgca taattcgtgt
cgctcaaggc 120gcactcccgt tctggataat gttttttgcg ccgacatcat
aacggttctg gcaaatattc 180tgaaatgagc tgttgacaat taatcatccg
gctcgtataa tgtgtggaat tgtgagcgga 240taacaatttc acacaggaaa
cagcgccgct gagaaaaagc gaagcggcac tgctctttaa 300caatttatca
gacaatctgt gtgggcactc gaccggaatt atcgattaac tttattatta
360aaaattaaag aggtatatat taatgtatcg attaaataag gaggaataaa
ccatgtgtgc 420gacctcttct caatttactc agattaccga gcataattcc
cgtcgttccg caaactatca 480gccaaacctg tggaatttcg aattcctgca
atccctggag aacgacctga aagtggaaaa 540gctggaggag aaagcgacca
aactggagga agaagttcgc tgcatgatca accgtgtaga 600cacccagccg
ctgtccctgc tggagctgat cgacgatgtg cagcgcctgg gtctgaccta
660caaatttgaa aaagacatca ttaaagccct ggaaaacatc gtactgctgg
acgaaaacaa 720aaagaacaaa tctgacctgc acgcaaccgc tctgtctttc
cgtctgctgc gtcagcacgg 780tttcgaggtt tctcaggatg tttttgagcg
tttcaaggat aaagaaggtg gtttcagcgg 840tgaactgaaa ggtgacgtcc
aaggcctgct gagcctgtat gaagcgtctt acctgggttt 900cgagggtgag
aacctgctgg aggaggcgcg taccttttcc atcacccacc tgaagaacaa
960cctgaaagaa ggcattaata ccaaggttgc agaacaagtg agccacgccc
tggaactgcc 1020atatcaccag cgtctgcacc gtctggaggc acgttggttc
ctggataaat acgaaccgaa 1080agaaccgcat caccagctgc tgctggagct
ggcgaagctg gattttaaca tggtacagac 1140cctgcaccag aaagagctgc
aagatctgtc ccgctggtgg accgagatgg gcctggctag 1200caaactggat
tttgtacgcg accgcctgat ggaagtttat ttctgggcac tgggtatggc
1260gccagacccg cagtttggtg aatgtcgcaa agctgttact aaaatgtttg
gtctggtgac 1320gatcatcgat gacgtgtatg acgtttatgg cactctggac
gaactgcaac tgttcaccga 1380tgctgtagag cgctgggacg ttaacgctat
taacaccctg ccggactata tgaaactgtg 1440tttcctggca ctgtacaaca
ccgttaacga cacgtcctat tctattctga aagagaaagg 1500tcataacaac
ctgtcctatc tgacgaaaag ctggcgtgaa ctgtgcaaag cctttctgca
1560agaggcgaaa tggtccaaca acaaaattat cccggctttc tccaagtacc
tggaaaacgc 1620cagcgtttcc tcctccggtg tagcgctgct ggcgccgtct
tacttttccg tatgccagca 1680gcaggaagac atctccgacc acgcgctgcg
ttccctgacc gacttccatg gtctggtgcg 1740ttctagctgc gttatcttcc
gcctgtgcaa cgatctggcc acctctgcgg cggagctgga 1800acgtggcgag
actaccaatt ctatcattag ctacatgcac gaaaacgatg gtaccagcga
1860ggaacaggcc cgcgaagaac tgcgtaaact gatcgacgcc gaatggaaaa
agatgaatcg 1920tgaacgcgtt agcgactcca ccctgctgcc taaagcgttc
atggaaatcg cagttaacat 1980ggcacgtgtt tcccactgca cctaccagta
tggcgatggt ctgggtcgcc cagactacgc 2040gactgaaaac cgcatcaaac
tgctgctgat tgaccctttc ccgattaacc agctgatgta 2100tgtctaactg
cataaaggag gtaaaaaaac atggtatcct gttctgcgcc gggtaagatt
2160tacctgttcg gtgaacacgc cgtagtttat ggcgaaactg caattgcgtg
tgcggtggaa 2220ctgcgtaccc gtgttcgcgc ggaactcaat gactctatca
ctattcagag ccagatcggc 2280cgcaccggtc tggatttcga aaagcaccct
tatgtgtctg cggtaattga gaaaatgcgc 2340aaatctattc ctattaacgg
tgttttcttg accgtcgatt ccgacatccc ggtgggctcc 2400ggtctgggta
gcagcgcagc cgttactatc gcgtctattg gtgcgctgaa cgagctgttc
2460ggctttggcc tcagcctgca agaaatcgct aaactgggcc acgaaatcga
aattaaagta 2520cagggtgccg cgtccccaac cgatacgtat gtttctacct
tcggcggcgt ggttaccatc 2580ccggaacgtc gcaaactgaa aactccggac
tgcggcattg tgattggcga taccggcgtt 2640ttctcctcca ccaaagagtt
agtagctaac gtacgtcagc tgcgcgaaag ctacccggat 2700ttgatcgaac
cgctgatgac ctctattggc aaaatctctc gtatcggcga acaactggtt
2760ctgtctggcg actacgcatc catcggccgc ctgatgaacg tcaaccaggg
tctcctggac 2820gccctgggcg ttaacatctt agaactgagc cagctgatct
attccgctcg tgcggcaggt 2880gcgtttggcg ctaaaatcac gggcgctggc
ggcggtggct gtatggttgc gctgaccgct 2940ccggaaaaat gcaaccaagt
ggcagaagcg gtagcaggcg ctggcggtaa agtgactatc 3000actaaaccga
ccgagcaagg tctgaaagta gattaaagtc tagttaaagt ttaaacggtc
3060tccagcttgg ctgttttggc ggatgagaga agattttcag cctgatacag
attaaatcag 3120aacgcagaag cggtctgata aaacagaatt tgcctggcgg
cagtagcgcg gtggtcccac 3180ctgaccccat gccgaactca gaagtgaaac
gccgtagcgc cgatggtagt gtggggtctc 3240cccatgcgag agtagggaac
tgccaggcat caaataaaac gaaaggctca gtcgaaagac 3300tgggcctttc
gttttatctg ttgtttgtcg gtgaacgctc tcctgagtag gacaaatccg
3360ccgggagcgg atttgaacgt tgcgaagcaa cggcccggag ggtggcgggc
aggacgcccg 3420ccataaactg ccaggcatca aattaagcag aaggccatcc
tgacggatgg cctttttgcg 3480tttctacaaa ctctttttgt ttatttttct
aaatacattc aaatatgtat ccgcttaacc 3540ggaattgcca gctggggcgc
cctctggtaa ggttgggaag ccctgcaaag taaactggat 3600ggctttctcg
ccgccaagga tctgatggcg caggggatca agctctgatc aagagacagg
3660atgaggatcg tttcgcatga ttgaacaaga tggattgcac gcaggttctc
cggccgcttg 3720ggtggagagg ctattcggct atgactgggc acaacagaca
atcggctgct ctgatgccgc 3780cgtgttccgg ctgtcagcgc aggggcgccc
ggttcttttt gtcaagaccg acctgtccgg 3840tgccctgaat gaactgcaag
acgaggcagc gcggctatcg tggctggcca cgacgggcgt 3900tccttgcgca
gctgtgctcg acgttgtcac tgaagcggga agggactggc tgctattggg
3960cgaagtgccg gggcaggatc tcctgtcatc tcaccttgct cctgccgaga
aagtatccat 4020catggctgat gcaatgcggc ggctgcatac gcttgatccg
gctacctgcc cattcgacca 4080ccaagcgaaa catcgcatcg agcgagcacg
tactcggatg gaagccggtc ttgtcgatca 4140ggatgatctg gacgaagagc
atcaggggct cgcgccagcc gaactgttcg ccaggctcaa 4200ggcgagcatg
cccgacggcg aggatctcgt cgtgacccat ggcgatgcct gcttgccgaa
4260tatcatggtg gaaaatggcc gcttttctgg attcatcgac tgtggccggc
tgggtgtggc 4320ggaccgctat caggacatag cgttggctac ccgtgatatt
gctgaagagc ttggcggcga 4380atgggctgac cgcttcctcg tgctttacgg
tatcgccgct cccgattcgc agcgcatcgc 4440cttctatcgc cttcttgacg
agttcttctg acgcatgacc aaaatccctt aacgtgagtt 4500ttcgttccac
tgagcgtcag accccgtaga aaagatcaaa ggatcttctt gagatccttt
4560ttttctgcgc gtaatctgct gcttgcaaac aaaaaaacca ccgctaccag
cggtggtttg 4620tttgccggat caagagctac caactctttt tccgaaggta
actggcttca gcagagcgca 4680gataccaaat actgtccttc tagtgtagcc
gtagttaggc caccacttca agaactctgt 4740agcaccgcct acatacctcg
ctctgctaat cctgttacca gtggctgctg ccagtggcga 4800taagtcgtgt
cttaccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc
4860gggctgaacg gggggttcgt gcacacagcc cagcttggag cgaacgacct
acaccgaact 4920gagataccta cagcgtgagc tatgagaaag cgccacgctt
cccgaaggga gaaaggcgga 4980caggtatccg gtaagcggca gggtcggaac
aggagagcgc acgagggagc ttccaggggg 5040aaacgcctgg tatctttata
gtcctgtcgg gtttcgccac ctctgacttg agcgtcgatt 5100tttgtgatgc
tcgtcagggg ggcggagcct atggaaaaac gccagcaacg cggccttttt
5160acggttcctg gccttttgct ggccttttgc tcacatgttc tttcctgcgt
tatcccctga 5220ttctgtggat aaccgtatta ccgcctttga gtgagctgat
accgctcgcc gcagccgaac 5280gaccgagcgc agcgagtcag tgagcgagga
agcggaagag cgcctgatgc ggtattttct 5340ccttacgcat ctgtgcggta
tttcacaccg catatggtgc actctcagta caatctgctc 5400tgatgccgca
tagttaagcc agtatacact ccgctatcgc tacgtgactg ggtcatggct
5460gcgccccgac acccgccaac acccgctgac gcgccctgac gggcttgtct
gctcccggca 5520tccgcttaca gacaagctgt gaccgtctcc gggagctgca
tgtgtcagag gttttcaccg 5580tcatcaccga aacgcgcgag gcagcagatc
aattcgcgcg cgaaggcgaa gcggcatgca 5640tttacgttga caccatcgaa
tggtgcaaaa cctttcgcgg tatggcatga tagcgcccgg 5700aagagagtca
attcagggtg gtgaatgtga aaccagtaac gttatacgat gtcgcagagt
5760atgccggtgt ctcttatcag accgtttccc gcgtggtgaa ccaggccagc
cacgtttctg 5820cgaaaacgcg ggaaaaagtg gaagcggcga tggcggagct
gaattacatt cccaaccgcg 5880tggcacaaca actggcgggc aaacagtcgt
tgctgattgg cgttgccacc tccagtctgg 5940ccctgcacgc gccgtcgcaa
attgtcgcgg cgattaaatc tcgcgccgat caactgggtg 6000ccagcgtggt
ggtgtcgatg gtagaacgaa gcggcgtcga agcctgtaaa gcggcggtgc
6060acaatcttct cgcgcaacgc gtcagtgggc tgatcattaa ctatccgctg
gatgaccagg 6120atgccattgc tgtggaagct gcctgcacta atgttccggc
gttatttctt gatgtctctg 6180accagacacc catcaacagt attattttct
cccatgaaga cggtacgcga ctgggcgtgg 6240agcatctggt cgcattgggt
caccagcaaa tcgcgctgtt agcgggccca ttaagttctg 6300tctcggcgcg
tctgcgtctg gctggctggc ataaatatct cactcgcaat caaattcagc
6360cgatagcgga acgggaaggc gactggagtg ccatgtccgg ttttcaacaa
accatgcaaa 6420tgctgaatga gggcatcgtt cccactgcga tgctggttgc
caacgatcag atggcgctgg 6480gcgcaatgcg cgccattacc gagtccgggc
tgcgcgttgg tgcggatatc tcggtagtgg 6540gatacgacga taccgaagac
agctcatgtt atatcccgcc gtcaaccacc atcaaacagg 6600attttcgcct
gctggggcaa accagcgtgg accgcttgct gcaactctct cagggccagg
6660cggtgaaggg caatcagctg ttgcccgtct cactggtgaa aagaaaaacc
accctggcgc 6720ccaatacgca aaccgcctct ccccgcgcgt tggccgattc
attaatgcag ctggcacgac 6780aggtttcccg actggaaagc gggcagtgag
cgcaacgcaa ttaatgtgag ttagcgcgaa 6840ttgatctg
6848296647DNAArtificial SequenceSynthetic Construct 29aagggcgagc
tcaacgatcc ggctgctaac aaagcccgaa aggaagctga gttggctgct 60gccaccgctg
agcaataact agcataaccc cttggggcct ctaaacgggt cttgaggagt
120tttttgctga aaggaggaac tatatccgga tatcccgcaa gaggcccggc
agtaccggca 180taaccaagcc tatgcctaca gcatccaggg tgacggtgcc
gaggatgacg atgagcgcat 240tgttagattt catacacggt gcctgactgc
gttagcaatt taactgtgat aaactaccgc 300attaaagctt atcgatgata
agctgtcaaa catgagaatt aattcttgaa gacgaaaggg 360cctcgtgata
cgcctatttt tataggttaa tgtcatgata ataatggttt cttagacgtc
420aggtggcact tttcggggaa atgtgcgcgg aacccctatt tgtttatttt
tctaaataca 480ttcaaatatg tatccgctca tgagacaata accctgataa
atgcttcaat aatattgaaa 540aaggaagagt atgattgaac aagatggatt
gcacgcaggt tctccggccg cttgggtgga 600gaggctattc ggctatgact
gggcacaact gacaatcggc tgctctgatg ccgccgtgtt 660ccggctgtca
gcgcaggggc gcccggttct ttttgtcaag accgacctgt ccggtgccct
720gaatgaactg caggacgagg cagcgcggct atcgtggctg gccacgacgg
gcgttccttg 780cgcagctgtg ctcgacgttg tcactgaagc gggaagggac
tggctgctat tgggcgaagt 840gccggggcag gatctcctgt catctcacct
tgctcctgcc gagaaagtat ccatcatggc 900tgatgcaatg cggcggctgc
atacgcttga tccggctacc tgcccattcg accaccaagc 960gaaacatcgc
atcgagcggg cacgtactcg gatggaagcc ggtcttgtcg atcaggatga
1020tctggacgaa gagcatcagg ggctcgcgcc agccgaactg ttcgccaggc
tcaaggcgcg 1080catgcccgac ggcgaggatc tcgtcgtgac acatggcgat
gcctgcttgc cgaatatcat 1140ggtggaaaat ggccgctttt ctggattcat
cgactgtggc cggctgggtg tggcggaccg 1200ctatcaggac atagcgttgg
ctacccgtga tattgctgaa gagcttggcg gcgaatgggc 1260tgaccgcttc
ctcgtgcttt acggtatcgc cgctcccgat tcgcagcgca tcgccttcta
1320tcgccttctt gacgagttct tctgagcggg actctggggt tcgaaatgac
cgaccaagcg 1380acgcctaact gtcagaccaa gtttactcat atatacttta
gattgattta aaacttcatt 1440tttaatttaa aaggatctag gtgaagatcc
tttttgataa tctcatgacc aaaatccctt 1500aacgtgagtt ttcgttccac
tgagcgtcag accccgtaga aaagatcaaa ggatcttctt 1560gagatccttt
ttttctgcgc gtaatctgct gcttgcaaac aaaaaaacca ccgctaccag
1620cggtggtttg tttgccggat caagagctac caactctttt tccgaaggta
actggcttca 1680gcagagcgca gataccaaat actgtccttc tagtgtagcc
gtagttaggc caccacttca 1740agaactctgt agcaccgcct acatacctcg
ctctgctaat cctgttacca gtggctgctg 1800ccagtggcga taagtcgtgt
cttaccgggt tggactcaag acgatagtta ccggataagg 1860cgcagcggtc
gggctgaacg gggggttcgt gcacacagcc cagcttggag cgaacgacct
1920acaccgaact gagataccta cagcgtgagc tatgagaaag cgccacgctt
cccgaaggga 1980gaaaggcgga caggtatccg gtaagcggca gggtcggaac
aggagagcgc acgagggagc 2040ttccaggggg aaacgcctgg tatctttata
gtcctgtcgg gtttcgccac ctctgacttg 2100agcgtcgatt tttgtgatgc
tcgtcagggg ggcggagcct atggaaaaac gccagcaacg 2160cggccttttt
acggttcctg gccttttgct ggccttttgc tcacatgttc tttcctgcgt
2220tatcccctga ttctgtggat aaccgtatta ccgcctttga gtgagctgat
accgctcgcc 2280gcagccgaac gaccgagcgc agcgagtcag tgagcgagga
agcggaagag cgcctgatgc 2340ggtattttct ccttacgcat ctgtgcggta
tttcacaccg caatggtgca ctctcagtac 2400aatctgctct gatgccgcat
agttaagcca gtatacactc cgctatcgct acgtgactgg 2460gtcatggctg
cgccccgaca cccgccaaca cccgctgacg cgccctgacg ggcttgtctg
2520ctcccggcat ccgcttacag acaagctgtg accgtctccg ggagctgcat
gtgtcagagg 2580ttttcaccgt catcaccgaa acgcgcgagg cagctgcggt
aaagctcatc agcgtggtcg 2640tgaagcgatt cacagatgtc tgcctgttca
tccgcgtcca gctcgttgag tttctccaga 2700agcgttaatg tctggcttct
gataaagcgg gccatgttaa gggcggtttt ttcctgtttg 2760gtcactgatg
cctccgtgta agggggattt ctgttcatgg gggtaatgat accgatgaaa
2820cgagagagga tgctcacgat acgggttact gatgatgaac atgcccggtt
actggaacgt 2880tgtgagggta aacaactggc ggtatggatg cggcgggacc
agagaaaaat cactcagggt 2940caatgccagc gcttcgttaa tacagatgta
ggtgttccac agggtagcca gcagcatcct 3000gcgatgcaga tccggaacat
aatggtgcag ggcgctgact tccgcgtttc cagactttac 3060gaaacacgga
aaccgaagac cattcatgtt gttgctcagg tcgcagacgt tttgcagcag
3120cagtcgcttc acgttcgctc gcgtatcggt gattcattct gctaaccagt
aaggcaaccc 3180cgccagccta gccgggtcct caacgacagg agcacgatca
tgcgcacccg tggccaggac 3240ccaacgctgc ccgagatgcg ccgcgtgcgg
ctgctggaga tggcggacgc gatggatatg 3300ttctgccaag ggttggtttg
cgcattcaca gttctccgca agaattgatt ggctccaatt 3360cttggagtgg
tgaatccgtt agcgaggtgc cgccggcttc cattcaggtc gaggtggccc
3420ggctccatgc accgcgacgc aacgcgggga ggcagacaag gtatagggcg
gcgcctacaa 3480tccatgccaa cccgttccat gtgctcgccg aggcggcata
aatcgccgtg acgatcagcg 3540gtccaatgat cgaagttagg ctggtaagag
ccgcgagcga tccttgaagc tgtccctgat 3600ggtcgtcatc tacctgcctg
gacagcatgg cctgcaacgc gggcatcccg atgccgccgg 3660aagcgagaag
aatcataatg gggaaggcca tccagcctcg cgtcgcgaac gccagcaaga
3720cgtagcccag cgcgtcggcc gccatgccgg cgataatggc ctgcttctcg
ccgaaacgtt 3780tggtggcggg accagtgacg aaggcttgag cgagggcgtg
caagattccg aataccgcaa 3840gcgacaggcc gatcatcgtc gcgctccagc
gaaagcggtc ctcgccgaaa atgacccaga 3900gcgctgccgg cacctgtcct
acgagttgca tgataaagaa gacagtcata agtgcggcga 3960cgatagtcat
gccccgcgcc caccggaagg agctgactgg gttgaaggct ctcaagggca
4020tcggtcgaga tcccggtgcc taatgagtga gctaacttac attaattgcg
ttgcgctcac 4080tgcccgcttt ccagtcggga aacctgtcgt gccagctgca
ttaatgaatc ggccaacgcg 4140cggggagagg cggtttgcgt attgggcgcc
agggtggttt ttcttttcac cagtgagacg 4200ggcaacagct gattgccctt
caccgcctgg ccctgagaga gttgcagcaa gcggtccacg 4260ctggtttgcc
ccagcaggcg aaaatcctgt ttgatggtgg ttaacggcgg gatataacat
4320gagctgtctt
cggtatcgtc gtatcccact accgagatat ccgcaccaac gcgcagcccg
4380gactcggtaa tggcgcgcat tgcgcccagc gccatctgat cgttggcaac
cagcatcgca 4440gtgggaacga tgccctcatt cagcatttgc atggtttgtt
gaaaaccgga catggcactc 4500cagtcgcctt cccgttccgc tatcggctga
atttgattgc gagtgagata tttatgccag 4560ccagccagac gcagacgcgc
cgagacagaa cttaatgggc ccgctaacag cgcgatttgc 4620tggtgaccca
atgcgaccag atgctccacg cccagtcgcg taccgtcttc atgggagaaa
4680ataatactgt tgatgggtgt ctggtcagag acatcaagaa ataacgccgg
aacattagtg 4740caggcagctt ccacagcaat ggcatcctgg tcatccagcg
gatagttaat gatcagccca 4800ctgacgcgtt gcgcgagaag attgtgcacc
gccgctttac aggcttcgac gccgcttcgt 4860tctaccatcg acaccaccac
gctggcaccc agttgatcgg cgcgagattt aatcgccgcg 4920acaatttgcg
acggcgcgtg cagggccaga ctggaggtgg caacgccaat cagcaacgac
4980tgtttgcccg ccagttgttg tgccacgcgg ttgggaatgt aattcagctc
cgccatcgcc 5040gcttccactt tttcccgcgt tttcgcagaa acgtggctgg
cctggttcac cacgcgggaa 5100acggtctgat aagagacacc ggcatactct
gcgacatcgt ataacgttac tggtttcaca 5160ttcaccaccc tgaattgact
ctcttccggg cgctatcatg ccataccgcg aaaggttttg 5220cgccattcga
tggtgtccgg gatctcgacg ctctccctta tgcgactcct gcattaggaa
5280gcagcccagt agtaggttga ggccgttgag caccgccgcc gcaaggaatg
gtgcatgcaa 5340ggagatggcg cccaacagtc ccccggccac ggggcctgcc
accataccca cgccgaaaca 5400agcgctcatg agcccgaagt ggcgagcccg
atcttcccca tcggtgatgt cggcgatata 5460ggcgccagca accgcacctg
tggcgccggt gatgccggcc acgatgcgtc cggcgtagag 5520gatcgagatc
tcgatcccgc gaaattaata cgactcacta taggggaatt gtgagcggat
5580aacaattccc ctctagaaat aattttgttt aactttaaga aggagatata
catatgcggg 5640gttctcatca tcatcatcat catggtatgg ctagcatgac
tggtggacag caaatgggtc 5700gggatctgta cgacgatgac gataaggatc
atcccttcac catggtatcc tgttctgcgc 5760cgggtaagat ttacctgttc
ggtgaacacg ccgtagttta tggcgaaact gcaattgcgt 5820gtgcggtgga
actgcgtacc cgtgttcgcg cggaactcaa tgactctatc actattcaga
5880gccagatcgg ccgcaccggt ctggatttcg aaaagcaccc ttatgtgtct
gcggtaattg 5940agaaaatgcg caaatctatt cctattaacg gtgttttctt
gaccgtcgat tccgacatcc 6000cggtgggctc cggtctgggt agcagcgcag
ccgttactat cgcgtctatt ggtgcgctga 6060acgagctgtt cggctttggc
ctcagcctgc aagaaatcgc taaactgggc cacgaaatcg 6120aaattaaagt
acagggtgcc gcgtccccaa ccgatacgta tgtttctacc ttcggcggcg
6180tggttaccat cccggaacgt cgcaaactga aaactccgga ctgcggcatt
gtgattggcg 6240ataccggcgt tttctcctcc accaaagagt tagtagctaa
cgtacgtcag ctgcgcgaaa 6300gctacccgga tttgatcgaa ccgctgatga
cctctattgg caaaatctct cgtatcggcg 6360aacaactggt tctgtctggc
gactacgcat ccatcggccg cctgatgaac gtcaaccagg 6420gtctcctgga
cgccctgggc gttaacatct tagaactgag ccagctgatc tattccgctc
6480gtgcggcagg tgcgtttggc gctaaaatca cgggcgctgg cggcggtggc
tgtatggttg 6540cgctgaccgc tccggaaaaa tgcaaccaag tggcagaagc
ggtagcaggc gctggcggta 6600aagtgactat cactaaaccg accgagcaag
gtctgaaagt agattaa 6647306957DNAArtificial SequenceSynthetic
Construct 30tggcgaatgg gacgcgccct gtagcggcgc attaagcgcg gcgggtgtgg
tggttacgcg 60cagcgtgacc gctacacttg ccagcgccct agcgcccgct cctttcgctt
tcttcccttc 120ctttctcgcc acgttcgccg gctttccccg tcaagctcta
aatcgggggc tccctttagg 180gttccgattt agtgctttac ggcacctcga
ccccaaaaaa cttgattagg gtgatggttc 240acgtagtggg ccatcgccct
gatagacggt ttttcgccct ttgacgttgg agtccacgtt 300ctttaatagt
ggactcttgt tccaaactgg aacaacactc aaccctatct cggtctattc
360ttttgattta taagggattt tgccgatttc ggcctattgg ttaaaaaatg
agctgattta 420acaaaaattt aacgcgaatt ttaacaaaat attaacgttt
acaatttcag gtggcacttt 480tcggggaaat gtgcgcggaa cccctatttg
tttatttttc taaatacatt caaatatgta 540tccgctcatg aattaattct
tagaaaaact catcgagcat caaatgaaac tgcaatttat 600tcatatcagg
attatcaata ccatattttt gaaaaagccg tttctgtaat gaaggagaaa
660actcaccgag gcagttccat aggatggcaa gatcctggta tcggtctgcg
attccgactc 720gtccaacatc aatacaacct attaatttcc cctcgtcaaa
aataaggtta tcaagtgaga 780aatcaccatg agtgacgact gaatccggtg
agaatggcaa aagtttatgc atttctttcc 840agacttgttc aacaggccag
ccattacgct cgtcatcaaa atcactcgca tcaaccaaac 900cgttattcat
tcgtgattgc gcctgagcga gacgaaatac gcgatcgctg ttaaaaggac
960aattacaaac aggaatcgaa tgcaaccggc gcaggaacac tgccagcgca
tcaacaatat 1020tttcacctga atcaggatat tcttctaata cctggaatgc
tgttttcccg gggatcgcag 1080tggtgagtaa ccatgcatca tcaggagtac
ggataaaatg cttgatggtc ggaagaggca 1140taaattccgt cagccagttt
agtctgacca tctcatctgt aacatcattg gcaacgctac 1200ctttgccatg
tttcagaaac aactctggcg catcgggctt cccatacaat cgatagattg
1260tcgcacctga ttgcccgaca ttatcgcgag cccatttata cccatataaa
tcagcatcca 1320tgttggaatt taatcgcggc ctagagcaag acgtttcccg
ttgaatatgg ctcataacac 1380cccttgtatt actgtttatg taagcagaca
gttttattgt tcatgaccaa aatcccttaa 1440cgtgagtttt cgttccactg
agcgtcagac cccgtagaaa agatcaaagg atcttcttga 1500gatccttttt
ttctgcgcgt aatctgctgc ttgcaaacaa aaaaaccacc gctaccagcg
1560gtggtttgtt tgccggatca agagctacca actctttttc cgaaggtaac
tggcttcagc 1620agagcgcaga taccaaatac tgtccttcta gtgtagccgt
agttaggcca ccacttcaag 1680aactctgtag caccgcctac atacctcgct
ctgctaatcc tgttaccagt ggctgctgcc 1740agtggcgata agtcgtgtct
taccgggttg gactcaagac gatagttacc ggataaggcg 1800cagcggtcgg
gctgaacggg gggttcgtgc acacagccca gcttggagcg aacgacctac
1860accgaactga gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc
cgaagggaga 1920aaggcggaca ggtatccggt aagcggcagg gtcggaacag
gagagcgcac gagggagctt 1980ccagggggaa acgcctggta tctttatagt
cctgtcgggt ttcgccacct ctgacttgag 2040cgtcgatttt tgtgatgctc
gtcagggggg cggagcctat ggaaaaacgc cagcaacgcg 2100gcctttttac
ggttcctggc cttttgctgg ccttttgctc acatgttctt tcctgcgtta
2160tcccctgatt ctgtggataa ccgtattacc gcctttgagt gagctgatac
cgctcgccgc 2220agccgaacga ccgagcgcag cgagtcagtg agcgaggaag
cggaagagcg cctgatgcgg 2280tattttctcc ttacgcatct gtgcggtatt
tcacaccgca tatatggtgc actctcagta 2340caatctgctc tgatgccgca
tagttaagcc agtatacact ccgctatcgc tacgtgactg 2400ggtcatggct
gcgccccgac acccgccaac acccgctgac gcgccctgac gggcttgtct
2460gctcccggca tccgcttaca gacaagctgt gaccgtctcc gggagctgca
tgtgtcagag 2520gttttcaccg tcatcaccga aacgcgcgag gcagctgcgg
taaagctcat cagcgtggtc 2580gtgaagcgat tcacagatgt ctgcctgttc
atccgcgtcc agctcgttga gtttctccag 2640aagcgttaat gtctggcttc
tgataaagcg ggccatgtta agggcggttt tttcctgttt 2700ggtcactgat
gcctccgtgt aagggggatt tctgttcatg ggggtaatga taccgatgaa
2760acgagagagg atgctcacga tacgggttac tgatgatgaa catgcccggt
tactggaacg 2820ttgtgagggt aaacaactgg cggtatggat gcggcgggac
cagagaaaaa tcactcaggg 2880tcaatgccag cgcttcgtta atacagatgt
aggtgttcca cagggtagcc agcagcatcc 2940tgcgatgcag atccggaaca
taatggtgca gggcgctgac ttccgcgttt ccagacttta 3000cgaaacacgg
aaaccgaaga ccattcatgt tgttgctcag gtcgcagacg ttttgcagca
3060gcagtcgctt cacgttcgct cgcgtatcgg tgattcattc tgctaaccag
taaggcaacc 3120ccgccagcct agccgggtcc tcaacgacag gagcacgatc
atgcgcaccc gtggggccgc 3180catgccggcg ataatggcct gcttctcgcc
gaaacgtttg gtggcgggac cagtgacgaa 3240ggcttgagcg agggcgtgca
agattccgaa taccgcaagc gacaggccga tcatcgtcgc 3300gctccagcga
aagcggtcct cgccgaaaat gacccagagc gctgccggca cctgtcctac
3360gagttgcatg ataaagaaga cagtcataag tgcggcgacg atagtcatgc
cccgcgccca 3420ccggaaggag ctgactgggt tgaaggctct caagggcatc
ggtcgagatc ccggtgccta 3480atgagtgagc taacttacat taattgcgtt
gcgctcactg cccgctttcc agtcgggaaa 3540cctgtcgtgc cagctgcatt
aatgaatcgg ccaacgcgcg gggagaggcg gtttgcgtat 3600tgggcgccag
ggtggttttt cttttcacca gtgagacggg caacagctga ttgcccttca
3660ccgcctggcc ctgagagagt tgcagcaagc ggtccacgct ggtttgcccc
agcaggcgaa 3720aatcctgttt gatggtggtt aacggcggga tataacatga
gctgtcttcg gtatcgtcgt 3780atcccactac cgagatatcc gcaccaacgc
gcagcccgga ctcggtaatg gcgcgcattg 3840cgcccagcgc catctgatcg
ttggcaacca gcatcgcagt gggaacgatg ccctcattca 3900gcatttgcat
ggtttgttga aaaccggaca tggcactcca gtcgccttcc cgttccgcta
3960tcggctgaat ttgattgcga gtgagatatt tatgccagcc agccagacgc
agacgcgccg 4020agacagaact taatgggccc gctaacagcg cgatttgctg
gtgacccaat gcgaccagat 4080gctccacgcc cagtcgcgta ccgtcttcat
gggagaaaat aatactgttg atgggtgtct 4140ggtcagagac atcaagaaat
aacgccggaa cattagtgca ggcagcttcc acagcaatgg 4200catcctggtc
atccagcgga tagttaatga tcagcccact gacgcgttgc gcgagaagat
4260tgtgcaccgc cgctttacag gcttcgacgc cgcttcgttc taccatcgac
accaccacgc 4320tggcacccag ttgatcggcg cgagatttaa tcgccgcgac
aatttgcgac ggcgcgtgca 4380gggccagact ggaggtggca acgccaatca
gcaacgactg tttgcccgcc agttgttgtg 4440ccacgcggtt gggaatgtaa
ttcagctccg ccatcgccgc ttccactttt tcccgcgttt 4500tcgcagaaac
gtggctggcc tggttcacca cgcgggaaac ggtctgataa gagacaccgg
4560catactctgc gacatcgtat aacgttactg gtttcacatt caccaccctg
aattgactct 4620cttccgggcg ctatcatgcc ataccgcgaa aggttttgcg
ccattcgatg gtgtccggga 4680tctcgacgct ctcccttatg cgactcctgc
attaggaagc agcccagtag taggttgagg 4740ccgttgagca ccgccgccgc
aaggaatggt gcatgcaagg agatggcgcc caacagtccc 4800ccggccacgg
ggcctgccac catacccacg ccgaaacaag cgctcatgag cccgaagtgg
4860cgagcccgat cttccccatc ggtgatgtcg gcgatatagg cgccagcaac
cgcacctgtg 4920gcgccggtga tgccggccac gatgcgtccg gcgtagagga
tcgagatctc gatcccgcga 4980aattaatacg actcactata ggggaattgt
gagcggataa caattcccct ctagaaataa 5040ttttgtttaa ctttaagaag
gagatataca tatgcgttgt agcgtgtcca ccgaaaatgt 5100gtctttcacc
gaaactgaaa ccgaagctcg tcgttctgcg aactacgaac ctaacagctg
5160ggactatgat tacctgctgt cctccgacac ggacgagtcc atcgaagtat
acaaagacaa 5220agcgaaaaag ctggaagccg aagttcgtcg cgagattaat
aacgaaaaag cagaatttct 5280gaccctgctg gaactgattg acaacgtcca
gcgcctgggc ctgggttacc gtttcgagtc 5340tgatatccgt ggtgcgctgg
atcgcttcgt ttcctccggc ggcttcgatg cggtaaccaa 5400gacttccctg
cacggtacgg cactgtcttt ccgtctgctg cgtcaacacg gttttgaggt
5460ttctcaggaa gcgttcagcg gcttcaaaga ccaaaacggc aacttcctgg
agaacctgaa 5520ggaagatatc aaagctatcc tgagcctgta cgaggccagc
ttcctggctc tggaaggcga 5580aaacatcctg gacgaggcga aggttttcgc
aatctctcat ctgaaagaac tgtctgaaga 5640aaagatcggt aaagagctgg
cagaacaggt gaaccatgca ctggaactgc cactgcatcg 5700ccgtactcag
cgtctggaag cagtatggtc tatcgaggcc taccgtaaaa aggaggacgc
5760gaatcaggtt ctgctggagc tggcaattct ggattacaac atgatccagt
ctgtatacca 5820gcgtgatctg cgtgaaacgt cccgttggtg gcgtcgtgtg
ggtctggcga ccaaactgca 5880ctttgctcgt gaccgcctga ttgagagctt
ctactgggcc gtgggtgtag cattcgaacc 5940gcaatactcc gactgccgta
actccgtcgc aaaaatgttt tctttcgtaa ccattatcga 6000cgatatctac
gatgtatacg gcaccctgga cgaactggag ctgtttactg atgcagttga
6060gcgttgggac gtaaacgcca tcaacgacct gccggattac atgaaactgt
gctttctggc 6120tctgtataac actattaacg aaatcgccta cgacaacctg
aaagataaag gtgagaacat 6180cctgccgtat ctgaccaaag cctgggctga
cctgtgcaac gctttcctgc aagaagccaa 6240gtggctgtac aacaaatcta
ctccgacctt tgacgactac ttcggcaacg catggaaatc 6300ctcttctggc
ccgctgcaac tggtgttcgc ttacttcgct gtcgtgcaga acattaaaaa
6360ggaagagatc gaaaacctgc aaaaatacca tgacaccatc tctcgtcctt
cccatatctt 6420ccgtctgtgc aatgacctgg ctagcgcgtc tgcggaaatt
gcgcgtggtg aaaccgcaaa 6480tagcgtttct tgttacatgc gcactaaagg
tatctccgaa gaactggcta ccgaaagcgt 6540gatgaatctg atcgatgaaa
cctggaaaaa gatgaacaag gaaaaactgg gtggtagcct 6600gttcgcgaaa
ccgttcgtgg aaaccgcgat caacctggca cgtcaatctc actgcactta
6660tcataacggc gacgcgcata cctctccgga tgagctgacc cgcaaacgcg
ttctgtctgt 6720aatcactgaa ccgattctgc cgtttgaacg ctaaggatcc
gaattcgagc tccgtcgaca 6780agcttgcggc cgcactcgag caccaccacc
accaccactg agatccggct gctaacaaag 6840cccgaaagga agctgagttg
gctgctgcca ccgctgagca ataactagca taaccccttg 6900gggcctctaa
acgggtcttg aggggttttt tgctgaaagg aggaactata tccggat
6957316957DNAArtificial SequenceSynthetic Construct 31tggcgaatgg
gacgcgccct gtagcggcgc attaagcgcg gcgggtgtgg tggttacgcg 60cagcgtgacc
gctacacttg ccagcgccct agcgcccgct cctttcgctt tcttcccttc
120ctttctcgcc acgttcgccg gctttccccg tcaagctcta aatcgggggc
tccctttagg 180gttccgattt agtgctttac ggcacctcga ccccaaaaaa
cttgattagg gtgatggttc 240acgtagtggg ccatcgccct gatagacggt
ttttcgccct ttgacgttgg agtccacgtt 300ctttaatagt ggactcttgt
tccaaactgg aacaacactc aaccctatct cggtctattc 360ttttgattta
taagggattt tgccgatttc ggcctattgg ttaaaaaatg agctgattta
420acaaaaattt aacgcgaatt ttaacaaaat attaacgttt acaatttcag
gtggcacttt 480tcggggaaat gtgcgcggaa cccctatttg tttatttttc
taaatacatt caaatatgta 540tccgctcatg aattaattct tagaaaaact
catcgagcat caaatgaaac tgcaatttat 600tcatatcagg attatcaata
ccatattttt gaaaaagccg tttctgtaat gaaggagaaa 660actcaccgag
gcagttccat aggatggcaa gatcctggta tcggtctgcg attccgactc
720gtccaacatc aatacaacct attaatttcc cctcgtcaaa aataaggtta
tcaagtgaga 780aatcaccatg agtgacgact gaatccggtg agaatggcaa
aagtttatgc atttctttcc 840agacttgttc aacaggccag ccattacgct
cgtcatcaaa atcactcgca tcaaccaaac 900cgttattcat tcgtgattgc
gcctgagcga gacgaaatac gcgatcgctg ttaaaaggac 960aattacaaac
aggaatcgaa tgcaaccggc gcaggaacac tgccagcgca tcaacaatat
1020tttcacctga atcaggatat tcttctaata cctggaatgc tgttttcccg
gggatcgcag 1080tggtgagtaa ccatgcatca tcaggagtac ggataaaatg
cttgatggtc ggaagaggca 1140taaattccgt cagccagttt agtctgacca
tctcatctgt aacatcattg gcaacgctac 1200ctttgccatg tttcagaaac
aactctggcg catcgggctt cccatacaat cgatagattg 1260tcgcacctga
ttgcccgaca ttatcgcgag cccatttata cccatataaa tcagcatcca
1320tgttggaatt taatcgcggc ctagagcaag acgtttcccg ttgaatatgg
ctcataacac 1380cccttgtatt actgtttatg taagcagaca gttttattgt
tcatgaccaa aatcccttaa 1440cgtgagtttt cgttccactg agcgtcagac
cccgtagaaa agatcaaagg atcttcttga 1500gatccttttt ttctgcgcgt
aatctgctgc ttgcaaacaa aaaaaccacc gctaccagcg 1560gtggtttgtt
tgccggatca agagctacca actctttttc cgaaggtaac tggcttcagc
1620agagcgcaga taccaaatac tgtccttcta gtgtagccgt agttaggcca
ccacttcaag 1680aactctgtag caccgcctac atacctcgct ctgctaatcc
tgttaccagt ggctgctgcc 1740agtggcgata agtcgtgtct taccgggttg
gactcaagac gatagttacc ggataaggcg 1800cagcggtcgg gctgaacggg
gggttcgtgc acacagccca gcttggagcg aacgacctac 1860accgaactga
gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga
1920aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac
gagggagctt 1980ccagggggaa acgcctggta tctttatagt cctgtcgggt
ttcgccacct ctgacttgag 2040cgtcgatttt tgtgatgctc gtcagggggg
cggagcctat ggaaaaacgc cagcaacgcg 2100gcctttttac ggttcctggc
cttttgctgg ccttttgctc acatgttctt tcctgcgtta 2160tcccctgatt
ctgtggataa ccgtattacc gcctttgagt gagctgatac cgctcgccgc
2220agccgaacga ccgagcgcag cgagtcagtg agcgaggaag cggaagagcg
cctgatgcgg 2280tattttctcc ttacgcatct gtgcggtatt tcacaccgca
tatatggtgc actctcagta 2340caatctgctc tgatgccgca tagttaagcc
agtatacact ccgctatcgc tacgtgactg 2400ggtcatggct gcgccccgac
acccgccaac acccgctgac gcgccctgac gggcttgtct 2460gctcccggca
tccgcttaca gacaagctgt gaccgtctcc gggagctgca tgtgtcagag
2520gttttcaccg tcatcaccga aacgcgcgag gcagctgcgg taaagctcat
cagcgtggtc 2580gtgaagcgat tcacagatgt ctgcctgttc atccgcgtcc
agctcgttga gtttctccag 2640aagcgttaat gtctggcttc tgataaagcg
ggccatgtta agggcggttt tttcctgttt 2700ggtcactgat gcctccgtgt
aagggggatt tctgttcatg ggggtaatga taccgatgaa 2760acgagagagg
atgctcacga tacgggttac tgatgatgaa catgcccggt tactggaacg
2820ttgtgagggt aaacaactgg cggtatggat gcggcgggac cagagaaaaa
tcactcaggg 2880tcaatgccag cgcttcgtta atacagatgt aggtgttcca
cagggtagcc agcagcatcc 2940tgcgatgcag atccggaaca taatggtgca
gggcgctgac ttccgcgttt ccagacttta 3000cgaaacacgg aaaccgaaga
ccattcatgt tgttgctcag gtcgcagacg ttttgcagca 3060gcagtcgctt
cacgttcgct cgcgtatcgg tgattcattc tgctaaccag taaggcaacc
3120ccgccagcct agccgggtcc tcaacgacag gagcacgatc atgcgcaccc
gtggggccgc 3180catgccggcg ataatggcct gcttctcgcc gaaacgtttg
gtggcgggac cagtgacgaa 3240ggcttgagcg agggcgtgca agattccgaa
taccgcaagc gacaggccga tcatcgtcgc 3300gctccagcga aagcggtcct
cgccgaaaat gacccagagc gctgccggca cctgtcctac 3360gagttgcatg
ataaagaaga cagtcataag tgcggcgacg atagtcatgc cccgcgccca
3420ccggaaggag ctgactgggt tgaaggctct caagggcatc ggtcgagatc
ccggtgccta 3480atgagtgagc taacttacat taattgcgtt gcgctcactg
cccgctttcc agtcgggaaa 3540cctgtcgtgc cagctgcatt aatgaatcgg
ccaacgcgcg gggagaggcg gtttgcgtat 3600tgggcgccag ggtggttttt
cttttcacca gtgagacggg caacagctga ttgcccttca 3660ccgcctggcc
ctgagagagt tgcagcaagc ggtccacgct ggtttgcccc agcaggcgaa
3720aatcctgttt gatggtggtt aacggcggga tataacatga gctgtcttcg
gtatcgtcgt 3780atcccactac cgagatatcc gcaccaacgc gcagcccgga
ctcggtaatg gcgcgcattg 3840cgcccagcgc catctgatcg ttggcaacca
gcatcgcagt gggaacgatg ccctcattca 3900gcatttgcat ggtttgttga
aaaccggaca tggcactcca gtcgccttcc cgttccgcta 3960tcggctgaat
ttgattgcga gtgagatatt tatgccagcc agccagacgc agacgcgccg
4020agacagaact taatgggccc gctaacagcg cgatttgctg gtgacccaat
gcgaccagat 4080gctccacgcc cagtcgcgta ccgtcttcat gggagaaaat
aatactgttg atgggtgtct 4140ggtcagagac atcaagaaat aacgccggaa
cattagtgca ggcagcttcc acagcaatgg 4200catcctggtc atccagcgga
tagttaatga tcagcccact gacgcgttgc gcgagaagat 4260tgtgcaccgc
cgctttacag gcttcgacgc cgcttcgttc taccatcgac accaccacgc
4320tggcacccag ttgatcggcg cgagatttaa tcgccgcgac aatttgcgac
ggcgcgtgca 4380gggccagact ggaggtggca acgccaatca gcaacgactg
tttgcccgcc agttgttgtg 4440ccacgcggtt gggaatgtaa ttcagctccg
ccatcgccgc ttccactttt tcccgcgttt 4500tcgcagaaac gtggctggcc
tggttcacca cgcgggaaac ggtctgataa gagacaccgg 4560catactctgc
gacatcgtat aacgttactg gtttcacatt caccaccctg aattgactct
4620cttccgggcg ctatcatgcc ataccgcgaa aggttttgcg ccattcgatg
gtgtccggga 4680tctcgacgct ctcccttatg cgactcctgc attaggaagc
agcccagtag taggttgagg 4740ccgttgagca ccgccgccgc aaggaatggt
gcatgcaagg agatggcgcc caacagtccc 4800ccggccacgg ggcctgccac
catacccacg ccgaaacaag cgctcatgag cccgaagtgg 4860cgagcccgat
cttccccatc ggtgatgtcg gcgatatagg cgccagcaac cgcacctgtg
4920gcgccggtga tgccggccac gatgcgtccg gcgtagagga tcgagatctc
gatcccgcga 4980aattaatacg actcactata ggggaattgt gagcggataa
caattcccct ctagaaataa 5040ttttgtttaa ctttaagaag gagatataca
tatgcgttgt agcgtgtcca ccgaaaatgt 5100gtctttcacc gaaactgaaa
ccgaaacgcg tcgttctgcg aactacgaac ctaacagctg 5160ggactatgat
tacctgctgt cctccgacac ggacgagtcc atcgaagtat acaaagacaa
5220agcgaaaaag ctggaagccg aagttcgtcg cgagattaat aacgaaaaag
cagaatttct 5280gaccctgccg gaactgattg acaacgtcca gcgcctgggc
ctgggttacc gtttcgagtc 5340tgatatccgt cgtgcgctgg atcgcttcgt
ttcctccggc ggcttcgatg cggtaaccaa 5400gacttccctg cacgcgacgg
cactgtcttt ccgtctgctg cgtcaacacg gttttgaggt 5460ttctcaggaa
gcgttcagcg gcttcaaaga ccaaaacggc aacttcctga aaaacctgaa
5520ggaagatatc aaagctatcc tgagcctgta cgaggccagc ttcctggctc
tggaaggcga 5580aaacatcctg gacgaggcga aggttttcgc aatctctcat
ctgaaagaac tgtctgaaga 5640aaagatcggt
aaagatctgg cagaacaggt gaaccatgca ctggaactgc cactgcatcg
5700ccgtactcag cgtctggaag cagtatggtc tatcgaggcc taccgtaaaa
aggaggacgc 5760ggatcaggtt ctgctggagc tggcaattct ggattacaac
atgatccagt ctgtatacca 5820gcgtgatctg cgtgaaacgt cccgttggtg
gcgtcgtgtg ggtctggcga ccaaactgca 5880ctttgctcgt gaccgcctga
ttgagagctt ctactgggcc gtgggtgtag cattcgaacc 5940gcaatactcc
gactgccgta actccgtcgc aaaaatgttt tctttcgtaa ccattatcga
6000cgatatctac gatgtatacg gcaccctgga cgaactggag ctgtttactg
acgcagttga 6060gcgttgggac gtaaacgcca tcgacgatct gccggattac
atgaaactgt gctttctggc 6120tctgtataac actattaacg aaatcgccta
cgacaacctg aaagataaag gtgagaacat 6180cctgccgtat ctgaccaaag
cctgggctga cctgtgcaac gctttcctgc aagaagccaa 6240gtggctgtac
aacaaatcta ctccgacctt tgacgaatac ttcggcaacg catggaaatc
6300ctcttctggc ccgctgcaac tggtgttcgc ttacttcgct gtcgtgcaga
acattaaaaa 6360ggaagagatc gataacctgc aaaaatacca tgacatcatc
tctcgtcctt cccatatctt 6420ccgtctgtgc aatgacctgg ctagcgcgtc
tgcggaaatt gcgcgtggtg aaaccgcaaa 6480tagcgtttct tgttacatgc
gcactaaagg tatctccgaa gaactggcta ccgaaagcgt 6540gatgaatctg
atcgatgaaa cctggaaaaa gatgaacaag gaaaaactgg gtggtagcct
6600gttcgcgaaa ccgttcgtgg aaaccgcgat caacctggca cgtcaatctc
actgcactta 6660tcataacggc gacgcgcata cctctccgga tgagctgacc
cgcaaacgcg ttctgtctgt 6720aatcactgaa ccgattctgc cgtttgaacg
ctaaggatcc gaattcgagc tccgtcgaca 6780agcttgcggc cgcactcgag
caccaccacc accaccactg agatccggct gctaacaaag 6840cccgaaagga
agctgagttg gctgctgcca ccgctgagca ataactagca taaccccttg
6900gggcctctaa acgggtcttg aggggttttt tgctgaaagg aggaactata tccggat
6957326957DNAArtificial SequenceSynthetic Construct 32tggcgaatgg
gacgcgccct gtagcggcgc attaagcgcg gcgggtgtgg tggttacgcg 60cagcgtgacc
gctacacttg ccagcgccct agcgcccgct cctttcgctt tcttcccttc
120ctttctcgcc acgttcgccg gctttccccg tcaagctcta aatcgggggc
tccctttagg 180gttccgattt agtgctttac ggcacctcga ccccaaaaaa
cttgattagg gtgatggttc 240acgtagtggg ccatcgccct gatagacggt
ttttcgccct ttgacgttgg agtccacgtt 300ctttaatagt ggactcttgt
tccaaactgg aacaacactc aaccctatct cggtctattc 360ttttgattta
taagggattt tgccgatttc ggcctattgg ttaaaaaatg agctgattta
420acaaaaattt aacgcgaatt ttaacaaaat attaacgttt acaatttcag
gtggcacttt 480tcggggaaat gtgcgcggaa cccctatttg tttatttttc
taaatacatt caaatatgta 540tccgctcatg aattaattct tagaaaaact
catcgagcat caaatgaaac tgcaatttat 600tcatatcagg attatcaata
ccatattttt gaaaaagccg tttctgtaat gaaggagaaa 660actcaccgag
gcagttccat aggatggcaa gatcctggta tcggtctgcg attccgactc
720gtccaacatc aatacaacct attaatttcc cctcgtcaaa aataaggtta
tcaagtgaga 780aatcaccatg agtgacgact gaatccggtg agaatggcaa
aagtttatgc atttctttcc 840agacttgttc aacaggccag ccattacgct
cgtcatcaaa atcactcgca tcaaccaaac 900cgttattcat tcgtgattgc
gcctgagcga gacgaaatac gcgatcgctg ttaaaaggac 960aattacaaac
aggaatcgaa tgcaaccggc gcaggaacac tgccagcgca tcaacaatat
1020tttcacctga atcaggatat tcttctaata cctggaatgc tgttttcccg
gggatcgcag 1080tggtgagtaa ccatgcatca tcaggagtac ggataaaatg
cttgatggtc ggaagaggca 1140taaattccgt cagccagttt agtctgacca
tctcatctgt aacatcattg gcaacgctac 1200ctttgccatg tttcagaaac
aactctggcg catcgggctt cccatacaat cgatagattg 1260tcgcacctga
ttgcccgaca ttatcgcgag cccatttata cccatataaa tcagcatcca
1320tgttggaatt taatcgcggc ctagagcaag acgtttcccg ttgaatatgg
ctcataacac 1380cccttgtatt actgtttatg taagcagaca gttttattgt
tcatgaccaa aatcccttaa 1440cgtgagtttt cgttccactg agcgtcagac
cccgtagaaa agatcaaagg atcttcttga 1500gatccttttt ttctgcgcgt
aatctgctgc ttgcaaacaa aaaaaccacc gctaccagcg 1560gtggtttgtt
tgccggatca agagctacca actctttttc cgaaggtaac tggcttcagc
1620agagcgcaga taccaaatac tgtccttcta gtgtagccgt agttaggcca
ccacttcaag 1680aactctgtag caccgcctac atacctcgct ctgctaatcc
tgttaccagt ggctgctgcc 1740agtggcgata agtcgtgtct taccgggttg
gactcaagac gatagttacc ggataaggcg 1800cagcggtcgg gctgaacggg
gggttcgtgc acacagccca gcttggagcg aacgacctac 1860accgaactga
gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga
1920aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac
gagggagctt 1980ccagggggaa acgcctggta tctttatagt cctgtcgggt
ttcgccacct ctgacttgag 2040cgtcgatttt tgtgatgctc gtcagggggg
cggagcctat ggaaaaacgc cagcaacgcg 2100gcctttttac ggttcctggc
cttttgctgg ccttttgctc acatgttctt tcctgcgtta 2160tcccctgatt
ctgtggataa ccgtattacc gcctttgagt gagctgatac cgctcgccgc
2220agccgaacga ccgagcgcag cgagtcagtg agcgaggaag cggaagagcg
cctgatgcgg 2280tattttctcc ttacgcatct gtgcggtatt tcacaccgca
tatatggtgc actctcagta 2340caatctgctc tgatgccgca tagttaagcc
agtatacact ccgctatcgc tacgtgactg 2400ggtcatggct gcgccccgac
acccgccaac acccgctgac gcgccctgac gggcttgtct 2460gctcccggca
tccgcttaca gacaagctgt gaccgtctcc gggagctgca tgtgtcagag
2520gttttcaccg tcatcaccga aacgcgcgag gcagctgcgg taaagctcat
cagcgtggtc 2580gtgaagcgat tcacagatgt ctgcctgttc atccgcgtcc
agctcgttga gtttctccag 2640aagcgttaat gtctggcttc tgataaagcg
ggccatgtta agggcggttt tttcctgttt 2700ggtcactgat gcctccgtgt
aagggggatt tctgttcatg ggggtaatga taccgatgaa 2760acgagagagg
atgctcacga tacgggttac tgatgatgaa catgcccggt tactggaacg
2820ttgtgagggt aaacaactgg cggtatggat gcggcgggac cagagaaaaa
tcactcaggg 2880tcaatgccag cgcttcgtta atacagatgt aggtgttcca
cagggtagcc agcagcatcc 2940tgcgatgcag atccggaaca taatggtgca
gggcgctgac ttccgcgttt ccagacttta 3000cgaaacacgg aaaccgaaga
ccattcatgt tgttgctcag gtcgcagacg ttttgcagca 3060gcagtcgctt
cacgttcgct cgcgtatcgg tgattcattc tgctaaccag taaggcaacc
3120ccgccagcct agccgggtcc tcaacgacag gagcacgatc atgcgcaccc
gtggggccgc 3180catgccggcg ataatggcct gcttctcgcc gaaacgtttg
gtggcgggac cagtgacgaa 3240ggcttgagcg agggcgtgca agattccgaa
taccgcaagc gacaggccga tcatcgtcgc 3300gctccagcga aagcggtcct
cgccgaaaat gacccagagc gctgccggca cctgtcctac 3360gagttgcatg
ataaagaaga cagtcataag tgcggcgacg atagtcatgc cccgcgccca
3420ccggaaggag ctgactgggt tgaaggctct caagggcatc ggtcgagatc
ccggtgccta 3480atgagtgagc taacttacat taattgcgtt gcgctcactg
cccgctttcc agtcgggaaa 3540cctgtcgtgc cagctgcatt aatgaatcgg
ccaacgcgcg gggagaggcg gtttgcgtat 3600tgggcgccag ggtggttttt
cttttcacca gtgagacggg caacagctga ttgcccttca 3660ccgcctggcc
ctgagagagt tgcagcaagc ggtccacgct ggtttgcccc agcaggcgaa
3720aatcctgttt gatggtggtt aacggcggga tataacatga gctgtcttcg
gtatcgtcgt 3780atcccactac cgagatatcc gcaccaacgc gcagcccgga
ctcggtaatg gcgcgcattg 3840cgcccagcgc catctgatcg ttggcaacca
gcatcgcagt gggaacgatg ccctcattca 3900gcatttgcat ggtttgttga
aaaccggaca tggcactcca gtcgccttcc cgttccgcta 3960tcggctgaat
ttgattgcga gtgagatatt tatgccagcc agccagacgc agacgcgccg
4020agacagaact taatgggccc gctaacagcg cgatttgctg gtgacccaat
gcgaccagat 4080gctccacgcc cagtcgcgta ccgtcttcat gggagaaaat
aatactgttg atgggtgtct 4140ggtcagagac atcaagaaat aacgccggaa
cattagtgca ggcagcttcc acagcaatgg 4200catcctggtc atccagcgga
tagttaatga tcagcccact gacgcgttgc gcgagaagat 4260tgtgcaccgc
cgctttacag gcttcgacgc cgcttcgttc taccatcgac accaccacgc
4320tggcacccag ttgatcggcg cgagatttaa tcgccgcgac aatttgcgac
ggcgcgtgca 4380gggccagact ggaggtggca acgccaatca gcaacgactg
tttgcccgcc agttgttgtg 4440ccacgcggtt gggaatgtaa ttcagctccg
ccatcgccgc ttccactttt tcccgcgttt 4500tcgcagaaac gtggctggcc
tggttcacca cgcgggaaac ggtctgataa gagacaccgg 4560catactctgc
gacatcgtat aacgttactg gtttcacatt caccaccctg aattgactct
4620cttccgggcg ctatcatgcc ataccgcgaa aggttttgcg ccattcgatg
gtgtccggga 4680tctcgacgct ctcccttatg cgactcctgc attaggaagc
agcccagtag taggttgagg 4740ccgttgagca ccgccgccgc aaggaatggt
gcatgcaagg agatggcgcc caacagtccc 4800ccggccacgg ggcctgccac
catacccacg ccgaaacaag cgctcatgag cccgaagtgg 4860cgagcccgat
cttccccatc ggtgatgtcg gcgatatagg cgccagcaac cgcacctgtg
4920gcgccggtga tgccggccac gatgcgtccg gcgtagagga tcgagatctc
gatcccgcga 4980aattaatacg actcactata ggggaattgt gagcggataa
caattcccct ctagaaataa 5040ttttgtttaa ctttaagaag gagatataca
tatgcgttgt agcgtgtcca ccgaaaatgt 5100gtctttctct gaaactgaaa
ccgaaacgcg tcgttctgcg aactacgaac ctaacagctg 5160ggactatgat
tacctgctgt cctccgacac ggacgagtcc atcgaagtac acaaagacaa
5220agcgaaaaag ctggaagccg aagttcgtcg cgagattaat aacgaaaaag
cagaatttct 5280gaccctgctg gaactgattg acaacgtcca gcgcctgggc
ctgggttacc gtttcgagtc 5340tgatatccgt cgtgcgctgg atcgcttcgt
ttcctccggc ggcttcgatg gcgtaaccaa 5400gacttccctg cacggtacgg
cactgtcttt ccgtctgctg cgtcaacacg gttttgaggt 5460ttctcaggaa
gcgttcagcg gcttcaaaga ccaaaacggc aacttcctgg agaacctgaa
5520ggaagatatc aaagctatcc tgagcctgta cgaggccagc ttcctggctc
tggaaggcga 5580aaacatcctg gacgaggcga aggttttcgc aatctctcat
ctgaaagaac tgtctgaaga 5640aaagatcggt aaagagctgg cagaacaggt
gtcccatgca ctggaactgc cactgcatcg 5700ccgtactcag cgtctggaag
cagtatggtc tatcgaggcc taccgtaaaa aggaggacgc 5760gaaccaggtt
ctgctggagc tggcaattct ggattacaac atgatccagt ctgtatacca
5820gcgtgatctg cgtgaaacgt cccgttggtg gcgtcgtgtg ggtctggcga
ccaaactgca 5880ctttgctcgt gaccgcctga ttgagagctt ctactgggcc
gtgggtgtag cattcgaacc 5940gcaatactcc gactgccgta actccgtcgc
aaaaatgttt tctttcgtaa ccattatcga 6000cgatatctac gatgtatacg
gcaccctgga cgaactggag ctgtttactg atgcagttga 6060gcgttgggac
gtaaacgcca tcaacgacct gccggattac atgaaactgt gctttctggc
6120tctgtataac actattaacg aaatcgccta cgacaacctg aaagataaag
gtgagaacat 6180cctgccgtat ctgaccaaag cctgggctga cctgtgcaac
gctttcctgc aagaagccaa 6240gtggctgtac aacaaatcta ctccgacctt
tgacgactac ttcggcaacg catggaaatc 6300ctcttctggc ccgctgcaac
tgatcttcgc ttacttcgct gtcgtgcaga acattaaaaa 6360ggaagagatc
gaaaacctgc aaaaatacca tgacatcatc tctcgtcctt cccatatctt
6420ccgtctgtgc aatgacctgg ctagcgcgtc tgcggaaatt gcgcgtggtg
aaaccgcaaa 6480tagcgtttct tgttacatgc gcactaaagg tatctccgaa
gaactggcta ccgaaagcgt 6540gatgaatctg atcgatgaaa cctggaaaaa
gatgaacaag gaaaaactgg gtggtagcct 6600gttcgcgaaa ccgttcgtgg
aaaccgcgat caacctggca cgtcaatctc actgcactta 6660tcataacggc
gacgcgcata cctctccgga tgagctgacc cgcaaacgcg ttctgtctgt
6720aatcactgaa ccgattctgc cgtttgaacg ctaaggatcc gaattcgagc
tccgtcgaca 6780agcttgcggc cgcactcgag caccaccacc accaccactg
agatccggct gctaacaaag 6840cccgaaagga agctgagttg gctgctgcca
ccgctgagca ataactagca taaccccttg 6900gggcctctaa acgggtcttg
aggggttttt tgctgaaagg aggaactata tccggat 695733560PRTArtificial
SequenceSynthetic Construct 33Met Arg Cys Ser Val Ser Thr Glu Asn
Val Ser Phe Ser Glu Thr Glu1 5 10 15 Thr Glu Thr Arg Arg Ser Ala
Asn Tyr Glu Pro Asn Ser Trp Asp Tyr 20 25 30 Asp Tyr Leu Leu Ser
Ser Asp Thr Asp Glu Ser Ile Glu Val His Lys 35 40 45 Asp Lys Ala
Lys Lys Leu Glu Ala Glu Val Arg Arg Glu Ile Asn Asn 50 55 60 Glu
Lys Ala Glu Phe Leu Thr Leu Leu Glu Leu Ile Asp Asn Val Gln65 70 75
80 Arg Leu Gly Leu Gly Tyr Arg Phe Glu Ser Asp Ile Arg Arg Ala Leu
85 90 95 Asp Arg Phe Val Ser Ser Gly Gly Phe Asp Gly Val Thr Lys
Thr Ser 100 105 110 Leu His Gly Thr Ala Leu Ser Phe Arg Leu Leu Arg
Gln His Gly Phe 115 120 125 Glu Val Ser Gln Glu Ala Phe Ser Gly Phe
Lys Asp Gln Asn Gly Asn 130 135 140 Phe Leu Glu Asn Leu Lys Glu Asp
Ile Lys Ala Ile Leu Ser Leu Tyr145 150 155 160 Glu Ala Ser Phe Leu
Ala Leu Glu Gly Glu Asn Ile Leu Asp Glu Ala 165 170 175 Lys Val Phe
Ala Ile Ser His Leu Lys Glu Leu Ser Glu Glu Lys Ile 180 185 190 Gly
Lys Glu Leu Ala Glu Gln Val Ser His Ala Leu Glu Leu Pro Leu 195 200
205 His Arg Arg Thr Gln Arg Leu Glu Ala Val Trp Ser Ile Glu Ala Tyr
210 215 220 Arg Lys Lys Glu Asp Ala Asn Gln Val Leu Leu Glu Leu Ala
Ile Leu225 230 235 240 Asp Tyr Asn Met Ile Gln Ser Val Tyr Gln Arg
Asp Leu Arg Glu Thr 245 250 255 Ser Arg Trp Trp Arg Arg Val Gly Leu
Ala Thr Lys Leu His Phe Ala 260 265 270 Arg Asp Arg Leu Ile Glu Ser
Phe Tyr Trp Ala Val Gly Val Ala Phe 275 280 285 Glu Pro Gln Tyr Ser
Asp Cys Arg Asn Ser Val Ala Lys Met Phe Ser 290 295 300 Phe Val Thr
Ile Ile Asp Asp Ile Tyr Asp Val Tyr Gly Thr Leu Asp305 310 315 320
Glu Leu Glu Leu Phe Thr Asp Ala Val Glu Arg Trp Asp Val Asn Ala 325
330 335 Ile Asn Asp Leu Pro Asp Tyr Met Lys Leu Cys Phe Leu Ala Leu
Tyr 340 345 350 Asn Thr Ile Asn Glu Ile Ala Tyr Asp Asn Leu Lys Asp
Lys Gly Glu 355 360 365 Asn Ile Leu Pro Tyr Leu Thr Lys Ala Trp Ala
Asp Leu Cys Asn Ala 370 375 380 Phe Leu Gln Glu Ala Lys Trp Leu Tyr
Asn Lys Ser Thr Pro Thr Phe385 390 395 400 Asp Asp Tyr Phe Gly Asn
Ala Trp Lys Ser Ser Ser Gly Pro Leu Gln 405 410 415 Leu Ile Phe Ala
Tyr Phe Ala Val Val Gln Asn Ile Lys Lys Glu Glu 420 425 430 Ile Glu
Asn Leu Gln Lys Tyr His Asp Ile Ile Ser Arg Pro Ser His 435 440 445
Ile Phe Arg Leu Cys Asn Asp Leu Ala Ser Ala Ser Ala Glu Ile Ala 450
455 460 Arg Gly Glu Thr Ala Asn Ser Val Ser Cys Tyr Met Arg Thr Lys
Gly465 470 475 480 Ile Ser Glu Glu Leu Ala Thr Glu Ser Val Met Asn
Leu Ile Asp Glu 485 490 495 Thr Trp Lys Lys Met Asn Lys Glu Lys Leu
Gly Gly Ser Leu Phe Ala 500 505 510 Lys Pro Phe Val Glu Thr Ala Ile
Asn Leu Ala Arg Gln Ser His Cys 515 520 525 Thr Tyr His Asn Gly Asp
Ala His Thr Ser Pro Asp Glu Leu Thr Arg 530 535 540 Lys Arg Val Leu
Ser Val Ile Thr Glu Pro Ile Leu Pro Phe Glu Arg545 550 555 560
346963DNAArtificial SequenceSynthetic Construct 34tggcgaatgg
gacgcgccct gtagcggcgc attaagcgcg gcgggtgtgg tggttacgcg 60cagcgtgacc
gctacacttg ccagcgccct agcgcccgct cctttcgctt tcttcccttc
120ctttctcgcc acgttcgccg gctttccccg tcaagctcta aatcgggggc
tccctttagg 180gttccgattt agtgctttac ggcacctcga ccccaaaaaa
cttgattagg gtgatggttc 240acgtagtggg ccatcgccct gatagacggt
ttttcgccct ttgacgttgg agtccacgtt 300ctttaatagt ggactcttgt
tccaaactgg aacaacactc aaccctatct cggtctattc 360ttttgattta
taagggattt tgccgatttc ggcctattgg ttaaaaaatg agctgattta
420acaaaaattt aacgcgaatt ttaacaaaat attaacgttt acaatttcag
gtggcacttt 480tcggggaaat gtgcgcggaa cccctatttg tttatttttc
taaatacatt caaatatgta 540tccgctcatg aattaattct tagaaaaact
catcgagcat caaatgaaac tgcaatttat 600tcatatcagg attatcaata
ccatattttt gaaaaagccg tttctgtaat gaaggagaaa 660actcaccgag
gcagttccat aggatggcaa gatcctggta tcggtctgcg attccgactc
720gtccaacatc aatacaacct attaatttcc cctcgtcaaa aataaggtta
tcaagtgaga 780aatcaccatg agtgacgact gaatccggtg agaatggcaa
aagtttatgc atttctttcc 840agacttgttc aacaggccag ccattacgct
cgtcatcaaa atcactcgca tcaaccaaac 900cgttattcat tcgtgattgc
gcctgagcga gacgaaatac gcgatcgctg ttaaaaggac 960aattacaaac
aggaatcgaa tgcaaccggc gcaggaacac tgccagcgca tcaacaatat
1020tttcacctga atcaggatat tcttctaata cctggaatgc tgttttcccg
gggatcgcag 1080tggtgagtaa ccatgcatca tcaggagtac ggataaaatg
cttgatggtc ggaagaggca 1140taaattccgt cagccagttt agtctgacca
tctcatctgt aacatcattg gcaacgctac 1200ctttgccatg tttcagaaac
aactctggcg catcgggctt cccatacaat cgatagattg 1260tcgcacctga
ttgcccgaca ttatcgcgag cccatttata cccatataaa tcagcatcca
1320tgttggaatt taatcgcggc ctagagcaag acgtttcccg ttgaatatgg
ctcataacac 1380cccttgtatt actgtttatg taagcagaca gttttattgt
tcatgaccaa aatcccttaa 1440cgtgagtttt cgttccactg agcgtcagac
cccgtagaaa agatcaaagg atcttcttga 1500gatccttttt ttctgcgcgt
aatctgctgc ttgcaaacaa aaaaaccacc gctaccagcg 1560gtggtttgtt
tgccggatca agagctacca actctttttc cgaaggtaac tggcttcagc
1620agagcgcaga taccaaatac tgtccttcta gtgtagccgt agttaggcca
ccacttcaag 1680aactctgtag caccgcctac atacctcgct ctgctaatcc
tgttaccagt ggctgctgcc 1740agtggcgata agtcgtgtct taccgggttg
gactcaagac gatagttacc ggataaggcg 1800cagcggtcgg gctgaacggg
gggttcgtgc acacagccca gcttggagcg aacgacctac 1860accgaactga
gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga
1920aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac
gagggagctt 1980ccagggggaa acgcctggta tctttatagt cctgtcgggt
ttcgccacct ctgacttgag 2040cgtcgatttt tgtgatgctc gtcagggggg
cggagcctat ggaaaaacgc cagcaacgcg 2100gcctttttac ggttcctggc
cttttgctgg ccttttgctc acatgttctt tcctgcgtta 2160tcccctgatt
ctgtggataa ccgtattacc gcctttgagt gagctgatac cgctcgccgc
2220agccgaacga ccgagcgcag cgagtcagtg agcgaggaag cggaagagcg
cctgatgcgg 2280tattttctcc ttacgcatct gtgcggtatt tcacaccgca
tatatggtgc actctcagta 2340caatctgctc tgatgccgca tagttaagcc
agtatacact ccgctatcgc tacgtgactg 2400ggtcatggct gcgccccgac
acccgccaac acccgctgac gcgccctgac gggcttgtct 2460gctcccggca
tccgcttaca gacaagctgt gaccgtctcc gggagctgca tgtgtcagag
2520gttttcaccg tcatcaccga aacgcgcgag gcagctgcgg taaagctcat
cagcgtggtc 2580gtgaagcgat tcacagatgt ctgcctgttc atccgcgtcc
agctcgttga gtttctccag 2640aagcgttaat gtctggcttc tgataaagcg
ggccatgtta agggcggttt tttcctgttt 2700ggtcactgat gcctccgtgt
aagggggatt tctgttcatg ggggtaatga taccgatgaa 2760acgagagagg
atgctcacga tacgggttac tgatgatgaa catgcccggt tactggaacg
2820ttgtgagggt aaacaactgg cggtatggat gcggcgggac cagagaaaaa
tcactcaggg 2880tcaatgccag cgcttcgtta atacagatgt aggtgttcca
cagggtagcc agcagcatcc 2940tgcgatgcag atccggaaca taatggtgca
gggcgctgac ttccgcgttt
ccagacttta 3000cgaaacacgg aaaccgaaga ccattcatgt tgttgctcag
gtcgcagacg ttttgcagca 3060gcagtcgctt cacgttcgct cgcgtatcgg
tgattcattc tgctaaccag taaggcaacc 3120ccgccagcct agccgggtcc
tcaacgacag gagcacgatc atgcgcaccc gtggggccgc 3180catgccggcg
ataatggcct gcttctcgcc gaaacgtttg gtggcgggac cagtgacgaa
3240ggcttgagcg agggcgtgca agattccgaa taccgcaagc gacaggccga
tcatcgtcgc 3300gctccagcga aagcggtcct cgccgaaaat gacccagagc
gctgccggca cctgtcctac 3360gagttgcatg ataaagaaga cagtcataag
tgcggcgacg atagtcatgc cccgcgccca 3420ccggaaggag ctgactgggt
tgaaggctct caagggcatc ggtcgagatc ccggtgccta 3480atgagtgagc
taacttacat taattgcgtt gcgctcactg cccgctttcc agtcgggaaa
3540cctgtcgtgc cagctgcatt aatgaatcgg ccaacgcgcg gggagaggcg
gtttgcgtat 3600tgggcgccag ggtggttttt cttttcacca gtgagacggg
caacagctga ttgcccttca 3660ccgcctggcc ctgagagagt tgcagcaagc
ggtccacgct ggtttgcccc agcaggcgaa 3720aatcctgttt gatggtggtt
aacggcggga tataacatga gctgtcttcg gtatcgtcgt 3780atcccactac
cgagatatcc gcaccaacgc gcagcccgga ctcggtaatg gcgcgcattg
3840cgcccagcgc catctgatcg ttggcaacca gcatcgcagt gggaacgatg
ccctcattca 3900gcatttgcat ggtttgttga aaaccggaca tggcactcca
gtcgccttcc cgttccgcta 3960tcggctgaat ttgattgcga gtgagatatt
tatgccagcc agccagacgc agacgcgccg 4020agacagaact taatgggccc
gctaacagcg cgatttgctg gtgacccaat gcgaccagat 4080gctccacgcc
cagtcgcgta ccgtcttcat gggagaaaat aatactgttg atgggtgtct
4140ggtcagagac atcaagaaat aacgccggaa cattagtgca ggcagcttcc
acagcaatgg 4200catcctggtc atccagcgga tagttaatga tcagcccact
gacgcgttgc gcgagaagat 4260tgtgcaccgc cgctttacag gcttcgacgc
cgcttcgttc taccatcgac accaccacgc 4320tggcacccag ttgatcggcg
cgagatttaa tcgccgcgac aatttgcgac ggcgcgtgca 4380gggccagact
ggaggtggca acgccaatca gcaacgactg tttgcccgcc agttgttgtg
4440ccacgcggtt gggaatgtaa ttcagctccg ccatcgccgc ttccactttt
tcccgcgttt 4500tcgcagaaac gtggctggcc tggttcacca cgcgggaaac
ggtctgataa gagacaccgg 4560catactctgc gacatcgtat aacgttactg
gtttcacatt caccaccctg aattgactct 4620cttccgggcg ctatcatgcc
ataccgcgaa aggttttgcg ccattcgatg gtgtccggga 4680tctcgacgct
ctcccttatg cgactcctgc attaggaagc agcccagtag taggttgagg
4740ccgttgagca ccgccgccgc aaggaatggt gcatgcaagg agatggcgcc
caacagtccc 4800ccggccacgg ggcctgccac catacccacg ccgaaacaag
cgctcatgag cccgaagtgg 4860cgagcccgat cttccccatc ggtgatgtcg
gcgatatagg cgccagcaac cgcacctgtg 4920gcgccggtga tgccggccac
gatgcgtccg gcgtagagga tcgagatctc gatcccgcga 4980aattaatacg
actcactata ggggaattgt gagcggataa caattcccct ctagaaataa
5040ttttgtttaa ctttaagaag gagatataca tatgcatatg cgttgtagcg
tgtccaccga 5100aaatgtgtct ttcaccgaaa ctgaaaccga aacgcgtcgt
tctgcgaact acgaacctaa 5160cagctgggac tatgattacc tgctgtcctc
cgacacggac gagtccatcg aagtatacaa 5220agacaaagcg aaaaagctgg
aagccgaagt tcgtcgcgag attaataacg aaaaagcaga 5280atttctgacc
ctgctggaac tgattgacaa cgtccagcgc ctgggcctgg gttaccgttt
5340cgagtctgat atccgtcgtg cgctggatcg cttcgtttcc tccggcggct
tcgatgcggt 5400aaccaagact tccctgcacg cgacggcact gtctttccgt
ctgctgcgtc aacacggttt 5460tgaggtttct caggaagcgt tcagcggctt
caaagaccaa aacggcaact tcctggagaa 5520cctgaaggaa gatatcaaag
ctatcctgag cctgtacgag gccagcttcc tggctctgga 5580aggcgaaaac
atcctggacg aggcgaaggt tttcgcaatc tctcatctga aagaactgtc
5640tgaagaaaag atcggtaaag atctggcaga acaggtgaac catgcactgg
aactgccact 5700gcatcgccgt actcagcgtc tggaagcagt actgtctatc
gaggcctacc gtaaaaagga 5760ggacgcggat caggttctgc tggagctggc
aattctggat tacaacatga tccagtctgt 5820ataccagcgt gatctgcgtg
aaacgtcccg ttggtggcgt cgtgtgggtc tggcgaccaa 5880actgcacttt
gctcgtgacc gcctgattga gagcttctac tgggccgtgg gtgtagcatt
5940cgaaccgcaa tactccgact gccgtaactc cgtcgcaaaa atgttttctt
tcgtaaccat 6000tatcgacgat atctacgatg tatacggcac cctggacgaa
ctggagctgt ttactaacgc 6060agttgagcgt tgggacgtaa acgccatcga
cgatctgccg gattacatga aactgtgctt 6120tctggctctg tataacacta
ttaacgaaat cgcctacgac aacctgaaag aaaaaggtga 6180gaacatcctg
ccgtatctga ccaaagcctg ggctgacctg tgcaacgctt tcctgcaaga
6240agccaagtgg ctgtacaaca aatctactcc gacctttgac gaatacttcg
gcaacgcatg 6300gaaatcctct tctggcccgc tgcaactggt gttcgcttac
ttcgctgtcg tgcagaacat 6360taaaaaggaa gagatcgaaa acctgcaaaa
ataccatgac atcatctctc gtccttccca 6420tatcttccgt ctgtgcaatg
acctggctag cgcgtctgcg gaaattgcgc gtggtgaaac 6480cgcaaatagc
gtttcttgtt acatgcgcac taaaggtatc tccgaagaac tggctaccga
6540aagcgtgatg aatctgatcg atgaaacctg gaaaaagatg aacaaggaaa
aactgggtgg 6600tagcctgttc gcgaaaccgt tcgtggaaac cgcgatcaac
ctggcacgtc aatctcactg 6660cacttatcat aacggcgacg cgcatacctc
tccggatgag ctgacccgca aacgcgttct 6720gtctgtaatc actgaaccga
ttctgccgtt tgaacgctaa ggatccgaat tcgagctccg 6780tcgacaagct
tgcggccgca ctcgagcacc accaccacca ccactgagat ccggctgcta
6840acaaagcccg aaaggaagct gagttggctg ctgccaccgc tgagcaataa
ctagcataac 6900cccttggggc ctctaaacgg gtcttgaggg gttttttgct
gaaaggagga actatatccg 6960gat 6963356966DNAArtificial
SequenceSynthetic Construct 35tggcgaatgg gacgcgccct gtagcggcgc
attaagcgcg gcgggtgtgg tggttacgcg 60cagcgtgacc gctacacttg ccagcgccct
agcgcccgct cctttcgctt tcttcccttc 120ctttctcgcc acgttcgccg
gctttccccg tcaagctcta aatcgggggc tccctttagg 180gttccgattt
agtgctttac ggcacctcga ccccaaaaaa cttgattagg gtgatggttc
240acgtagtggg ccatcgccct gatagacggt ttttcgccct ttgacgttgg
agtccacgtt 300ctttaatagt ggactcttgt tccaaactgg aacaacactc
aaccctatct cggtctattc 360ttttgattta taagggattt tgccgatttc
ggcctattgg ttaaaaaatg agctgattta 420acaaaaattt aacgcgaatt
ttaacaaaat attaacgttt acaatttcag gtggcacttt 480tcggggaaat
gtgcgcggaa cccctatttg tttatttttc taaatacatt caaatatgta
540tccgctcatg aattaattct tagaaaaact catcgagcat caaatgaaac
tgcaatttat 600tcatatcagg attatcaata ccatattttt gaaaaagccg
tttctgtaat gaaggagaaa 660actcaccgag gcagttccat aggatggcaa
gatcctggta tcggtctgcg attccgactc 720gtccaacatc aatacaacct
attaatttcc cctcgtcaaa aataaggtta tcaagtgaga 780aatcaccatg
agtgacgact gaatccggtg agaatggcaa aagtttatgc atttctttcc
840agacttgttc aacaggccag ccattacgct cgtcatcaaa atcactcgca
tcaaccaaac 900cgttattcat tcgtgattgc gcctgagcga gacgaaatac
gcgatcgctg ttaaaaggac 960aattacaaac aggaatcgaa tgcaaccggc
gcaggaacac tgccagcgca tcaacaatat 1020tttcacctga atcaggatat
tcttctaata cctggaatgc tgttttcccg gggatcgcag 1080tggtgagtaa
ccatgcatca tcaggagtac ggataaaatg cttgatggtc ggaagaggca
1140taaattccgt cagccagttt agtctgacca tctcatctgt aacatcattg
gcaacgctac 1200ctttgccatg tttcagaaac aactctggcg catcgggctt
cccatacaat cgatagattg 1260tcgcacctga ttgcccgaca ttatcgcgag
cccatttata cccatataaa tcagcatcca 1320tgttggaatt taatcgcggc
ctagagcaag acgtttcccg ttgaatatgg ctcataacac 1380cccttgtatt
actgtttatg taagcagaca gttttattgt tcatgaccaa aatcccttaa
1440cgtgagtttt cgttccactg agcgtcagac cccgtagaaa agatcaaagg
atcttcttga 1500gatccttttt ttctgcgcgt aatctgctgc ttgcaaacaa
aaaaaccacc gctaccagcg 1560gtggtttgtt tgccggatca agagctacca
actctttttc cgaaggtaac tggcttcagc 1620agagcgcaga taccaaatac
tgtccttcta gtgtagccgt agttaggcca ccacttcaag 1680aactctgtag
caccgcctac atacctcgct ctgctaatcc tgttaccagt ggctgctgcc
1740agtggcgata agtcgtgtct taccgggttg gactcaagac gatagttacc
ggataaggcg 1800cagcggtcgg gctgaacggg gggttcgtgc acacagccca
gcttggagcg aacgacctac 1860accgaactga gatacctaca gcgtgagcta
tgagaaagcg ccacgcttcc cgaagggaga 1920aaggcggaca ggtatccggt
aagcggcagg gtcggaacag gagagcgcac gagggagctt 1980ccagggggaa
acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag
2040cgtcgatttt tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc
cagcaacgcg 2100gcctttttac ggttcctggc cttttgctgg ccttttgctc
acatgttctt tcctgcgtta 2160tcccctgatt ctgtggataa ccgtattacc
gcctttgagt gagctgatac cgctcgccgc 2220agccgaacga ccgagcgcag
cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg 2280tattttctcc
ttacgcatct gtgcggtatt tcacaccgca tatatggtgc actctcagta
2340caatctgctc tgatgccgca tagttaagcc agtatacact ccgctatcgc
tacgtgactg 2400ggtcatggct gcgccccgac acccgccaac acccgctgac
gcgccctgac gggcttgtct 2460gctcccggca tccgcttaca gacaagctgt
gaccgtctcc gggagctgca tgtgtcagag 2520gttttcaccg tcatcaccga
aacgcgcgag gcagctgcgg taaagctcat cagcgtggtc 2580gtgaagcgat
tcacagatgt ctgcctgttc atccgcgtcc agctcgttga gtttctccag
2640aagcgttaat gtctggcttc tgataaagcg ggccatgtta agggcggttt
tttcctgttt 2700ggtcactgat gcctccgtgt aagggggatt tctgttcatg
ggggtaatga taccgatgaa 2760acgagagagg atgctcacga tacgggttac
tgatgatgaa catgcccggt tactggaacg 2820ttgtgagggt aaacaactgg
cggtatggat gcggcgggac cagagaaaaa tcactcaggg 2880tcaatgccag
cgcttcgtta atacagatgt aggtgttcca cagggtagcc agcagcatcc
2940tgcgatgcag atccggaaca taatggtgca gggcgctgac ttccgcgttt
ccagacttta 3000cgaaacacgg aaaccgaaga ccattcatgt tgttgctcag
gtcgcagacg ttttgcagca 3060gcagtcgctt cacgttcgct cgcgtatcgg
tgattcattc tgctaaccag taaggcaacc 3120ccgccagcct agccgggtcc
tcaacgacag gagcacgatc atgcgcaccc gtggggccgc 3180catgccggcg
ataatggcct gcttctcgcc gaaacgtttg gtggcgggac cagtgacgaa
3240ggcttgagcg agggcgtgca agattccgaa taccgcaagc gacaggccga
tcatcgtcgc 3300gctccagcga aagcggtcct cgccgaaaat gacccagagc
gctgccggca cctgtcctac 3360gagttgcatg ataaagaaga cagtcataag
tgcggcgacg atagtcatgc cccgcgccca 3420ccggaaggag ctgactgggt
tgaaggctct caagggcatc ggtcgagatc ccggtgccta 3480atgagtgagc
taacttacat taattgcgtt gcgctcactg cccgctttcc agtcgggaaa
3540cctgtcgtgc cagctgcatt aatgaatcgg ccaacgcgcg gggagaggcg
gtttgcgtat 3600tgggcgccag ggtggttttt cttttcacca gtgagacggg
caacagctga ttgcccttca 3660ccgcctggcc ctgagagagt tgcagcaagc
ggtccacgct ggtttgcccc agcaggcgaa 3720aatcctgttt gatggtggtt
aacggcggga tataacatga gctgtcttcg gtatcgtcgt 3780atcccactac
cgagatatcc gcaccaacgc gcagcccgga ctcggtaatg gcgcgcattg
3840cgcccagcgc catctgatcg ttggcaacca gcatcgcagt gggaacgatg
ccctcattca 3900gcatttgcat ggtttgttga aaaccggaca tggcactcca
gtcgccttcc cgttccgcta 3960tcggctgaat ttgattgcga gtgagatatt
tatgccagcc agccagacgc agacgcgccg 4020agacagaact taatgggccc
gctaacagcg cgatttgctg gtgacccaat gcgaccagat 4080gctccacgcc
cagtcgcgta ccgtcttcat gggagaaaat aatactgttg atgggtgtct
4140ggtcagagac atcaagaaat aacgccggaa cattagtgca ggcagcttcc
acagcaatgg 4200catcctggtc atccagcgga tagttaatga tcagcccact
gacgcgttgc gcgagaagat 4260tgtgcaccgc cgctttacag gcttcgacgc
cgcttcgttc taccatcgac accaccacgc 4320tggcacccag ttgatcggcg
cgagatttaa tcgccgcgac aatttgcgac ggcgcgtgca 4380gggccagact
ggaggtggca acgccaatca gcaacgactg tttgcccgcc agttgttgtg
4440ccacgcggtt gggaatgtaa ttcagctccg ccatcgccgc ttccactttt
tcccgcgttt 4500tcgcagaaac gtggctggcc tggttcacca cgcgggaaac
ggtctgataa gagacaccgg 4560catactctgc gacatcgtat aacgttactg
gtttcacatt caccaccctg aattgactct 4620cttccgggcg ctatcatgcc
ataccgcgaa aggttttgcg ccattcgatg gtgtccggga 4680tctcgacgct
ctcccttatg cgactcctgc attaggaagc agcccagtag taggttgagg
4740ccgttgagca ccgccgccgc aaggaatggt gcatgcaagg agatggcgcc
caacagtccc 4800ccggccacgg ggcctgccac catacccacg ccgaaacaag
cgctcatgag cccgaagtgg 4860cgagcccgat cttccccatc ggtgatgtcg
gcgatatagg cgccagcaac cgcacctgtg 4920gcgccggtga tgccggccac
gatgcgtccg gcgtagagga tcgagatctc gatcccgcga 4980aattaatacg
actcactata ggggaattgt gagcggataa caattcccct ctagaaataa
5040ttttgtttaa ctttaagaag gagatataca tatgtgctct gtttctaccg
agaacgtttc 5100cttcactgag acggaaaccg aggcacgtcg tagcgcgaac
tacgagccga atagctggga 5160ctacgatttc ctgctgtctt ccgatactga
cgaatctatt gaggtgtaca aagacaaagc 5220aaagaaactg gaggctgaag
tgcgccgcga aattaacaac gagaaagctg aattcctgac 5280tctgctggag
ctgatcgata acgtacagcg cctgggtctg ggttaccgct tcgaatctga
5340tatccgtcgc gcactggatc gtttcgtaag cagcggcggt ttcgatggcg
tgaccaaaac 5400gagcctgcac gctaccgcgc tgtccttccg tctgctgcgt
cagcacggct tcgaagtttc 5460tcaggaagca ttctccggtt tcaaagatca
aaacggtaac ttcctggaaa acctgaaaga 5520agacactaag gcgatcctga
gcctgtatga ggcaagcttt ctggccctgg agggtgagaa 5580catcctggat
gaggcgcgcg tattctccat ctcccatctg aaagagctgt ctgaagagaa
5640aatcggtaag gaactggcag agcaggttaa tcacgcactg gaactgccgc
tgcatcgtcg 5700tacccagcgt ctggaggcgg tttggtccat cgaagcgtac
cgcaaaaagg aggatgctaa 5760ccaggttctg ctggaactgg ccatcctgga
ctacaacatg atccagtccg tttaccagcg 5820tgatctgcgt gaaacctccc
gttggtggcg ccgtgtgggc ctggcgacca aactgcactt 5880cgctaaggac
cgcctgattg agtcttttta ctgggcagtc ggcgttgcgt tcgaacctca
5940gtattctgac tgccgtaaca gcgttgcgaa aatgttcagc ttcgttacta
ttatcgacga 6000catctacgac gtttacggta ctctggacga gctggaactg
tttaccgacg ctgtcgaacg 6060ttgggatgtt aacgccatca acgatctgcc
tgactacatg aaactgtgct tcctggcact 6120gtataacacg atcaacgaaa
ttgcatacga caacctgaaa gacaaaggtg aaaacatcct 6180gccgtacctg
actaaagcgt gggcggatct gtgtaacgct tttctgcaag aagcgaaatg
6240gctgtataac aaatccactc cgacctttga cgattatttc ggcaatgcct
ggaaatccag 6300ctctggcccg ctgcaactga tcttcgctta ttttgcggtt
gtccaaaaca tcaaaaagga 6360ggaaattgaa aacctgcaaa aataccacga
tatcattagc cgtccttctc atatctttcg 6420cctgtgcaac gacctggcaa
gcgcgtccgc agagatcgca cgtggcgaaa ccgctaactc 6480tgtttcctgc
tacatgcgca ccaagggcat ttccgaagag ctggcaaccg agagcgtaat
6540gaatctgatc gacgaaacct gtaagaaaat gaacaaagaa aaactgggtg
gctccctgtt 6600cgctaaaccg ttcgtagaga ctgctattaa cctggcacgt
cagagccact gcacctacca 6660caatggtgac gcacatacta gcccggatga
actgactcgt aaacgtgtac tgtctgttat 6720caccgaaccg attctgccgt
tcgaacgtta actgcagctg gtaggatccg aattcgagct 6780ccgtcgacaa
gcttgcggcc gcactcgagc accaccacca ccaccactga gatccggctg
6840ctaacaaagc ccgaaaggaa gctgagttgg ctgctgccac cgctgagcaa
taactagcat 6900aaccccttgg ggcctctaaa cgggtcttga ggggtttttt
gctgaaagga ggaactatat 6960ccggat 6966365679DNAArtificial
SequenceSynthetic Construct 36aagggcgaat actgcagata tccatcacac
tggcggccgc tcgagcatgc atctagaggg 60cccaattcgc cctatagtga gtcgtattac
aattcactgg ccgtcgtttt acaacgtcgt 120gactgggaaa accctggcgt
tacccaactt aatcgccttg cagcacatcc ccctttcgcc 180agctggcgta
atagcgaaga ggcccgcacc gatcgccctt cccaacagtt gcgcagcctg
240aatggcgaat ggacgcgccc tgtagcggcg cattaagcgc ggcgggtgtg
gtggttacgc 300gcagcgtgac cgctacactt gccagcgccc tagcgcccgc
tcctttcgct ttcttccctt 360cctttctcgc cacgttcgcc ggctttcccc
gtcaagctct aaatcggggg ctccctttag 420ggttccgatt tagtgcttta
cggcacctcg accccaaaaa acttgattag ggtgatggtt 480cacgtagtgg
gccatcgccc tgatagacgg tttttcgccc tttgacgttg gagtccacgt
540tctttaatag tggactcttg ttccaaactg gaacaacact caaccctatc
tcggtctatt 600cttttgattt ataagggatt ttgccgattt cggcctattg
gttaaaaaat gagctgattt 660aacaaaaatt taacgcgaat tttaacaaaa
ttcagggcgc aagggctgct aaaggaagcg 720gaacacgtag aaagccagtc
cgcagaaacg gtgctgaccc cggatgaatg tcagctactg 780ggctatctgg
acaagggaaa acgcaagcgc aaagagaaag caggtagctt gcagtgggct
840tacatggcga tagctagact gggcggtttt atggacagca agcgaaccgg
aattgccagc 900tggggcgccc tctggtaagg ttgggaagcc ctgcaaagta
aactggatgg ctttcttgcc 960gccaaggatc tgatggcgca ggggatcaag
atctgatcaa gagacaggat gaggatcgtt 1020tcgcatgatt gaacaagatg
gattgcacgc aggttctccg gccgcttggg tggagaggct 1080attcggctat
gactgggcac aacagacaat cggctgctct gatgccgccg tgttccggct
1140gtcagcgcag gggcgcccgg ttctttttgt caagaccgac ctgtccggtg
ccctgaatga 1200actgcaggac gaggcagcgc ggctatcgtg gctggccacg
acgggcgttc cttgcgcagc 1260tgtgctcgac gttgtcactg aagcgggaag
ggactggctg ctattgggcg aagtgccggg 1320gcaggatccc ctgtcatccc
accttgctcc tgccgagaaa gtatccatca tggctgatgc 1380aatgcggcgg
ctgcatacgc ttgatccggc tacctgccca ttcgaccacc aagcgaaaca
1440tcgcatcgag cgagcacgta ctcggatgga agccggtctt gtcgatcagg
atgatctgga 1500cgaagagcat caggggctcg cgccagccga actgttcgcc
aggctcaagg cgcgcatgcc 1560cgacggcgag gatctcgtcg tgacccatgg
cgatgcctgc ttgccgaata tcatggtgga 1620aaatggccgc ttttctggat
tcatcgactg tggccggctg ggtgtggcgg accgctatca 1680ggacatagcg
ttggctaccc gtgatattgc tgaagagctt ggcggcgaat gggctgaccg
1740cttcctcgtg ctttacggta tcgccgctcc cgattcgcag cgcatcgcct
tctatcgcct 1800tcttgacgag ttcttctgaa ttgaaaaagg aagagtatga
gtattcaaca tttccgtgtc 1860gcccttattc ccttttttgc ggcattttgc
cttcctgttt ttgctcaccc agaaacgctg 1920gtgaaagtaa aagatgctga
agatcagttg ggtgcacgag tgggttacat cgaactggat 1980ctcaacagcg
gtaagatcct tgagagtttt cgccccgaag aacgttttcc aatgatgagc
2040acttttaaag ttctgctatg tggcgcggta ttatcccgta ttgacgccgg
gcaagagcaa 2100ctcggtcgcc gcatacacta ttctcagaat gacttggttg
agtactcacc agtcacagaa 2160aagcatctta cggatggcat gacagtaaga
gaattatgca gtgctgccat aaccatgagt 2220gataacactg cggccaactt
acttctgaca acgatcggag gaccgaagga gctaaccgct 2280tttttgcaca
acatggggga tcatgtaact cgccttgatc gttgggaacc ggagctgaat
2340gaagccatac caaacgacga gcgtgacacc acgatgcctg tagcaatggc
aacaacgttg 2400cgcaaactat taactggcga actacttact ctagcttccc
ggcaacaatt aatagactgg 2460atggaggcgg ataaagttgc aggaccactt
ctgcgctcgg cccttccggc tggctggttt 2520attgctgata aatctggagc
cggtgagcgt gggtctcgcg gtatcattgc agcactgggg 2580ccagatggta
agccctcccg tatcgtagtt atctacacga cggggagtca ggcaactatg
2640gatgaacgaa atagacagat cgctgagata ggtgcctcac tgattaagca
ttggtaactg 2700tcagaccaag tttactcata tatactttag attgatttaa
aacttcattt ttaatttaaa 2760aggatctagg tgaagatcct ttttgataat
ctcatgacca aaatccctta acgtgagttt 2820tcgttccact gagcgtcaga
ccccgtagaa aagatcaaag gatcttcttg agatcctttt 2880tttctgcgcg
taatctgctg cttgcaaaca aaaaaaccac cgctaccagc ggtggtttgt
2940ttgccggatc aagagctacc aactcttttt ccgaaggtaa ctggcttcag
cagagcgcag 3000ataccaaata ctgttcttct agtgtagccg tagttaggcc
accacttcaa gaactctgta 3060gcaccgccta catacctcgc tctgctaatc
ctgttaccag tggctgctgc cagtggcgat 3120aagtcgtgtc ttaccgggtt
ggactcaaga cgatagttac cggataaggc gcagcggtcg 3180ggctgaacgg
ggggttcgtg cacacagccc agcttggagc gaacgaccta caccgaactg
3240agatacctac agcgtgagct atgagaaagc gccacgcttc ccgaagggag
aaaggcggac 3300aggtatccgg taagcggcag ggtcggaaca ggagagcgca
cgagggagct tccaggggga 3360aacgcctggt atctttatag tcctgtcggg
tttcgccacc tctgacttga gcgtcgattt 3420ttgtgatgct cgtcaggggg
gcggagccta tggaaaaacg ccagcaacgc ggccttttta 3480cggttcctgg
ccttttgctg gccttttgct cacatgttct ttcctgcgtt atcccctgat
3540tctgtggata accgtattac cgcctttgag tgagctgata ccgctcgccg
cagccgaacg 3600accgagcgca gcgagtcagt gagcgaggaa gcggaagagc
gcccaatacg caaaccgcct 3660ctccccgcgc gttggccgat tcattaatgc
agctggcacg acaggtttcc cgactggaaa 3720gcgggcagtg agcgcaacgc
aattaatgtg agttagctca ctcattaggc accccaggct 3780ttacacttta
tgcttccggc tcgtatgttg tgtggaattg tgagcggata acaatttcac
3840acaggaaaca gctatgacca tgattacgcc aagcttggta ccgagctcgg
atccactagt 3900aacggccgcc
agtgtgctgg aattcgccct tgatcatgca ttcgccctta ggaggtaaaa
3960aaacatgtgt gcgacctctt ctcaatttac tcagattacc gagcataatt
cccgtcgttc 4020cgcaaactat cagccaaacc tgtggaattt cgaattcctg
caatccctgg agaacgacct 4080gaaagtggaa aagctggagg agaaagcgac
caaactggag gaagaagttc gctgcatgat 4140caaccgtgta gacacccagc
cgctgtccct gctggagctg atcgacgatg tgcagcgcct 4200gggtctgacc
tacaaatttg aaaaagacat cattaaagcc ctggaaaaca tcgtactgct
4260ggacgaaaac aaaaagaaca aatctgacct gcacgcaacc gctctgtctt
tccgtctgct 4320gcgtcagcac ggtttcgagg tttctcagga tgtttttgag
cgtttcaagg ataaagaagg 4380tggtttcagc ggtgaactga aaggtgacgt
ccaaggcctg ctgagcctgt atgaagcgtc 4440ttacctgggt ttcgagggtg
agaacctgct ggaggaggcg cgtacctttt ccatcaccca 4500cctgaagaac
aacctgaaag aaggcattaa taccaaggtt gcagaacaag tgagccacgc
4560cctggaactg ccatatcacc agcgtctgca ccgtctggag gcacgttggt
tcctggataa 4620atacgaaccg aaagaaccgc atcaccagct gctgctggag
ctggcgaagc tggattttaa 4680catggtacag accctgcacc agaaagagct
gcaagatctg tcccgctggt ggaccgagat 4740gggcctggct agcaaactgg
attttgtacg cgaccgcctg atggaagttt atttctgggc 4800actgggtatg
gcgccagacc cgcagtttgg tgaatgtcgc aaagctgtta ctaaaatgtt
4860tggtctggtg acgatcatcg atgacgtgta tgacgtttat ggcactctgg
acgaactgca 4920actgttcacc gatgctgtag agcgctggga cgttaacgct
attaacaccc tgccggacta 4980tatgaaactg tgtttcctgg cactgtacaa
caccgttaac gacacgtcct attctattct 5040gaaagagaaa ggtcataaca
acctgtccta tctgacgaaa agctggcgtg aactgtgcaa 5100agcctttctg
caagaggcga aatggtccaa caacaaaatt atcccggctt tctccaagta
5160cctggaaaac gccagcgttt cctcctccgg tgtagcgctg ctggcgccgt
cttacttttc 5220cgtatgccag cagcaggaag acatctccga ccacgcgctg
agttccctga ccgacttcca 5280tggtctggtg cgttctagct gcgttatctt
ccgcctgtgc aacgatctgg ccacctctgc 5340ggcggagctg gaacgtggcg
agactaccaa ttctatcatt agctacatgc acgaaaacga 5400tggtaccagc
gaggaacagg cccgcgaaga actgcgtaaa ctgatcgacg ccgaatggaa
5460aaagatgaat cgtgaacgcg ttagcgactc caccctgctg cctaaagcgt
tcatggaaat 5520cgcagttaac atggcacgtg tttcccactg cacctaccag
tatggcgatg gtctgggtcg 5580cccagactac gcgactgaaa accgcatcaa
actgctgctg attgaccctt tcccgattaa 5640ccagctgatg tatgtctaac
tgcagggatc cgtcgaccg 5679376974DNAArtificial SequenceSynthetic
Construct 37gtgcggccgc aagcttgtcg acggagctcg aattcggatc cctgcagtta
gacatacatc 60agctggttaa tcgggaaagg gtcaatcagc agcagtttga tgcggttttc
agtcgcgtag 120tctgggcgac ccagaccatc gccatactgg taggtgcagt
gggaaacacg tgccatgtta 180actgcgattt ccatgaacgc tttaggcagc
agggtggagt cgctaacgcg ttcacgattc 240atctttttcc attcggcgtc
gatcagttta cgcagttctt cgcgggcctg ttcctcgctg 300gtaccatcgt
tttcgtgcat gtagctaatg atagaattgg tagtctcgcc acgttccagc
360tccgccgcag aggtggccag atcgttgcac aggcggaaga taacgcagct
agaacgcacc 420agaccatgga agtcggtcag ggaacgcagc gcgtggtcgg
agatgtcttc ctgctgctgg 480catacggaaa agtaagacgg cgccagcagc
gctacaccgg aggaggaaac gctggcgttt 540tccaggtact tggagaaagc
cgggataatt ttgttgttgg accatttcgc ctcttgcaga 600aaggctttgc
acagttcacg ccagcttttc gtcagatagg acaggttgtt atgacctttc
660tctttcagaa tagaatagga cgtgtcgtta acggtgttgt acagtgccag
gaaacacagt 720ttcatatagt ccggcagggt gttaatagcg ttaacgtccc
agcgctctac agcatcggtg 780aacagttgca gttcgtccag agtgccataa
acgtcataca cgtcatcgat gatcgtcacc 840agaccaaaca ttttagtaac
agctttgcga cattcaccaa actgcgggtc tggcgccata 900cccagtgccc
agaaataaac ttccatcagg cggtcgcgta caaaatccag tttgctagcc
960aggcccatct cggtccacca gcgggacaga tcttgcagct ctttctggtg
cagggtctgt 1020accatgttaa aatccagctt cgccagctcc agcagcagct
ggtgatgcgg ttctttcggt 1080tcgtatttat ccaggaacca acgtgcctcc
agacggtgca gacgctggtg atatggcagt 1140tccagggcgt ggctcacttg
ttctgcaacc ttggtattaa tgccttcttt caggttgttc 1200ttcaggtggg
tgatggaaaa ggtacgcgcc tcctccagca ggttctcacc ctcgaaaccc
1260aggtaagacg cttcatacag gctcagcagg ccttggacgt cacctttcag
ttcaccgctg 1320aaaccacctt ctttatcctt gaaacgctca aaaacatcct
gagaaacctc gaaaccgtgc 1380tgacgcagca gacggaaaga cagagcggtt
gcgtgcaggt cagatttgtt ctttttgttt 1440tcgtccagca gtacgatgtt
ttccagggct ttaatgatgt ctttttcaaa tttgtaggtc 1500agacccaggc
gctgcacatc gtcgatcagc tccagcaggg acagcggctg ggtgtctaca
1560cggttgatca tgcagcgaac ttcttcctcc agtttggtcg ctttctcctc
cagcttttcc 1620actttcaggt cgttctccag ggattgcagg aattcgaaat
tccacaggtt tggctgatag 1680tttgcggaac gacgggaatt atgctcggta
atctgagtaa attgagaaga ggtcgcacac 1740atggtatatc tccttcttaa
agttaaacaa aattatttct agaggggaat tgttatccgc 1800tcacaattcc
cctatagtga gtcgtattaa tttcgcggga tcgagatctc gatcctctac
1860gccggacgca tcgtggccgg catcaccggc gccacaggtg cggttgctgg
cgcctatatc 1920gccgacatca ccgatgggga agatcgggct cgccacttcg
ggctcatgag cgcttgtttc 1980ggcgtgggta tggtggcagg ccccgtggcc
gggggactgt tgggcgccat ctccttgcat 2040gcaccattcc ttgcggcggc
ggtgctcaac ggcctcaacc tactactggg ctgcttccta 2100atgcaggagt
cgcataaggg agagcgtcga gatcccggac accatcgaat ggcgcaaaac
2160ctttcgcggt atggcatgat agcgcccgga agagagtcaa ttcagggtgg
tgaatgtgaa 2220accagtaacg ttatacgatg tcgcagagta tgccggtgtc
tcttatcaga ccgtttcccg 2280cgtggtgaac caggccagcc acgtttctgc
gaaaacgcgg gaaaaagtgg aagcggcgat 2340ggcggagctg aattacattc
ccaaccgcgt ggcacaacaa ctggcgggca aacagtcgtt 2400gctgattggc
gttgccacct ccagtctggc cctgcacgcg ccgtcgcaaa ttgtcgcggc
2460gattaaatct cgcgccgatc aactgggtgc cagcgtggtg gtgtcgatgg
tagaacgaag 2520cggcgtcgaa gcctgtaaag cggcggtgca caatcttctc
gcgcaacgcg tcagtgggct 2580gatcattaac tatccgctgg atgaccagga
tgccattgct gtggaagctg cctgcactaa 2640tgttccggcg ttatttcttg
atgtctctga ccagacaccc atcaacagta ttattttctc 2700ccatgaagac
ggtacgcgac tgggcgtgga gcatctggtc gcattgggtc accagcaaat
2760cgcgctgtta gcgggcccat taagttctgt ctcggcgcgt ctgcgtctgg
ctggctggca 2820taaatatctc actcgcaatc aaattcagcc gatagcggaa
cgggaaggcg actggagtgc 2880catgtccggt tttcaacaaa ccatgcaaat
gctgaatgag ggcatcgttc ccactgcgat 2940gctggttgcc aacgatcaga
tggcgctggg cgcaatgcgc gccattaccg agtccgggct 3000gcgcgttggt
gcggatatct cggtagtggg atacgacgat accgaagaca gctcatgtta
3060tatcccgccg ttaaccacca tcaaacagga ttttcgcctg ctggggcaaa
ccagcgtgga 3120ccgcttgctg caactctctc agggccaggc ggtgaagggc
aatcagctgt tgcccgtctc 3180actggtgaaa agaaaaacca ccctggcgcc
caatacgcaa accgcctctc cccgcgcgtt 3240ggccgattca ttaatgcagc
tggcacgaca ggtttcccga ctggaaagcg ggcagtgagc 3300gcaacgcaat
taatgtaagt tagctcactc attaggcacc gggatctcga ccgatgccct
3360tgagagcctt caacccagtc agctccttcc ggtgggcgcg gggcatgact
atcgtcgccg 3420cacttatgac tgtcttcttt atcatgcaac tcgtaggaca
ggtgccggca gcgctctggg 3480tcattttcgg cgaggaccgc tttcgctgga
gcgcgacgat gatcggcctg tcgcttgcgg 3540tattcggaat cttgcacgcc
ctcgctcaag ccttcgtcac tggtcccgcc accaaacgtt 3600tcggcgagaa
gcaggccatt atcgccggca tggcggcccc acgggtgcgc atgatcgtgc
3660tcctgtcgtt gaggacccgg ctaggctggc ggggttgcct tactggttag
cagaatgaat 3720caccgatacg cgagcgaacg tgaagcgact gctgctgcaa
aacgtctgcg acctgagcaa 3780caacatgaat ggtcttcggt ttccgtgttt
cgtaaagtct ggaaacgcgg aagtcagcgc 3840cctgcaccat tatgttccgg
atctgcatcg caggatgctg ctggctaccc tgtggaacac 3900ctacatctgt
attaacgaag cgctggcatt gaccctgagt gatttttctc tggtcccgcc
3960gcatccatac cgccagttgt ttaccctcac aacgttccag taaccgggca
tgttcatcat 4020cagtaacccg tatcgtgagc atcctctctc gtttcatcgg
tatcattacc cccatgaaca 4080gaaatccccc ttacacggag gcatcagtga
ccaaacagga aaaaaccgcc cttaacatgg 4140cccgctttat cagaagccag
acattaacgc ttctggagaa actcaacgag ctggacgcgg 4200atgaacaggc
agacatctgt gaatcgcttc acgaccacgc tgatgagctt taccgcagct
4260gcctcgcgcg tttcggtgat gacggtgaaa acctctgaca catgcagctc
ccggagacgg 4320tcacagcttg tctgtaagcg gatgccggga gcagacaagc
ccgtcagggc gcgtcagcgg 4380gtgttggcgg gtgtcggggc gcagccatga
cccagtcacg tagcgatagc ggagtgtata 4440ctggcttaac tatgcggcat
cagagcagat tgtactgaga gtgcaccata tatgcggtgt 4500gaaataccgc
acagatgcgt aaggagaaaa taccgcatca ggcgctcttc cgcttcctcg
4560ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag cggtatcagc
tcactcaaag 4620gcggtaatac ggttatccac agaatcaggg gataacgcag
gaaagaacat gtgagcaaaa 4680ggccagcaaa aggccaggaa ccgtaaaaag
gccgcgttgc tggcgttttt ccataggctc 4740cgcccccctg acgagcatca
caaaaatcga cgctcaagtc agaggtggcg aaacccgaca 4800ggactataaa
gataccaggc gtttccccct ggaagctccc tcgtgcgctc tcctgttccg
4860accctgccgc ttaccggata cctgtccgcc tttctccctt cgggaagcgt
ggcgctttct 4920catagctcac gctgtaggta tctcagttcg gtgtaggtcg
ttcgctccaa gctgggctgt 4980gtgcacgaac cccccgttca gcccgaccgc
tgcgccttat ccggtaacta tcgtcttgag 5040tccaacccgg taagacacga
cttatcgcca ctggcagcag ccactggtaa caggattagc 5100agagcgaggt
atgtaggcgg tgctacagag ttcttgaagt ggtggcctaa ctacggctac
5160actagaagga cagtatttgg tatctgcgct ctgctgaagc cagttacctt
cggaaaaaga 5220gttggtagct cttgatccgg caaacaaacc accgctggta
gcggtggttt ttttgtttgc 5280aagcagcaga ttacgcgcag aaaaaaagga
tctcaagaag atcctttgat cttttctacg 5340gggtctgacg ctcagtggaa
cgaaaactca cgttaaggga ttttggtcat gaacaataaa 5400actgtctgct
tacataaaca gtaatacaag gggtgttatg agccatattc aacgggaaac
5460gtcttgctct aggccgcgat taaattccaa catggatgct gatttatatg
ggtataaatg 5520ggctcgcgat aatgtcgggc aatcaggtgc gacaatctat
cgattgtatg ggaagcccga 5580tgcgccagag ttgtttctga aacatggcaa
aggtagcgtt gccaatgatg ttacagatga 5640gatggtcaga ctaaactggc
tgacggaatt tatgcctctt ccgaccatca agcattttat 5700ccgtactcct
gatgatgcat ggttactcac cactgcgatc cccgggaaaa cagcattcca
5760ggtattagaa gaatatcctg attcaggtga aaatattgtt gatgcgctgg
cagtgttcct 5820gcgccggttg cattcgattc ctgtttgtaa ttgtcctttt
aacagcgatc gcgtatttcg 5880tctcgctcag gcgcaatcac gaatgaataa
cggtttggtt gatgcgagtg attttgatga 5940cgagcgtaat ggctggcctg
ttgaacaagt ctggaaagaa atgcataaac ttttgccatt 6000ctcaccggat
tcagtcgtca ctcatggtga tttctcactt gataacctta tttttgacga
6060ggggaaatta ataggttgta ttgatgttgg acgagtcgga atcgcagacc
gataccagga 6120tcttgccatc ctatggaact gcctcggtga gttttctcct
tcattacaga aacggctttt 6180tcaaaaatat ggtattgata atcctgatat
gaataaattg cagtttcatt tgatgctcga 6240tgagtttttc taagaattaa
ttcatgagcg gatacatatt tgaatgtatt tagaaaaata 6300aacaaatagg
ggttccgcgc acatttcccc gaaaagtgcc acctgaaatt gtaaacgtta
6360atattttgtt aaaattcgcg ttaaattttt gttaaatcag ctcatttttt
aaccaatagg 6420ccgaaatcgg caaaatccct tataaatcaa aagaatagac
cgagataggg ttgagtgttg 6480ttccagtttg gaacaagagt ccactattaa
agaacgtgga ctccaacgtc aaagggcgaa 6540aaaccgtcta tcagggcgat
ggcccactac gtgaaccatc accctaatca agttttttgg 6600ggtcgaggtg
ccgtaaagca ctaaatcgga accctaaagg gagcccccga tttagagctt
6660gacggggaaa gccggcgaac gtggcgagaa aggaagggaa gaaagcgaaa
ggagcgggcg 6720ctagggcgct ggcaagtgta gcggtcacgc tgcgcgtaac
caccacaccc gccgcgctta 6780atgcgccgct acagggcgcg tcccattcgc
caatccggat atagttcctc ctttcagcaa 6840aaaacccctc aagacccgtt
tagaggcccc aaggggttat gctagttatt gctcagcggt 6900ggcagcagcc
aactcagctt cctttcgggc tttgttagca gccggatctc agtggtggtg
6960gtggtggtgc tcga 6974381719DNAArtificial SequenceSynthetic
Construct 38gaattcaaaa tgtgtgcaac ttcatcccaa ttcactcaaa tcacagagca
taattctaga 60cgttcagcta actaccaacc aaatctgtgg aattttgaat ttcttcaatc
ccttgaaaat 120gatttgaaag tggaaaagtt ggaggaaaaa gccacaaaac
tagaggaaga agttagatgt 180atgataaaca gagtagatac acaacctctg
tcactactag aattgattga cgatgtccag 240aggctgggtt taacatataa
gttcgaaaag gatataatca aagccttaga aaacatagtc 300cttctagatg
aaaacaagaa gaataagtct gacttgcacg caaccgctct gagttttaga
360ttgctgagac aacatggttt tgaagtaagt caagatgtgt ttgaaaggtt
caaagacaaa 420gagggaggat tctcaggaga attaaaggga gatgtgcagg
gtctgttgtc attgtacgag 480gccagttatt tggggtttga aggggaaaat
ctactagagg aggccagaac cttctctata 540acccatctga agaataactt
gaaagaaggc atcaatacaa aagtggctga acaagtttca 600catgcattgg
aattgcccta ccaccaaaga cttcatagac ttgaagccag atggtttttg
660gacaagtatg aaccaaagga gcctcaccat caacttttat tggaattagc
aaaactggat 720tttaacatgg ttcagacatt acaccagaaa gaattgcagg
acctatcaag atggtggacg 780gagatgggtt tagccagcaa gttagatttc
gttagagata gattgatgga agtttacttt 840tgggcactgg gaatggcacc
agatcctcaa tttggtgaat gtagaaaggc agttacaaag 900atgtttggtc
tagtaacaat cattgatgat gtttatgatg tgtacggaac tttggatgaa
960ttacaactat tcaccgacgc agttgaacgt tgggatgtaa acgcaataaa
cacgttgcct 1020gattatatga agctgtgttt tctggcattg tacaacacag
tcaatgacac ttcttactcc 1080attttaaagg agaaagggca taacaatcta
tcctatttga caaaatcatg gagggagtta 1140tgcaaagcat tccttcaaga
agctaagtgg tctaacaata agataatccc agcattctcc 1200aagtatcttg
aaaacgcttc cgtatcctcc tccggtgtgg ccctactagc accatcatat
1260ttttccgtct gccagcagca ggaagatatc tctgatcatg ctttgagatc
cttaacagat 1320tttcatggtc tagtcagatc ctcttgcgtg attttcagat
tgtgcaatga tttggctact 1380tcagccgcag agttagagag gggtgaaacc
acgaactcaa ttattagtta tatgcacgag 1440aatgatggaa catccgaaga
acaagcccgt gaagaattaa gaaaactgat cgatgctgaa 1500tggaagaaga
tgaatagaga aagagtttcc gacagcactt tgctgcctaa ggcattcatg
1560gagatagctg ttaacatggc tagggtttca cactgtacat accaatacgg
ggacggtctt 1620ggaaggcccg actacgccac tgaaaataga attaaactgc
tactgattga tcctttcccc 1680attaaccagt taatgtacgt gtaataggga
tccgaattc 1719397658DNAArtificial SequenceSynthetic Construct
39acggattaga agccgccgag cgggtgacag ccctccgaag gaagactctc ctccgtgcgt
60cctcgtcttc accggtcgcg ttcctgaaac gcagatgtgc ctcgcgccgc actgctccga
120acaataaaga ttctacaata ctagctttta tggttatgaa gaggaaaaat
tggcagtaac 180ctggccccac aaaccttcaa atgaacgaat caaattaaca
accataggat gataatgcga 240ttagtttttt agccttattt ctggggtaat
taatcagcga agcgatgatt tttgatctat 300taacagatat ataaatgcaa
aaactgcata accactttaa ctaatacttt caacattttc 360ggtttgtatt
acttcttatt caaatgtaat aaaagtatca acaaaaaatt gttaatatac
420ctctatactt taacgtcaag gagaaaaaac cccggatcgg actactagca
gctgtaatac 480gactcactat agggaatatt aagctatcaa acaagtttgt
acaaaaaagc aggctgaatt 540caaaatgtgt gcaacttcat cccaattcac
tcaaatcaca gagcataatt ctagacgttc 600agctaactac caaccaaatc
tgtggaattt tgaatttctt caatcccttg aaaatgattt 660gaaagtggaa
aagttggagg aaaaagccac aaaactagag gaagaagtta gatgtatgat
720aaacagagta gatacacaac ctctgtcact actagaattg attgacgatg
tccagaggct 780gggtttaaca tataagttcg aaaaggatat aatcaaagcc
ttagaaaaca tagtccttct 840agatgaaaac aagaagaata agtctgactt
gcacgcaacc gctctgagtt ttagattgct 900gagacaacat ggttttgaag
taagtcaaga tgtgtttgaa aggttcaaag acaaagaggg 960aggattctca
ggagaattaa agggagatgt gcagggtctg ttgtcattgt acgaggccag
1020ttatttgggg tttgaagggg aaaatctact agaggaggcc agaaccttct
ctataaccca 1080tctgaagaat aacttgaaag aaggcatcaa tacaaaagtg
gctgaacaag tttcacatgc 1140attggaattg ccctaccacc aaagacttca
tagacttgaa gccagatggt ttttggacaa 1200gtatgaacca aaggagcctc
accatcaact tttattggaa ttagcaaaac tggattttaa 1260catggttcag
acattacacc agaaagaatt gcaggaccta tcaagatggt ggacggagat
1320gggtttagcc agcaagttag atttcgttag agatagattg atggaagttt
acttttgggc 1380actgggaatg gcaccagatc ctcaatttgg tgaatgtaga
aaggcagtta caaagatgtt 1440tggtctagta acaatcattg atgatgttta
tgatgtgtac ggaactttgg atgaattaca 1500actattcacc gacgcagttg
aacgttggga tgtaaacgca ataaacacgt tgcctgatta 1560tatgaagctg
tgttttctgg cattgtacaa cacagtcaat gacacttctt actccatttt
1620aaaggagaaa gggcataaca atctatccta tttgacaaaa tcatggaggg
agttatgcaa 1680agcattcctt caagaagcta agtggtctaa caataagata
atcccagcat tctccaagta 1740tcttgaaaac gcttccgtat cctcctccgg
tgtggcccta ctagcaccat catatttttc 1800cgtctgccag cagcaggaag
atatctctga tcatgctttg agatccttaa cagattttca 1860tggtctagtc
agatcctctt gcgtgatttt cagattgtgc aatgatttgg ctacttcagc
1920cgcagagtta gagaggggtg aaaccacgaa ctcaattatt agttatatgc
acgagaatga 1980tggaacatcc gaagaacaag cccgtgaaga attaagaaaa
ctgatcgatg ctgaatggaa 2040gaagatgaat agagaaagag tttccgacag
cactttgctg cctaaagcat tcatggagat 2100agctgttaac atggctaggg
tttcacactg tacataccaa tacggggacg gtcttggaag 2160gcccgactac
gccactgaaa atagaattaa actgctactg attgatcctt tccccattaa
2220ccagttaatg tacgtgtaat agggatccga attcacccag ctttcttgta
caaagtggtt 2280cgatctagag ggcccttcga aggtaagcct atccctaacc
ctctcctcgg tctcgattct 2340acgcgtaccg gtcatcatca ccatcaccat
tgagtttaaa cccgctgatc ctagagggcc 2400gcatcatgta attagttatg
tcacgcttac attcacgccc tccccccaca tccgctctaa 2460ccgaaaagga
aggagttaga caacctgaag tctaggtccc tatttatttt tttatagtta
2520tgttagtatt aagaacgtta tttatatttc aaatttttct tttttttctg
tacagacgcg 2580tgtacgcatg taacattata ctgaaaacct tgcttgagaa
ggttttggga cgctcgaagg 2640ctttaatttg caagctgcgg ccctgcatta
atgaatcggc caacgcgcgg ggagaggcgg 2700tttgcgtatt gggcgctctt
ccgcttcctc gctcactgac tcgctgcgct cggtcgttcg 2760gctgcggcga
gcggtatcag ctcactcaaa ggcggtaata cggttatcca cagaatcagg
2820ggataacgca ggaaagaaca tgtgagcaaa aggccagcaa aagcccagga
accgtaaaaa 2880ggccgcgttg ctggcgtttt tccataggct ccgcccccct
gacgagcatc acaaaaatcg 2940acgctcaagt cagaggtggc gaaacccgac
aggactataa agataccagg cgtttccccc 3000tggaagctcc ctcgtgcgct
ctcctgttcc gaccctgccg cttaccggat acctgtccgc 3060ctttctccct
tcgggaagcg tggcgctttc tcatagctca cgctgtaggt atctcagttc
3120ggtgtaggtc gttcgctcca agctgggctg tgtgcacgaa ccccccgttc
agcccgaccg 3180ctgcgcctta tccggtaact atcgtcttga gtccaacccg
gtaagacacg acttatcgcc 3240actggcagca gccactggta acaggattag
cagagcgagg tatgtaggcg gtgctacaga 3300gttcttgaag tggtggccta
actacggcta cactagaagg acagtatttg gtatctgcgc 3360tctgctgaag
ccagttacct tcggaaaaag agttggtagc tcttgatccg gcaaacaaac
3420caccgctggt agcggtggtt tttttgtttg caagcagcag attacgcgca
gaaaaaaagg 3480atctcaagaa gatcctttga tcttttctac ggggtctgac
gctcagtgga acgaaaactc 3540acgttaaggg attttggtca tgagattatc
aaaaaggatc ttcacctaga tccttttaaa 3600ttaaaaatga agttttaaat
caatctaaag tatatatgag taaacttggt ctgacagtta 3660ccaatgctta
atcagtgagg cacctatctc agcgatctgt ctatttcgtt catccatagt
3720tgcctgactc cccgtcgtgt agataactac gatacgggag cgcttaccat
ctggccccag 3780tgctgcaatg ataccgcgag acccacgctc accggctcca
gatttatcag caataaacca 3840gccagccgga agggccgagc gcagaagtgg
tcctgcaact ttatccgcct ccatccagtc 3900tattaattgt tgccgggaag
ctagagtaag tagttcgcca gttaatagtt tgcgcaacgt 3960tgttggcatt
gctacaggca tcgtggtgtc actctcgtcg tttggtatgg cttcattcag
4020ctccggttcc caacgatcaa ggcgagttac atgatccccc atgttgtgca
aaaaagcggt 4080tagctccttc ggtcctccga tcgttgtcag aagtaagttg
gccgcagtgt tatcactcat 4140ggttatggca gcactgcata attctcttac
tgtcatgcca tccgtaagat gcttttctgt 4200gactggtgag tactcaacca
agtcattctg agaatagtgt atgcggcgac cgagttgctc 4260ttgcccggcg
tcaatacggg ataatagtgt atcacatagc agaactttaa aagtgctcat
4320cattggaaaa
cgttcttcgg ggcgaaaact ctcaaggatc ttaccgctgt tgagatccag
4380ttcgatgtaa cccactcgtg cacccaactg atcttcagca tcttttactt
tcaccagcgt 4440ttctgggtga gcaaaaacag gaaggcaaaa tgccgcaaaa
aagggaataa gggcgacacg 4500gaaatgttga atactcatac tcttcctttt
tcaatgggta ataactgata taattaaatt 4560gaagctctaa tttgtgagtt
tagtatacat gcatttactt ataatacagt tttttagttt 4620tgctggccgc
atcttctcaa atatgcttcc cagcctgctt ttctgtaacg ttcaccctct
4680accttagcat cccttccctt tgcaaatagt cctcttccaa caataataat
gtcagatcct 4740gtagagacca catcatccac ggttctatac tgttgaccca
atgcgtctcc cttgtcatct 4800aaacccacac cgggtgtcat aatcaaccaa
tcgtaacctt catctcttcc acccatgtct 4860ctttgagcaa taaagccgat
aacaaaatct ttgtcgctct tcgcaatgtc aacagtaccc 4920ttagtatatt
ctccagtaga tagggagccc ttgcatgaca attctgctaa catcaaaagg
4980cctctaggtt cctttgttac ttcttctgcc gcctgcttca aaccgctaac
aatacctggg 5040cccaccacac cgtgtgcatt cgtaatgtct gcccattctg
ctattctgta tacacccgca 5100gagtactgca atttgactgt attaccaatg
tcagcaaatt ttctgtcttc gaagagtaaa 5160aaattgtact tggcggataa
tgcctttagc ggcttaactg tgccctccat ggaaaaatca 5220gtcaagatat
ccacatgtgt ttttagtaaa caaattttgg gacctaatgc ttcaactaac
5280tccagtaatt ccttggtggt acgaacatcc aatgaagcac acaagtttgt
ttgcttttcg 5340tgcatgatat taaatagctt ggcagcaaca ggactaggat
gagtagcagc acgttcctta 5400tatgtagctt tcgacatgat ttatcttcgt
ttcctgcagg tttttgttct gtgcagttgg 5460gttaagaata ctgggcaatt
tcatgtttct tcaacactac atatgcgtat atataccaat 5520ctaagtctgt
gctccttcct tcgttcttcc ttctgttcgg agattaccga atcaaaaaaa
5580tttcaaagaa accgaaatca aaaaaaagaa taaaaaaaaa atgatgaatt
gaattgaaaa 5640gctagcttat cgatgataag ctgtcaaaga tgagaattaa
ttccacggac tatagactat 5700actagatact ccgtctactg tacgatacac
ttccgctcag gtccttgtcc tttaacgagg 5760ccttaccact cttttgttac
tctattgatc cagctcagca aaggcagtgt gatctaagat 5820tctatcttcg
cgatgtagta aaactagcta gaccgagaaa gagactagaa atgcaaaagg
5880cacttctaca atggctgcca tcattattat ccgatgtgac gctgcagctt
ctcaatgata 5940ttcgaatacg ctttgaggag atacagccta atatccgaca
aactgtttta cagatttacg 6000atcgtacttg ttacccatca ttgaattttg
aacatccgaa cctgggagtt ttccctgaaa 6060cagatagtat atttgaacct
gtataataat atatagtcta gcgctttacg gaagacaatg 6120tatgtatttc
ggttcctgga gaaactattg catctattgc ataggtaatc ttgcacgtcg
6180catccccggt tcattttctg cgtttccatc ttgcacttca atagcatatc
tttgttaacg 6240aagcatctgt gcttcatttt gtagaacaaa aatgcaacgc
gagagcgcta atttttcaaa 6300caaagaatct gagctgcatt tttacagaac
agaaatgcaa cgcgaaagcg ctattttacc 6360aacgaagaat ctgtgcttca
tttttgtaaa acaaaaatgc aacgcgacga gagcgctaat 6420ttttcaaaca
aagaatctga gctgcatttt tacagaacag aaatgcaacg cgagagcgct
6480attttaccaa caaagaatct atacttcttt tttgttctac aaaaatgcat
cccgagagcg 6540ctatttttct aacaaagcat cttagattac tttttttctc
ctttgtgcgc tctataatgc 6600agtctcttga taactttttg cactgtaggt
ccgttaaggt tagaagaagg ctactttggt 6660gtctattttc tcttccataa
aaaaagcctg actccacttc ccgcgtttac tgattactag 6720cgaagctgcg
ggtgcatttt ttcaagataa aggcatcccc gattatattc tataccgatg
6780tggattgcgc atactttgtg aacagaaagt gatagcgttg atgattcttc
attggtcaga 6840aaattatgaa cggtttcttc tattttgtct ctatatacta
cgtataggaa atgtttacat 6900tttcgtattg ttttcgattc actctatgaa
tagttcttac tacaattttt ttgtctaaag 6960agtaatacta gagataaaca
taaaaaatgt agaggtcgag tttagatgca agttcaagga 7020gcgaaaggtg
gatgggtagg ttatataggg atatagcaca gagatatata gcaaagagat
7080acttttgagc aatgtttgtg gaagcggtat tcgcaatggg aagctccacc
ccggttgata 7140atcagaaaag ccccaaaaac aggaagattg tataagcaaa
tatttaaatt gtaaacgtta 7200atattttgtt aaaattcgcg ttaaattttt
gttaaatcag ctcatttttt aacgaatagc 7260ccgaaatcgg caaaatccct
tataaatcaa aagaatagac cgagataggg ttgagtgttg 7320ttccagtttc
caacaagagt ccactattaa agaacgtgga ctccaacgtc aaagggcgaa
7380aaagggtcta tcagggcgat ggcccactac gtgaaccatc accctaatca
agttttttgg 7440ggtcgaggtg ccgtaaagca gtaaatcgga agggtaaacg
gatgccccca tttagagctt 7500gacggggaaa gccggcgaac gtggcgagaa
aggaagggaa gaaagcgaaa ggagcggggg 7560ctagggcggt gggaagtgta
ggggtcacgc tgggcgtaac caccacaccc gccgcgctta 7620atggggcgct
acagggcgcg tggggatgat ccactagt 7658401746DNAArtificial
SequenceSynthetic Construct 40catcttaagc ttgtttaact ttaagaagga
gatatacata tgtgcgccac cagcagccag 60ttcacccaga tcaccgagca taatagccgt
cggtccgcga actaccagcc caacctgtgg 120aacttcgagt tcctgcagag
cctggaaaac gacctgaagg tggagaagct cgaagagaag 180gccaccaagc
tggaggagga ggtgcgttgc atgatcaacc gggtggacac ccagcccctg
240agcctgctgg agctcatcga cgacgtgcag cgcctgggcc tgacctacaa
gtttgagaaa 300gatatcatca aggcgctgga gaacatcgtc ctgctggacg
agaataagaa gaacaaaagc 360gatctgcacg cgaccgccct gagcttccgc
ctgctgcggc agcatggctt tgaggtgagc 420caggacgtgt tcgagcgctt
caaggacaaa gaagggggct tctccgggga actgaagggt 480gacgtgcagg
gcctgctgag cctgtacgag gccagctatc tcggtttcga aggcgaaaat
540ctgctggagg aggcccgtac cttcagcatc acccatctga agaacaacct
caaggagggg 600atcaacacga aggtggccga gcaggtgtcc cacgcgctgg
agctgccgta tcatcaacgc 660ctgcaccgcc tggaggcgcg gtggtttctg
gacaagtacg aacccaagga gccgcatcac 720cagctgctgc tggaactggc
caaactcgat ttcaacatgg tccagaccct gcaccaaaaa 780gagctgcagg
acctgagccg gtggtggacc gagatgggcc tcgccagcaa gctggatttc
840gtgcgggacc gcctgatgga agtgtacttc tgggcgctgg gcatggcgcc
ggacccgcag 900ttcggcgaat gccgcaaggc cgtcaccaag atgttcggtc
tggtcaccat tatcgatgac 960gtctatgacg tgtacggtac cctggacgaa
ctgcagctct tcaccgacgc ggtggaacgc 1020tgggacgtga acgccatcaa
cacgctgccc gactatatga agctgtgctt cctggccctg 1080tacaacaccg
tgaacgacac gtcctactcc atcctgaagg agaagggcca caataacctg
1140agctatctga ccaaaagctg gcgcgaactg tgcaaggcct tcctgcaaga
agccaagtgg 1200agcaataaca agatcatccc cgccttcagc aagtacctgg
agaacgccag cgtgtcctcc 1260agcggggtcg cgctgctggc gccgagctac
ttctcggtct gccagcagca ggaagatatc 1320tcggaccacg ccctccgctc
cctgaccgac ttccacggcc tggtgcgctc gtcctgcgtg 1380atctttcggc
tgtgcaacga tctggcgacc tcggcggcgg aactcgaacg cggcgaaacc
1440accaacagca tcatcagcta catgcacgag aacgacggca cgagcgagga
acaggcccgc 1500gaagagctgc gcaagctgat cgacgccgag tggaagaaaa
tgaaccgcga gcgcgtgtcg 1560gacagcaccc tgctgccgaa ggcgttcatg
gagatcgccg tgaacatggc ccgcgtgagc 1620cactgcacct accaatatgg
ggacgggctg ggccgcccgg attacgccac cgagaaccgc 1680atcaagctgc
tgctcatcga cccgttcccc atcaaccagc tgatgtacgt gtgaggatcc 1740cgtaac
1746414768DNAArtificial SequenceSynthetic Construct 41ctcgggccgt
ctcttgggct tgatcggcct tcttgcgcat ctcacgcgct cctgcggcgg 60cctgtagggc
aggctcatac ccctgccgaa ccgcttttgt cagccggtcg gccacggctt
120ccggcgtctc aacgcgcttt gagattccca gcttttcggc caatccctgc
ggtgcatagg 180cgcgtggctc gaccgcttgc gggctgatgg tgacgtggcc
cactggtggc cgctccaggg 240cctcgtagaa cgcctgaatg cgcgtgtgac
gtgccttgct gccctcgatg ccccgttgca 300gccctagatc ggccacagcg
gccgcaaacg tggtctggtc gcgggtcatc tgcgctttgt 360tgccgatgaa
ctccttggcc gacagcctgc cgtcctgcgt cagcggcacc acgaacgcgg
420tcatgtgcgg gctggtttcg tcacggtgga tgctggccgt cacgatgcga
tccgccccgt 480acttgtccgc cagccacttg tgcgccttct cgaagaacgc
cgcctgctgt tcttggctgg 540ccgacttcca ccattccggg ctggccgtca
tgacgtactc gaccgccaac acagcgtcct 600tgcgccgctt ctctggcagc
aactcgcgca gtcggcccat cgcttcatcg gtgctgctgg 660ccgcccagtg
ctcgttctct ggcgtcctgc tggcgtcagc gttgggcgtc tcgcgctcgc
720ggtaggcgtg cttgagactg gccgccacgt tgcccatttt cgccagcttc
ttgcatcgca 780tgatcgcgta tgccgccatg cctgcccctc ccttttggtg
tccaaccggc tcgacggggg 840cagcgcaagg cggtgcctcc ggcgggccac
tcaatgcttg agtatactca ctagactttg 900cttcgcaaag tcgtgaccgc
ctacggcggc tgcggcgccc tacgggcttg ctctccgggc 960ttcgccctgc
gcggtcgctg cgctcccttg ccagcccgtg gatatgtgga cgatggccgc
1020gagcggccac cggctggctc gcttcgctcg gcccgtggac aaccctgctg
gacaagctga 1080tggacaggct gcgcctgccc acgagcttga ccacagggat
tgcccaccgg ctacccagcc 1140ttcgaccaca tacccaccgg ctccaactgc
gcggcctgcg gccttgcccc atcaattttt 1200ttaattttct ctggggaaaa
gcctccggcc tgcggcctgc gcgcttcgct tgccggttgg 1260acaccaagtg
gaaggcgggt caaggctcgc gcagcgaccg cgcagcggct tggccttgac
1320gcgcctggaa cgacccaagc ctatgcgagt gggggcagtc gaaggcgaag
cccgcccgcc 1380tgccccccga gcctcacggc ggcgagtgcg ggggttccaa
gggggcagcg ccaccttggg 1440caaggccgaa ggccgcgcag tcgatcaaca
agccccggag gggccacttt ttgccggagg 1500gggagccgcg ccgaaggcgt
gggggaaccc cgcaggggtg cccttctttg ggcaccaaag 1560aactagatat
agggcgaaat gcgaaagact taaaaatcaa caacttaaaa aaggggggta
1620cgcaacagct cattgcggca ccccccgcaa tagctcattg cgtaggttaa
agaaaatctg 1680taattgactg ccacttttac gcaacgcata attgttgtcg
cgctgccgaa aagttgcagc 1740tgattgcgca tggtgccgca accgtgcggc
accctaccgc atggagataa gcatggccac 1800gcagtccaga gaaatcggca
ttcaagccaa gaacaagccc ggtcactggg tgcaaacgga 1860acgcaaagcg
catgaggcgt gggccgggct tattgcgagg aaacccacgg cggcaatgct
1920gctgcatcac ctcgtggcgc agatgggcca ccagaacgcc gtggtggtca
gccagaagac 1980actttccaag ctcatcggac gttctttgcg gacggtccaa
tacgcagtca aggacttggt 2040ggccgagcgc tggatctccg tcgtgaagct
caacggcccc ggcaccgtgt cggcctacgt 2100ggtcaatgac cgcgtggcgt
ggggccagcc ccgcgaccag ttgcgcctgt cggtgttcag 2160tgccgccgtg
gtggttgatc acgacgacca ggacgaatcg ctgttggggc atggcgacct
2220gcgccgcatc ccgaccctgt atccgggcga gcagcaacta ccgaccggcc
ccggcgagga 2280gccgcccagc cagcccggca ttccgggcat ggaaccagac
ctgccagcct tgaccgaaac 2340ggaggaatgg gaacggcgcg ggcagcagcg
cctgccgatg cccgatgagc cgtgttttct 2400ggacgatggc gagccgttgg
agccgccgac acgggtcacg ctgccgcgcc ggtagcactt 2460gggttgcgca
gcaacccgta agtgcgctgt tccagactat cggctgtagc cgcctcgccg
2520ccctatacct tgtctgcctc cccgcgttgc gtcgcggtgc atggagccgg
gccacctcga 2580cctgaatgga agccggcggc acctcgctaa cggattcacc
gtttttatca ggctctggga 2640ggcagaataa atgatcatat cgtcaattat
tacctccacg gggagagcct gagcaaactg 2700gcctcaggca tttgagaagc
acacggtcac actgcttccg gtagtcaata aaccggtaaa 2760ccagcaatag
acataagcgg ctatttaacg accctgccct gaaccgacga ccgggtcgaa
2820tttgctttcg aatttctgcc attcatccgc ttattatcac ttattcaggc
gtagcaccag 2880gcgtttaagg gcaccaataa ctgccttaaa aaaattacgc
cccgccctgc cactcatcgc 2940agtcggccta ttggttaaaa aatgagctga
tttaacaaaa atttaacgcg aattttaaca 3000aaatattaac gcttacaatt
tccattcgcc attcaggctg cgcaactgtt gggaagggcg 3060atcggtgcgg
gcctcttcgc tattacgcca gctggcgaaa gggggatgtg ctgcaaggcg
3120attaagttgg gtaacgccag ggttttccca gtcacgacgt tgtaaaacga
cggccagtga 3180gcgcgcgtaa tacgactcac tatagggcga attggagctc
caccgcggtg gcggccgctc 3240tagaactagt ggatcccccg ggctgcagga
attcgatatc aagcttatcg ataccgtcga 3300cctcgagggg gggcccggta
cccagctttt gttcccttta gtgagggtta attgcgcgct 3360tggcgtaatc
atggtcatag ctgtttcctg tgtgaaattg ttatccgctc acaattccac
3420acaacatacg agccggaagc ataaagtgta aagcctgggg tgcctaatga
gtgagctaac 3480tcacattaat tgcgttgcgc tcactgcccg ctttccagtc
gggaaacctg tcgtgccagc 3540tgcattaatg aatcggccaa cgcgcgggga
gaggcggttt gcgtattggg cgcatgcata 3600aaaactgttg taattcatta
agcattctgc cgacatggaa gccatcacaa acggcatgat 3660gaacctgaat
cgccagcggc atcagcacct tgtcgccttg cgtataatat ttgcccatgg
3720acgcacaccg tggaaacgga tgaaggcacg aacccagttg acataagcct
gttcggttcg 3780taaactgtaa tgcaagtagc gtatgcgctc acgcaactgg
tccagaacct tgaccgaacg 3840cagcggtggt aacggcgcag tggcggtttt
catggcttgt tatgactgtt tttttgtaca 3900gtctatgcct cgggcatcca
agcagcaagc gcgttacgcc gtgggtcgat gtttgatgtt 3960atggagcagc
aacgatgtta cgcagcagca acgatgttac gcagcagggc agtcgcccta
4020aaacaaagtt aggtggctca agtatgggca tcattcgcac atgtaggctc
ggccctgacc 4080aagtcaaatc catgcgggct gctcttgatc ttttcggtcg
tgagttcgga gacgtagcca 4140cctactccca acatcagccg gactccgatt
acctcgggaa cttgctccgt agtaagacat 4200tcatcgcgct tgctgccttc
gaccaagaag cggttgttgg cgctctcgcg gcttacgttc 4260tgcccaggtt
tgagcagccg cgtagtgaga tctatatcta tgatctcgca gtctccggcg
4320agcaccggag gcagggcatt gccaccgcgc tcatcaatct cctcaagcat
gaggccaacg 4380cgcttggtgc ttatgtgatc tacgtgcaag cagattacgg
tgacgatccc gcagtggctc 4440tctatacaaa gttgggcata cgggaagaag
tgatgcactt tgatatcgac ccaagtaccg 4500ccacctaaca attcgttcaa
gccgagatcg gcttcccggc cgcggagttg ttcggtaaat 4560tgtcacaacg
ccgccaggtg gcacttttcg gggaaatgtg cgcgcccgcg ttcctgctgg
4620cgctgggcct gtttctggcg ctggacttcc cgctgttccg tcagcagctt
ttcgcccacg 4680gccttgatga tcgcggcggc cttggcctgc atatcccgat
tcaacggccc cagggcgtcc 4740agaacgggct tcaggcgctc ccgaaggt
4768426466DNAArtificial SequenceSynthetic Construct 42ctcgggccgt
ctcttgggct tgatcggcct tcttgcgcat ctcacgcgct cctgcggcgg 60cctgtagggc
aggctcatac ccctgccgaa ccgcttttgt cagccggtcg gccacggctt
120ccggcgtctc aacgcgcttt gagattccca gcttttcggc caatccctgc
ggtgcatagg 180cgcgtggctc gaccgcttgc gggctgatgg tgacgtggcc
cactggtggc cgctccaggg 240cctcgtagaa cgcctgaatg cgcgtgtgac
gtgccttgct gccctcgatg ccccgttgca 300gccctagatc ggccacagcg
gccgcaaacg tggtctggtc gcgggtcatc tgcgctttgt 360tgccgatgaa
ctccttggcc gacagcctgc cgtcctgcgt cagcggcacc acgaacgcgg
420tcatgtgcgg gctggtttcg tcacggtgga tgctggccgt cacgatgcga
tccgccccgt 480acttgtccgc cagccacttg tgcgccttct cgaagaacgc
cgcctgctgt tcttggctgg 540ccgacttcca ccattccggg ctggccgtca
tgacgtactc gaccgccaac acagcgtcct 600tgcgccgctt ctctggcagc
aactcgcgca gtcggcccat cgcttcatcg gtgctgctgg 660ccgcccagtg
ctcgttctct ggcgtcctgc tggcgtcagc gttgggcgtc tcgcgctcgc
720ggtaggcgtg cttgagactg gccgccacgt tgcccatttt cgccagcttc
ttgcatcgca 780tgatcgcgta tgccgccatg cctgcccctc ccttttggtg
tccaaccggc tcgacggggg 840cagcgcaagg cggtgcctcc ggcgggccac
tcaatgcttg agtatactca ctagactttg 900cttcgcaaag tcgtgaccgc
ctacggcggc tgcggcgccc tacgggcttg ctctccgggc 960ttcgccctgc
gcggtcgctg cgctcccttg ccagcccgtg gatatgtgga cgatggccgc
1020gagcggccac cggctggctc gcttcgctcg gcccgtggac aaccctgctg
gacaagctga 1080tggacaggct gcgcctgccc acgagcttga ccacagggat
tgcccaccgg ctacccagcc 1140ttcgaccaca tacccaccgg ctccaactgc
gcggcctgcg gccttgcccc atcaattttt 1200ttaattttct ctggggaaaa
gcctccggcc tgcggcctgc gcgcttcgct tgccggttgg 1260acaccaagtg
gaaggcgggt caaggctcgc gcagcgaccg cgcagcggct tggccttgac
1320gcgcctggaa cgacccaagc ctatgcgagt gggggcagtc gaaggcgaag
cccgcccgcc 1380tgccccccga gcctcacggc ggcgagtgcg ggggttccaa
gggggcagcg ccaccttggg 1440caaggccgaa ggccgcgcag tcgatcaaca
agccccggag gggccacttt ttgccggagg 1500gggagccgcg ccgaaggcgt
gggggaaccc cgcaggggtg cccttctttg ggcaccaaag 1560aactagatat
agggcgaaat gcgaaagact taaaaatcaa caacttaaaa aaggggggta
1620cgcaacagct cattgcggca ccccccgcaa tagctcattg cgtaggttaa
agaaaatctg 1680taattgactg ccacttttac gcaacgcata attgttgtcg
cgctgccgaa aagttgcagc 1740tgattgcgca tggtgccgca accgtgcggc
accctaccgc atggagataa gcatggccac 1800gcagtccaga gaaatcggca
ttcaagccaa gaacaagccc ggtcactggg tgcaaacgga 1860acgcaaagcg
catgaggcgt gggccgggct tattgcgagg aaacccacgg cggcaatgct
1920gctgcatcac ctcgtggcgc agatgggcca ccagaacgcc gtggtggtca
gccagaagac 1980actttccaag ctcatcggac gttctttgcg gacggtccaa
tacgcagtca aggacttggt 2040ggccgagcgc tggatctccg tcgtgaagct
caacggcccc ggcaccgtgt cggcctacgt 2100ggtcaatgac cgcgtggcgt
ggggccagcc ccgcgaccag ttgcgcctgt cggtgttcag 2160tgccgccgtg
gtggttgatc acgacgacca ggacgaatcg ctgttggggc atggcgacct
2220gcgccgcatc ccgaccctgt atccgggcga gcagcaacta ccgaccggcc
ccggcgagga 2280gccgcccagc cagcccggca ttccgggcat ggaaccagac
ctgccagcct tgaccgaaac 2340ggaggaatgg gaacggcgcg ggcagcagcg
cctgccgatg cccgatgagc cgtgttttct 2400ggacgatggc gagccgttgg
agccgccgac acgggtcacg ctgccgcgcc ggtagcactt 2460gggttgcgca
gcaacccgta agtgcgctgt tccagactat cggctgtagc cgcctcgccg
2520ccctatacct tgtctgcctc cccgcgttgc gtcgcggtgc atggagccgg
gccacctcga 2580cctgaatgga agccggcggc acctcgctaa cggattcacc
gtttttatca ggctctggga 2640ggcagaataa atgatcatat cgtcaattat
tacctccacg gggagagcct gagcaaactg 2700gcctcaggca tttgagaagc
acacggtcac actgcttccg gtagtcaata aaccggtaaa 2760ccagcaatag
acataagcgg ctatttaacg accctgccct gaaccgacga ccgggtcgaa
2820tttgctttcg aatttctgcc attcatccgc ttattatcac ttattcaggc
gtagcaccag 2880gcgtttaagg gcaccaataa ctgccttaaa aaaattacgc
cccgccctgc cactcatcgc 2940agtcggccta ttggttaaaa aatgagctga
tttaacaaaa atttaacgcg aattttaaca 3000aaatattaac gcttacaatt
tccattcgcc attcaggctg cgcaactgtt gggaagggcg 3060atcggtgcgg
gcctcttcgc tattacgcca gctggcgaaa gggggatgtg ctgcaaggcg
3120attaagttgg gtaacgccag ggttttccca gtcacgacgt tgtaaaacga
cggccagtga 3180gcgcgcgtaa tacgactcac tatagggcga attggagctc
caccgcggtg gcggccgctc 3240tagaactagt ggatcctcac acgtacatca
gctggttgat ggggaacggg tcgatgagca 3300gcagcttgat gcggttctcg
gtggcgtaat ccgggcggcc cagcccgtcc ccatattggt 3360aggtgcagtg
gctcacgcgg gccatgttca cggcgatctc catgaacgcc ttcggcagca
3420gggtgctgtc cgacacgcgc tcgcggttca ttttcttcca ctcggcgtcg
atcagcttgc 3480gcagctcttc gcgggcctgt tcctcgctcg tgccgtcgtt
ctcgtgcatg tagctgatga 3540tgctgttggt ggtttcgccg cgttcgagtt
ccgccgccga ggtcgccaga tcgttgcaca 3600gccgaaagat cacgcaggac
gagcgcacca ggccgtggaa gtcggtcagg gagcggaggg 3660cgtggtccga
gatatcttcc tgctgctggc agaccgagaa gtagctcggc gccagcagcg
3720cgaccccgct ggaggacacg ctggcgttct ccaggtactt gctgaaggcg
gggatgatct 3780tgttattgct ccacttggct tcttgcagga aggccttgca
cagttcgcgc cagcttttgg 3840tcagatagct caggttattg tggcccttct
ccttcaggat ggagtaggac gtgtcgttca 3900cggtgttgta cagggccagg
aagcacagct tcatatagtc gggcagcgtg ttgatggcgt 3960tcacgtccca
gcgttccacc gcgtcggtga agagctgcag ttcgtccagg gtaccgtaca
4020cgtcatagac gtcatcgata atggtgacca gaccgaacat cttggtgacg
gccttgcggc 4080attcgccgaa ctgcgggtcc ggcgccatgc ccagcgccca
gaagtacact tccatcaggc 4140ggtcccgcac gaaatccagc ttgctggcga
ggcccatctc ggtccaccac cggctcaggt 4200cctgcagctc tttttggtgc
agggtctgga ccatgttgaa atcgagtttg gccagttcca 4260gcagcagctg
gtgatgcggc tccttgggtt cgtacttgtc cagaaaccac cgcgcctcca
4320ggcggtgcag gcgttgatga tacggcagct ccagcgcgtg ggacacctgc
tcggccacct 4380tcgtgttgat cccctccttg aggttgttct tcagatgggt
gatgctgaag gtacgggcct 4440cctccagcag attttcgcct tcgaaaccga
gatagctggc ctcgtacagg ctcagcaggc 4500cctgcacgtc acccttcagt
tccccggaga agcccccttc tttgtccttg aagcgctcga 4560acacgtcctg
gctcacctca aagccatgct gccgcagcag gcggaagctc agggcggtcg
4620cgtgcagatc gcttttgttc ttcttattct cgtccagcag gacgatgttc
tccagcgcct 4680tgatgatatc tttctcaaac ttgtaggtca ggcccaggcg
ctgcacgtcg tcgatgagct 4740ccagcaggct caggggctgg gtgtccaccc
ggttgatcat gcaacgcacc tcctcctcca 4800gcttggtggc cttctcttcg
agcttctcca ccttcaggtc gttttccagg ctctgcagga 4860actcgaagtt
ccacaggttg ggctggtagt tcgcggaccg acggctatta tgctcggtga
4920tctgggtgaa
ctggctgctg gtggcgcaca tatgtatatc tccttcttaa agttaaacaa
4980gcttatcgat accgtcgacc tcgagggggg gcccggtacc cagcttttgt
tccctttagt 5040gagggttaat tgcgcgcttg gcgtaatcat ggtcatagct
gtttcctgtg tgaaattgtt 5100atccgctcac aattccacac aacatacgag
ccggaagcat aaagtgtaaa gcctggggtg 5160cctaatgagt gagctaactc
acattaattg cgttgcgctc actgcccgct ttccagtcgg 5220gaaacctgtc
gtgccagctg cattaatgaa tcggccaacg cgcggggaga ggcggtttgc
5280gtattgggcg catgcataaa aactgttgta attcattaag cattctgccg
acatggaagc 5340catcacaaac ggcatgatga acctgaatcg ccagcggcat
cagcaccttg tcgccttgcg 5400tataatattt gcccatggac gcacaccgtg
gaaacggatg aaggcacgaa cccagttgac 5460ataagcctgt tcggttcgta
aactgtaatg caagtagcgt atgcgctcac gcaactggtc 5520cagaaccttg
accgaacgca gcggtggtaa cggcgcagtg gcggttttca tggcttgtta
5580tgactgtttt tttgtacagt ctatgcctcg ggcatccaag cagcaagcgc
gttacgccgt 5640gggtcgatgt ttgatgttat ggagcagcaa cgatgttacg
cagcagcaac gatgttacgc 5700agcagggcag tcgccctaaa acaaagttag
gtggctcaag tatgggcatc attcgcacat 5760gtaggctcgg ccctgaccaa
gtcaaatcca tgcgggctgc tcttgatctt ttcggtcgtg 5820agttcggaga
cgtagccacc tactcccaac atcagccgga ctccgattac ctcgggaact
5880tgctccgtag taagacattc atcgcgcttg ctgccttcga ccaagaagcg
gttgttggcg 5940ctctcgcggc ttacgttctg cccaggtttg agcagccgcg
tagtgagatc tatatctatg 6000atctcgcagt ctccggcgag caccggaggc
agggcattgc caccgcgctc atcaatctcc 6060tcaagcatga ggccaacgcg
cttggtgctt atgtgatcta cgtgcaagca gattacggtg 6120acgatcccgc
agtggctctc tatacaaagt tgggcatacg ggaagaagtg atgcactttg
6180atatcgaccc aagtaccgcc acctaacaat tcgttcaagc cgagatcggc
ttcccggccg 6240cggagttgtt cggtaaattg tcacaacgcc gccaggtggc
acttttcggg gaaatgtgcg 6300cgcccgcgtt cctgctggcg ctgggcctgt
ttctggcgct ggacttcccg ctgttccgtc 6360agcagctttt cgcccacggc
cttgatgatc gcggcggcct tggcctgcat atcccgattc 6420aacggcccca
gggcgtccag aacgggcttc aggcgctccc gaaggt 6466436957DNAArtificial
SequenceSynthetic Construct 43tggcgaatgg gacgcgccct gtagcggcgc
attaagcgcg gcgggtgtgg tggttacgcg 60cagcgtgacc gctacacttg ccagcgccct
agcgcccgct cctttcgctt tcttcccttc 120ctttctcgcc acgttcgccg
gctttccccg tcaagctcta aatcgggggc tccctttagg 180gttccgattt
agtgctttac ggcacctcga ccccaaaaaa cttgattagg gtgatggttc
240acgtagtggg ccatcgccct gatagacggt ttttcgccct ttgacgttgg
agtccacgtt 300ctttaatagt ggactcttgt tccaaactgg aacaacactc
aaccctatct cggtctattc 360ttttgattta taagggattt tgccgatttc
ggcctattgg ttaaaaaatg agctgattta 420acaaaaattt aacgcgaatt
ttaacaaaat attaacgttt acaatttcag gtggcacttt 480tcggggaaat
gtgcgcggaa cccctatttg tttatttttc taaatacatt caaatatgta
540tccgctcatg aattaattct tagaaaaact catcgagcat caaatgaaac
tgcaatttat 600tcatatcagg attatcaata ccatattttt gaaaaagccg
tttctgtaat gaaggagaaa 660actcaccgag gcagttccat aggatggcaa
gatcctggta tcggtctgcg attccgactc 720gtccaacatc aatacaacct
attaatttcc cctcgtcaaa aataaggtta tcaagtgaga 780aatcaccatg
agtgacgact gaatccggtg agaatggcaa aagtttatgc atttctttcc
840agacttgttc aacaggccag ccattacgct cgtcatcaaa atcactcgca
tcaaccaaac 900cgttattcat tcgtgattgc gcctgagcga gacgaaatac
gcgatcgctg ttaaaaggac 960aattacaaac aggaatcgaa tgcaaccggc
gcaggaacac tgccagcgca tcaacaatat 1020tttcacctga atcaggatat
tcttctaata cctggaatgc tgttttcccg gggatcgcag 1080tggtgagtaa
ccatgcatca tcaggagtac ggataaaatg cttgatggtc ggaagaggca
1140taaattccgt cagccagttt agtctgacca tctcatctgt aacatcattg
gcaacgctac 1200ctttgccatg tttcagaaac aactctggcg catcgggctt
cccatacaat cgatagattg 1260tcgcacctga ttgcccgaca ttatcgcgag
cccatttata cccatataaa tcagcatcca 1320tgttggaatt taatcgcggc
ctagagcaag acgtttcccg ttgaatatgg ctcataacac 1380cccttgtatt
actgtttatg taagcagaca gttttattgt tcatgaccaa aatcccttaa
1440cgtgagtttt cgttccactg agcgtcagac cccgtagaaa agatcaaagg
atcttcttga 1500gatccttttt ttctgcgcgt aatctgctgc ttgcaaacaa
aaaaaccacc gctaccagcg 1560gtggtttgtt tgccggatca agagctacca
actctttttc cgaaggtaac tggcttcagc 1620agagcgcaga taccaaatac
tgtccttcta gtgtagccgt agttaggcca ccacttcaag 1680aactctgtag
caccgcctac atacctcgct ctgctaatcc tgttaccagt ggctgctgcc
1740agtggcgata agtcgtgtct taccgggttg gactcaagac gatagttacc
ggataaggcg 1800cagcggtcgg gctgaacggg gggttcgtgc acacagccca
gcttggagcg aacgacctac 1860accgaactga gatacctaca gcgtgagcta
tgagaaagcg ccacgcttcc cgaagggaga 1920aaggcggaca ggtatccggt
aagcggcagg gtcggaacag gagagcgcac gagggagctt 1980ccagggggaa
acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag
2040cgtcgatttt tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc
cagcaacgcg 2100gcctttttac ggttcctggc cttttgctgg ccttttgctc
acatgttctt tcctgcgtta 2160tcccctgatt ctgtggataa ccgtattacc
gcctttgagt gagctgatac cgctcgccgc 2220agccgaacga ccgagcgcag
cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg 2280tattttctcc
ttacgcatct gtgcggtatt tcacaccgca tatatggtgc actctcagta
2340caatctgctc tgatgccgca tagttaagcc agtatacact ccgctatcgc
tacgtgactg 2400ggtcatggct gcgccccgac acccgccaac acccgctgac
gcgccctgac gggcttgtct 2460gctcccggca tccgcttaca gacaagctgt
gaccgtctcc gggagctgca tgtgtcagag 2520gttttcaccg tcatcaccga
aacgcgcgag gcagctgcgg taaagctcat cagcgtggtc 2580gtgaagcgat
tcacagatgt ctgcctgttc atccgcgtcc agctcgttga gtttctccag
2640aagcgttaat gtctggcttc tgataaagcg ggccatgtta agggcggttt
tttcctgttt 2700ggtcactgat gcctccgtgt aagggggatt tctgttcatg
ggggtaatga taccgatgaa 2760acgagagagg atgctcacga tacgggttac
tgatgatgaa catgcccggt tactggaacg 2820ttgtgagggt aaacaactgg
cggtatggat gcggcgggac cagagaaaaa tcactcaggg 2880tcaatgccag
cgcttcgtta atacagatgt aggtgttcca cagggtagcc agcagcatcc
2940tgcgatgcag atccggaaca taatggtgca gggcgctgac ttccgcgttt
ccagacttta 3000cgaaacacgg aaaccgaaga ccattcatgt tgttgctcag
gtcgcagacg ttttgcagca 3060gcagtcgctt cacgttcgct cgcgtatcgg
tgattcattc tgctaaccag taaggcaacc 3120ccgccagcct agccgggtcc
tcaacgacag gagcacgatc atgcgcaccc gtggggccgc 3180catgccggcg
ataatggcct gcttctcgcc gaaacgtttg gtggcgggac cagtgacgaa
3240ggcttgagcg agggcgtgca agattccgaa taccgcaagc gacaggccga
tcatcgtcgc 3300gctccagcga aagcggtcct cgccgaaaat gacccagagc
gctgccggca cctgtcctac 3360gagttgcatg ataaagaaga cagtcataag
tgcggcgacg atagtcatgc cccgcgccca 3420ccggaaggag ctgactgggt
tgaaggctct caagggcatc ggtcgagatc ccggtgccta 3480atgagtgagc
taacttacat taattgcgtt gcgctcactg cccgctttcc agtcgggaaa
3540cctgtcgtgc cagctgcatt aatgaatcgg ccaacgcgcg gggagaggcg
gtttgcgtat 3600tgggcgccag ggtggttttt cttttcacca gtgagacggg
caacagctga ttgcccttca 3660ccgcctggcc ctgagagagt tgcagcaagc
ggtccacgct ggtttgcccc agcaggcgaa 3720aatcctgttt gatggtggtt
aacggcggga tataacatga gctgtcttcg gtatcgtcgt 3780atcccactac
cgagatatcc gcaccaacgc gcagcccgga ctcggtaatg gcgcgcattg
3840cgcccagcgc catctgatcg ttggcaacca gcatcgcagt gggaacgatg
ccctcattca 3900gcatttgcat ggtttgttga aaaccggaca tggcactcca
gtcgccttcc cgttccgcta 3960tcggctgaat ttgattgcga gtgagatatt
tatgccagcc agccagacgc agacgcgccg 4020agacagaact taatgggccc
gctaacagcg cgatttgctg gtgacccaat gcgaccagat 4080gctccacgcc
cagtcgcgta ccgtcttcat gggagaaaat aatactgttg atgggtgtct
4140ggtcagagac atcaagaaat aacgccggaa cattagtgca ggcagcttcc
acagcaatgg 4200catcctggtc atccagcgga tagttaatga tcagcccact
gacgcgttgc gcgagaagat 4260tgtgcaccgc cgctttacag gcttcgacgc
cgcttcgttc taccatcgac accaccacgc 4320tggcacccag ttgatcggcg
cgagatttaa tcgccgcgac aatttgcgac ggcgcgtgca 4380gggccagact
ggaggtggca acgccaatca gcaacgactg tttgcccgcc agttgttgtg
4440ccacgcggtt gggaatgtaa ttcagctccg ccatcgccgc ttccactttt
tcccgcgttt 4500tcgcagaaac gtggctggcc tggttcacca cgcgggaaac
ggtctgataa gagacaccgg 4560catactctgc gacatcgtat aacgttactg
gtttcacatt caccaccctg aattgactct 4620cttccgggcg ctatcatgcc
ataccgcgaa aggttttgcg ccattcgatg gtgtccggga 4680tctcgacgct
ctcccttatg cgactcctgc attaggaagc agcccagtag taggttgagg
4740ccgttgagca ccgccgccgc aaggaatggt gcatgcaagg agatggcgcc
caacagtccc 4800ccggccacgg ggcctgccac catacccacg ccgaaacaag
cgctcatgag cccgaagtgg 4860cgagcccgat cttccccatc ggtgatgtcg
gcgatatagg cgccagcaac cgcacctgtg 4920gcgccggtga tgccggccac
gatgcgtccg gcgtagagga tcgagatctc gatcccgcga 4980aattaatacg
actcactata ggggaattgt gagcggataa caattcccct ctagaaataa
5040ttttgtttaa ctttaagaag gagatataca tatgcgttgt agcgtgtcca
ccgaaaatgt 5100gtctttcacc gaaactgaaa ccgaagctcg tcgttctgcg
aactacgaac ctaacagctg 5160ggactatgat tacctgctgt cctccgacac
ggacgagtcc atcgaagtat acaaagacaa 5220agcgaaaaag ctggaagccg
aagttcgtcg cgagattaat aacgaaaaag cagaatttct 5280gaccctgctg
gaactgattg acaacgtcca gcgcctgggc ctgggttacc gtttcgagtc
5340tgatatccgt ggtgcgctgg atcgcttcgt ttcctccggc ggcttcgatg
cggtaaccaa 5400gacttccctg cacggtacgg cactgtcttt ccgtctgctg
cgtcaacacg gttttgaggt 5460ttctcaggaa gcgttcagcg gcttcaaaga
ccaaaacggc aacttcctgg agaacctgaa 5520ggaagatatc aaagctatcc
tgagcctgta cgaggccagc ttcctggctc tggaaggcga 5580aaacatcctg
gacgaggcga aggttttcgc aatctctcat ctgaaagaac tgtctgaaga
5640aaagatcggt aaagagctgg cagaacaggt gaaccatgca ctggaactgc
cactgcatcg 5700ccgtactcag cgtctggaag cagtatggtc tatcgaggcc
taccgtaaaa aggaggacgc 5760gaatcaggtt ctgctggagc tggcaattct
ggattacaac atgatccagt ctgtatacca 5820gcgtgatctg cgtgaaacgt
cccgttggtg gcgtcgtgtg ggtctggcga ccaaactgca 5880ctttgctcgt
gaccgcctga ttgagagctt ctactgggcc gtgggtgtag cattcgaacc
5940gcaatactcc gactgccgta actccgtcgc aaaaatgttt tctttcgtaa
ccattatcga 6000cgatatctac gatgtatacg gcaccctgga cgaactggag
ctgtttactg atgcagttga 6060gcgttgggac gtaaacgcca tcaacgacct
gccggattac atgaaactgt gctttctggc 6120tctgtataac actattaacg
aaatcgccta cgacaacctg aaagataaag gtgagaacat 6180cctgccgtat
ctgaccaaag cctgggctga cctgtgcaac gctttcctgc aagaagccaa
6240gtggctgtac aacaaatcta ctccgacctt tgacgactac ttcggcaacg
catggaaatc 6300ctcttctggc ccgctgcaac tggtgttcgc ttacttcgct
gtcgtgcaga acattaaaaa 6360ggaagagatc gaaaacctgc aaaaatacca
tgacaccatc tctcgtcctt cccatatctt 6420ccgtctgtgc aatgacctgg
ctagcgcgtc tgcggaaatt gcgcgtggtg aaaccgcaaa 6480tagcgtttct
tgttacatgc gcactaaagg tatctccgaa gaactggcta ccgaaagcgt
6540gatgaatctg atcgatgaaa cctggaaaaa gatgaacaag gaaaaactgg
gtggtagcct 6600gttcgcgaaa ccgttcgtgg aaaccgcgat caacctggca
cgtcaatctc actgcactta 6660tcataacggc gacgcgcata cctctccgga
tgagctgacc cgcaaacgcg ttctgtctgt 6720aatcactgaa ccgattctgc
cgtttgaacg ctaaggatcc gaattcgagc tccgtcgaca 6780agcttgcggc
cgcactcgag caccaccacc accaccactg agatccggct gctaacaaag
6840cccgaaagga agctgagttg gctgctgcca ccgctgagca ataactagca
taaccccttg 6900gggcctctaa acgggtcttg aggggttttt tgctgaaagg
aggaactata tccggat 6957446068DNAArtificial SequenceSynthetic
Construct 44gtttgacagc ttatcatcga ctgcacggtg caccaatgct tctggcgtca
ggcagccatc 60ggaagctgtg gtatggctgt gcaggtcgta aatcactgca taattcgtgt
cgctcaaggc 120gcactcccgt tctggataat gttttttgcg ccgacatcat
aacggttctg gcaaatattc 180tgaaatgagc tgttgacaat taatcatccg
gctcgtataa tgtgtggaat tgtgagcgga 240taacaatttc acacaggaaa
cagcgccgct gagaaaaagc gaagcggcac tgctctttaa 300caatttatca
gacaatctgt gtgggcactc gaccggaatt atcgattaac tttattatta
360aaaattaaag aggtatatat taatgtatcg attaaataag gaggaataaa
ccatgagatg 420tagcgtgtcc accgaaaatg tgtctttcac cgaaactgaa
accgaagctc gtcgttctgc 480gaactacgaa cctaacagct gggactatga
ttacctgctg tcctccgaca cggacgagtc 540catcgaagta tacaaagaca
aagcgaaaaa gctggaagcc gaagttcgtc gcgagattaa 600taacgaaaaa
gcagaatttc tgaccctgct ggaactgatt gacaacgtcc agcgcctggg
660cctgggttac cgtttcgagt ctgatatccg tggtgcgctg gatcgcttcg
tttcctccgg 720cggcttcgat gcggtaacca agacttccct gcacggtacg
gcactgtctt tccgtctgct 780gcgtcaacac ggttttgagg tttctcagga
agcgttcagc ggcttcaaag accaaaacgg 840caacttcctg gagaacctga
aggaagatat caaagctatc ctgagcctgt acgaggccag 900cttcctggct
ctggaaggcg aaaacatcct ggacgaggcg aaggttttcg caatctctca
960tctgaaagaa ctgtctgaag aaaagatcgg taaagagctg gcagaacagg
tgaaccatgc 1020actggaactg ccactgcatc gccgtactca gcgtctggaa
gcagtatggt ctatcgaggc 1080ctaccgtaaa aaggaggacg cgaatcaggt
tctgctggag ctggcaattc tggattacaa 1140catgatccag tctgtatacc
agcgtgatct gcgtgaaacg tcccgttggt ggcgtcgtgt 1200gggtctggcg
accaaactgc actttgctcg tgaccgcctg attgagagct tctactgggc
1260cgtgggtgta gcattcgaac cgcaatactc cgactgccgt aactccgtcg
caaaaatgtt 1320ttctttcgta accattatcg acgatatcta cgatgtatac
ggcaccctgg acgaactgga 1380gctgtttact gatgcagttg agcgttggga
cgtaaacgcc atcaacgacc tgccggatta 1440catgaaactg tgctttctgg
ctctgtataa cactattaac gaaatcgcct acgacaacct 1500gaaagataaa
ggtgagaaca tcctgccgta tctgaccaaa gcctgggctg acctgtgcaa
1560cgctttcctg caagaagcca agtggctgta caacaaatct actccgacct
ttgacgacta 1620cttcggcaac gcatggaaat cctcttctgg cccgctgcaa
ctggtgttcg cttacttcgc 1680tgtcgtgcag aacattaaaa aggaagagat
cgaaaacctg caaaaatacc atgacaccat 1740ctctcgtcct tcccatatct
tccgtctgtg caatgacctg gctagcgcgt ctgcggaaat 1800tgcgcgtggt
gaaaccgcaa atagcgtttc ttgttacatg cgcactaaag gtatctccga
1860agaactggct accgaaagcg tgatgaatct gatcgatgaa acctggaaaa
agatgaacaa 1920ggaaaaactg ggtggtagcc tgttcgcgaa accgttcgtg
gaaaccgcga tcaacctggc 1980acgtcaatct cactgcactt atcataacgg
cgacgcgcat acctctccgg atgagctgac 2040ccgcaaacgc gttctgtctg
taatcactga accgattctg ccgtttgaac gctaactgca 2100gctggtacca
tatgggaatt cgaagctttc tagaacaaaa actcatctca gaagaggatc
2160tgaatagcgc cgtcgaccat catcatcatc atcattgagt ttaaacggtc
tccagcttgg 2220ctgttttggc ggatgagaga agattttcag cctgatacag
attaaatcag aacgcagaag 2280cggtctgata aaacagaatt tgcctggcgg
cagtagcgcg gtggtcccac ctgaccccat 2340gccgaactca gaagtgaaac
gccgtagcgc cgatggtagt gtggggtctc cccatgcgag 2400agtagggaac
tgccaggcat caaataaaac gaaaggctca gtcgaaagac tgggcctttc
2460gttttatctg ttgtttgtcg gtgaacgctc tcctgagtag gacaaatccg
ccgggagcgg 2520atttgaacgt tgcgaagcaa cggcccggag ggtggcgggc
aggacgcccg ccataaactg 2580ccaggcatca aattaagcag aaggccatcc
tgacggatgg cctttttgcg tttctacaaa 2640ctctttttgt ttatttttct
aaatacattc aaatatgtat ccgctcatga gacaataacc 2700ctgataaatg
cttcaataat attgaaaaag gaagagtatg agtattcaac atttccgtgt
2760cgcccttatt cccttttttg cggcattttg ccttcctgtt tttgctcacc
cagaaacgct 2820ggtgaaagta aaagatgctg aagatcagtt gggtgcacga
gtgggttaca tcgaactgga 2880tctcaacagc ggtaagatcc ttgagagttt
tcgccccgaa gaacgttttc caatgatgag 2940cacttttaaa gttctgctat
gtggcgcggt attatcccgt gttgacgccg ggcaagagca 3000actcggtcgc
cgcatacact attctcagaa tgacttggtt gagtactcac cagtcacaga
3060aaagcatctt acggatggca tgacagtaag agaattatgc agtgctgcca
taaccatgag 3120tgataacact gcggccaact tacttctgac aacgatcgga
ggaccgaagg agctaaccgc 3180ttttttgcac aacatggggg atcatgtaac
tcgccttgat cgttgggaac cggagctgaa 3240tgaagccata ccaaacgacg
agcgtgacac cacgatgcct gtagcaatgg caacaacgtt 3300gcgcaaacta
ttaactggcg aactacttac tctagcttcc cggcaacaat taatagactg
3360gatggaggcg gataaagttg caggaccact tctgcgctcg gcccttccgg
ctggctggtt 3420tattgctgat aaatctggag ccggtgagcg tgggtctcgc
ggtatcattg cagcactggg 3480gccagatggt aagccctccc gtatcgtagt
tatctacacg acggggagtc aggcaactat 3540ggatgaacga aatagacaga
tcgctgagat aggtgcctca ctgattaagc attggtaact 3600gtcagaccaa
gtttactcat atatacttta gattgattta aaacttcatt tttaatttaa
3660aaggatctag gtgaagatcc tttttgataa tctcatgacc aaaatccctt
aacgtgagtt 3720ttcgttccac tgagcgtcag accccgtaga aaagatcaaa
ggatcttctt gagatccttt 3780ttttctgcgc gtaatctgct gcttgcaaac
aaaaaaacca ccgctaccag cggtggtttg 3840tttgccggat caagagctac
caactctttt tccgaaggta actggcttca gcagagcgca 3900gataccaaat
actgtccttc tagtgtagcc gtagttaggc caccacttca agaactctgt
3960agcaccgcct acatacctcg ctctgctaat cctgttacca gtggctgctg
ccagtggcga 4020taagtcgtgt cttaccgggt tggactcaag acgatagtta
ccggataagg cgcagcggtc 4080gggctgaacg gggggttcgt gcacacagcc
cagcttggag cgaacgacct acaccgaact 4140gagataccta cagcgtgagc
tatgagaaag cgccacgctt cccgaaggga gaaaggcgga 4200caggtatccg
gtaagcggca gggtcggaac aggagagcgc acgagggagc ttccaggggg
4260aaacgcctgg tatctttata gtcctgtcgg gtttcgccac ctctgacttg
agcgtcgatt 4320tttgtgatgc tcgtcagggg ggcggagcct atggaaaaac
gccagcaacg cggccttttt 4380acggttcctg gccttttgct ggccttttgc
tcacatgttc tttcctgcgt tatcccctga 4440ttctgtggat aaccgtatta
ccgcctttga gtgagctgat accgctcgcc gcagccgaac 4500gaccgagcgc
agcgagtcag tgagcgagga agcggaagag cgcctgatgc ggtattttct
4560ccttacgcat ctgtgcggta tttcacaccg catatggtgc actctcagta
caatctgctc 4620tgatgccgca tagttaagcc agtatacact ccgctatcgc
tacgtgactg ggtcatggct 4680gcgccccgac acccgccaac acccgctgac
gcgccctgac gggcttgtct gctcccggca 4740tccgcttaca gacaagctgt
gaccgtctcc gggagctgca tgtgtcagag gttttcaccg 4800tcatcaccga
aacgcgcgag gcagcagatc aattcgcgcg cgaaggcgaa gcggcatgca
4860tttacgttga caccatcgaa tggtgcaaaa cctttcgcgg tatggcatga
tagcgcccgg 4920aagagagtca attcagggtg gtgaatgtga aaccagtaac
gttatacgat gtcgcagagt 4980atgccggtgt ctcttatcag accgtttccc
gcgtggtgaa ccaggccagc cacgtttctg 5040cgaaaacgcg ggaaaaagtg
gaagcggcga tggcggagct gaattacatt cccaaccgcg 5100tggcacaaca
actggcgggc aaacagtcgt tgctgattgg cgttgccacc tccagtctgg
5160ccctgcacgc gccgtcgcaa attgtcgcgg cgattaaatc tcgcgccgat
caactgggtg 5220ccagcgtggt ggtgtcgatg gtagaacgaa gcggcgtcga
agcctgtaaa gcggcggtgc 5280acaatcttct cgcgcaacgc gtcagtgggc
tgatcattaa ctatccgctg gatgaccagg 5340atgccattgc tgtggaagct
gcctgcacta atgttccggc gttatttctt gatgtctctg 5400accagacacc
catcaacagt attattttct cccatgaaga cggtacgcga ctgggcgtgg
5460agcatctggt cgcattgggt caccagcaaa tcgcgctgtt agcgggccca
ttaagttctg 5520tctcggcgcg tctgcgtctg gctggctggc ataaatatct
cactcgcaat caaattcagc 5580cgatagcgga acgggaaggc gactggagtg
ccatgtccgg ttttcaacaa accatgcaaa 5640tgctgaatga gggcatcgtt
cccactgcga tgctggttgc caacgatcag atggcgctgg 5700gcgcaatgcg
cgccattacc gagtccgggc tgcgcgttgg tgcggatatc tcggtagtgg
5760gatacgacga taccgaagac agctcatgtt atatcccgcc gtcaaccacc
atcaaacagg 5820attttcgcct gctggggcaa accagcgtgg accgcttgct
gcaactctct cagggccagg 5880cggtgaaggg caatcagctg ttgcccgtct
cactggtgaa aagaaaaacc accctggcgc 5940ccaatacgca aaccgcctct
ccccgcgcgt tggccgattc attaatgcag ctggcacgac 6000aggtttcccg
actggaaagc gggcagtgag cgcaacgcaa ttaatgtgag ttagcgcgaa 6060ttgatctg
6068456906DNAArtificial SequenceSynthetic Construct 45gtttgacagc
ttatcatcga ctgcacggtg caccaatgct tctggcgtca ggcagccatc 60ggaagctgtg
gtatggctgt gcaggtcgta aatcactgca taattcgtgt cgctcaaggc
120gcactcccgt tctggataat gttttttgcg ccgacatcat aacggttctg
gcaaatattc 180tgaaatgagc tgttgacaat taatcatccg gctcgtataa
tgtgtggaat tgtgagcgga 240taacaatttc
acacaggaaa cagcgccgct gagaaaaagc gaagcggcac tgctctttaa
300caatttatca gacaatctgt gtgggcactc gaccggaatt atcgattaac
tttattatta 360aaaattaaag aggtatatat taatgtatcg attaaataag
gaggaataaa ccatgagatg 420tagcgtgtcc accgaaaatg tgtctttcac
cgaaactgaa accgaagctc gtcgttctgc 480gaactacgaa cctaacagct
gggactatga ttacctgctg tcctccgaca cggacgagtc 540catcgaagta
tacaaagaca aagcgaaaaa gctggaagcc gaagttcgtc gcgagattaa
600taacgaaaaa gcagaatttc tgaccctgct ggaactgatt gacaacgtcc
agcgcctggg 660cctgggttac cgtttcgagt ctgatatccg tggtgcgctg
gatcgcttcg tttcctccgg 720cggcttcgat gcggtaacca agacttccct
gcacggtacg gcactgtctt tccgtctgct 780gcgtcaacac ggttttgagg
tttctcagga agcgttcagc ggcttcaaag accaaaacgg 840caacttcctg
gagaacctga aggaagatat caaagctatc ctgagcctgt acgaggccag
900cttcctggct ctggaaggcg aaaacatcct ggacgaggcg aaggttttcg
caatctctca 960tctgaaagaa ctgtctgaag aaaagatcgg taaagagctg
gcagaacagg tgaaccatgc 1020actggaactg ccactgcatc gccgtactca
gcgtctggaa gcagtatggt ctatcgaggc 1080ctaccgtaaa aaggaggacg
cgaatcaggt tctgctggag ctggcaattc tggattacaa 1140catgatccag
tctgtatacc agcgtgatct gcgtgaaacg tcccgttggt ggcgtcgtgt
1200gggtctggcg accaaactgc actttgctcg tgaccgcctg attgagagct
tctactgggc 1260cgtgggtgta gcattcgaac cgcaatactc cgactgccgt
aactccgtcg caaaaatgtt 1320ttctttcgta accattatcg acgatatcta
cgatgtatac ggcaccctgg acgaactgga 1380gctgtttact gatgcagttg
agcgttggga cgtaaacgcc atcaacgacc tgccggatta 1440catgaaactg
tgctttctgg ctctgtataa cactattaac gaaatcgcct acgacaacct
1500gaaagataaa ggtgagaaca tcctgccgta tctgaccaaa gcctgggctg
acctgtgcaa 1560cgctttcctg caagaagcca agtggctgta caacaaatct
actccgacct ttgacgacta 1620cttcggcaac gcatggaaat cctcttctgg
cccgctgcaa ctggtgttcg cttacttcgc 1680tgtcgtgcag aacattaaaa
aggaagagat cgaaaacctg caaaaatacc atgacaccat 1740ctctcgtcct
tcccatatct tccgtctgtg caatgacctg gctagcgcgt ctgcggaaat
1800tgcgcgtggt gaaaccgcaa atagcgtttc ttgttacatg cgcactaaag
gtatctccga 1860agaactggct accgaaagcg tgatgaatct gatcgatgaa
acctggaaaa agatgaacaa 1920ggaaaaactg ggtggtagcc tgttcgcgaa
accgttcgtg gaaaccgcga tcaacctggc 1980acgtcaatct cactgcactt
atcataacgg cgacgcgcat acctctccgg atgagctgac 2040ccgcaaacgc
gttctgtctg taatcactga accgattctg ccgtttgaac gctaactgca
2100taaaggaggt aaaaaaacat ggtatcctgt tctgcgccgg gtaagattta
cctgttcggt 2160gaacacgccg tagtttatgg cgaaactgca attgcgtgtg
cggtggaact gcgtacccgt 2220gttcgcgcgg aactcaatga ctctatcact
attcagagcc agatcggccg caccggtctg 2280gatttcgaaa agcaccctta
tgtgtctgcg gtaattgaga aaatgcgcaa atctattcct 2340attaacggtg
ttttcttgac cgtcgattcc gacatcccgg tgggctccgg tctgggtagc
2400agcgcagccg ttactatcgc gtctattggt gcgctgaacg agctgttcgg
ctttggcctc 2460agcctgcaag aaatcgctaa actgggccac gaaatcgaaa
ttaaagtaca gggtgccgcg 2520tccccaaccg atacgtatgt ttctaccttc
ggcggcgtgg ttaccatccc ggaacgtcgc 2580aaactgaaaa ctccggactg
cggcattgtg attggcgata ccggcgtttt ctcctccacc 2640aaagagttag
tagctaacgt acgtcagctg cgcgaaagct acccggattt gatcgaaccg
2700ctgatgacct ctattggcaa aatctctcgt atcggcgaac aactggttct
gtctggcgac 2760tacgcatcca tcggccgcct gatgaacgtc aaccagggtc
tcctggacgc cctgggcgtt 2820aacatcttag aactgagcca gctgatctat
tccgctcgtg cggcaggtgc gtttggcgct 2880aaaatcacgg gcgctggcgg
cggtggctgt atggttgcgc tgaccgctcc ggaaaaatgc 2940aaccaagtgg
cagaagcggt agcaggcgct ggcggtaaag tgactatcac taaaccgacc
3000gagcaaggtc tgaaagtaga ttaaagtcta gttaaagttt aaacggtctc
cagcttggct 3060gttttggcgg atgagagaag attttcagcc tgatacagat
taaatcagaa cgcagaagcg 3120gtctgataaa acagaatttg cctggcggca
gtagcgcggt ggtcccacct gaccccatgc 3180cgaactcaga agtgaaacgc
cgtagcgccg atggtagtgt ggggtctccc catgcgagag 3240tagggaactg
ccaggcatca aataaaacga aaggctcagt cgaaagactg ggcctttcgt
3300tttatctgtt gtttgtcggt gaacgctctc ctgagtagga caaatccgcc
gggagcggat 3360ttgaacgttg cgaagcaacg gcccggaggg tggcgggcag
gacgcccgcc ataaactgcc 3420aggcatcaaa ttaagcagaa ggccatcctg
acggatggcc tttttgcgtt tctacaaact 3480ctttttgttt atttttctaa
atacattcaa atatgtatcc gctcatgaga caataaccct 3540gataaatgct
tcaataatat tgaaaaagga agagtatgag tattcaacat ttccgtgtcg
3600cccttattcc cttttttgcg gcattttgcc ttcctgtttt tgctcaccca
gaaacgctgg 3660tgaaagtaaa agatgctgaa gatcagttgg gtgcacgagt
gggttacatc gaactggatc 3720tcaacagcgg taagatcctt gagagttttc
gccccgaaga acgttttcca atgatgagca 3780cttttaaagt tctgctatgt
ggcgcggtat tatcccgtgt tgacgccggg caagagcaac 3840tcggtcgccg
catacactat tctcagaatg acttggttga gtactcacca gtcacagaaa
3900agcatcttac ggatggcatg acagtaagag aattatgcag tgctgccata
accatgagtg 3960ataacactgc ggccaactta cttctgacaa cgatcggagg
accgaaggag ctaaccgctt 4020ttttgcacaa catgggggat catgtaactc
gccttgatcg ttgggaaccg gagctgaatg 4080aagccatacc aaacgacgag
cgtgacacca cgatgcctgt agcaatggca acaacgttgc 4140gcaaactatt
aactggcgaa ctacttactc tagcttcccg gcaacaatta atagactgga
4200tggaggcgga taaagttgca ggaccacttc tgcgctcggc ccttccggct
ggctggttta 4260ttgctgataa atctggagcc ggtgagcgtg ggtctcgcgg
tatcattgca gcactggggc 4320cagatggtaa gccctcccgt atcgtagtta
tctacacgac ggggagtcag gcaactatgg 4380atgaacgaaa tagacagatc
gctgagatag gtgcctcact gattaagcat tggtaactgt 4440cagaccaagt
ttactcatat atactttaga ttgatttaaa acttcatttt taatttaaaa
4500ggatctaggt gaagatcctt tttgataatc tcatgaccaa aatcccttaa
cgtgagtttt 4560cgttccactg agcgtcagac cccgtagaaa agatcaaagg
atcttcttga gatccttttt 4620ttctgcgcgt aatctgctgc ttgcaaacaa
aaaaaccacc gctaccagcg gtggtttgtt 4680tgccggatca agagctacca
actctttttc cgaaggtaac tggcttcagc agagcgcaga 4740taccaaatac
tgtccttcta gtgtagccgt agttaggcca ccacttcaag aactctgtag
4800caccgcctac atacctcgct ctgctaatcc tgttaccagt ggctgctgcc
agtggcgata 4860agtcgtgtct taccgggttg gactcaagac gatagttacc
ggataaggcg cagcggtcgg 4920gctgaacggg gggttcgtgc acacagccca
gcttggagcg aacgacctac accgaactga 4980gatacctaca gcgtgagcta
tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca 5040ggtatccggt
aagcggcagg gtcggaacag gagagcgcac gagggagctt ccagggggaa
5100acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag
cgtcgatttt 5160tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc
cagcaacgcg gcctttttac 5220ggttcctggc cttttgctgg ccttttgctc
acatgttctt tcctgcgtta tcccctgatt 5280ctgtggataa ccgtattacc
gcctttgagt gagctgatac cgctcgccgc agccgaacga 5340ccgagcgcag
cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg tattttctcc
5400ttacgcatct gtgcggtatt tcacaccgca tatggtgcac tctcagtaca
atctgctctg 5460atgccgcata gttaagccag tatacactcc gctatcgcta
cgtgactggg tcatggctgc 5520gccccgacac ccgccaacac ccgctgacgc
gccctgacgg gcttgtctgc tcccggcatc 5580cgcttacaga caagctgtga
ccgtctccgg gagctgcatg tgtcagaggt tttcaccgtc 5640atcaccgaaa
cgcgcgaggc agcagatcaa ttcgcgcgcg aaggcgaagc ggcatgcatt
5700tacgttgaca ccatcgaatg gtgcaaaacc tttcgcggta tggcatgata
gcgcccggaa 5760gagagtcaat tcagggtggt gaatgtgaaa ccagtaacgt
tatacgatgt cgcagagtat 5820gccggtgtct cttatcagac cgtttcccgc
gtggtgaacc aggccagcca cgtttctgcg 5880aaaacgcggg aaaaagtgga
agcggcgatg gcggagctga attacattcc caaccgcgtg 5940gcacaacaac
tggcgggcaa acagtcgttg ctgattggcg ttgccacctc cagtctggcc
6000ctgcacgcgc cgtcgcaaat tgtcgcggcg attaaatctc gcgccgatca
actgggtgcc 6060agcgtggtgg tgtcgatggt agaacgaagc ggcgtcgaag
cctgtaaagc ggcggtgcac 6120aatcttctcg cgcaacgcgt cagtgggctg
atcattaact atccgctgga tgaccaggat 6180gccattgctg tggaagctgc
ctgcactaat gttccggcgt tatttcttga tgtctctgac 6240cagacaccca
tcaacagtat tattttctcc catgaagacg gtacgcgact gggcgtggag
6300catctggtcg cattgggtca ccagcaaatc gcgctgttag cgggcccatt
aagttctgtc 6360tcggcgcgtc tgcgtctggc tggctggcat aaatatctca
ctcgcaatca aattcagccg 6420atagcggaac gggaaggcga ctggagtgcc
atgtccggtt ttcaacaaac catgcaaatg 6480ctgaatgagg gcatcgttcc
cactgcgatg ctggttgcca acgatcagat ggcgctgggc 6540gcaatgcgcg
ccattaccga gtccgggctg cgcgttggtg cggatatctc ggtagtggga
6600tacgacgata ccgaagacag ctcatgttat atcccgccgt caaccaccat
caaacaggat 6660tttcgcctgc tggggcaaac cagcgtggac cgcttgctgc
aactctctca gggccaggcg 6720gtgaagggca atcagctgtt gcccgtctca
ctggtgaaaa gaaaaaccac cctggcgccc 6780aatacgcaaa ccgcctctcc
ccgcgcgttg gccgattcat taatgcagct ggcacgacag 6840gtttcccgac
tggaaagcgg gcagtgagcg caacgcaatt aatgtgagtt agcgcgaatt 6900gatctg
6906463913DNAArtificial SequenceSynthetic Construct 46gcggccgcgc
ccttgacgat gccacatcct gagcaaataa ttcaaccact aattgtgagc 60ggataacaca
aggaggaaac agccatggta tcctgttctg cgccgggtaa gatttacctg
120ttcggtgaac acgccgtagt ttatggcgaa actgcaattg cgtgtgcggt
ggaactgcgt 180acccgtgttc gcgcggaact caatgactct atcactattc
agagccagat cggccgcacc 240ggtctggatt tcgaaaagca cccttatgtg
tctgcggtaa ttgagaaaat gcgcaaatct 300attcctatta acggtgtttt
cttgaccgtc gattccgaca tcccggtggg ctccggtctg 360ggtagcagcg
cagccgttac tatcgcgtct attggtgcgc tgaacgagct gttcggcttt
420ggcctcagcc tgcaagaaat cgctaaactg ggccacgaaa tcgaaattaa
agtacagggt 480gccgcgtccc caaccgatac gtatgtttct accttcggcg
gcgtggttac catcccggaa 540cgtcgcaaac tgaaaactcc ggactgcggc
attgtgattg gcgataccgg cgttttctcc 600tccaccaaag agttagtagc
taacgtacgt cagctgcgcg aaagctaccc ggatttgatc 660gaaccgctga
tgacctctat tggcaaaatc tctcgtatcg gcgaacaact ggttctgtct
720ggcgactacg catccatcgg ccgcctgatg aacgtcaacc agggtctcct
ggacgccctg 780ggcgttaaca tcttagaact gagccagctg atctattccg
ctcgtgcggc aggtgcgttt 840ggcgctaaaa tcacgggcgc tggcggcggt
ggctgtatgg ttgcgctgac cgctccggaa 900aaatgcaacc aagtggcaga
agcggtagca ggcgctggcg gtaaagtgac tatcactaaa 960ccgaccgagc
aaggtctgaa agtagattaa gccttgactt aatagctgct tatttcgccc
1020ttatggtacc tagtaggagg aaaaaaacat ggaaatgcgt caaccggctg
tcgcaggtca 1080attctaccca ctgcgttgcg agaacctgga aaacgaactg
aaacgctgct tcgaaggcct 1140ggagatccgc gaacaagaag tgctgggcgc
agtctgtccg cacgccggtt atatgtactc 1200tggcaaagtt gcggcgcacg
tctatgccac tctgccggaa gctgatacct acgtaatctt 1260cggcccgaac
cacaccggct acggtagccc tgtctctgtg agccgtgaaa cttggaagac
1320cccgttgggc aatatcgatg ttgacctgga actggcggac ggcttcctgg
gttccatcgt 1380agatgcggat gaactcggtc acaaatacga acactctatc
gaagttcagc tgccgtttct 1440gcaataccgt tttgaacgcg atttcaaaat
tctgccaatc tgcatgggta tgcaagacga 1500agaaaccgcg gtcgaagtag
gtaacctgct ggcggatctg atcagcgagt ccggtaaacg 1560tgctgtgatc
atcgcaagct ctgatttcac ccactatgag acggctgaac gtgccaaaga
1620aatcgattcc gaagttattg attctatcct gaactttgac atctctggca
tgtacgatcg 1680cctgtatcgc cgtaacgcct ctgtttgcgg ttacggcccg
atcaccgcta tgctgacggc 1740aagcaaaaag ctgggcggct ctcgtgcgac
tttgctgaaa tacgcaaaca gcggtgacgt 1800gtccggtgat aaagacgctg
tggtgggcta cgccgccatc atcgttgagt aagctgatta 1860aaggttgaac
agataggatt tcgtcatgga tcctacaagg aggaaaaaaa catgaatgct
1920tctaatgaac cggtgattct gaaactgggt ggctctgcta ttaccgacaa
aggtgcctac 1980gaaggcgtag ttaaggaagc tgatttgctg cgcatcgcac
aggaagttag cggtttccgt 2040ggcaagatga tcgtggttca tggtgctggt
agcttcggcc atacgtacgc gaagaaatac 2100ggcctggacc gtaccttcga
cccagagggc gcaattgtta ctcatgaatc tgttaaaaag 2160ctcgcctcca
aagttgtagg tgctctgaat agcttcggcg tgcgtgctat cgcggtgcat
2220cctatggact gcgcagtatg ccgtaacggt cgtatcgaaa cgatgtatct
ggactccatc 2280aagttaatgc tggaaaaagg tctggtgccg gttctgcacg
gcgacgtcgc aatggatatt 2340gaactgggca cttgtatcct gtccggtgat
caaatcgttc cttacctggc caaagaactg 2400ggtatctccc gcctcggcct
gggcagcgca gaggatggtg tgctggatat ggagggcaaa 2460cctgtaccgg
aaatcacccc agaaactttc gaagagttcc gccactgcat cggtggttct
2520ggttctactg atgtaaccgg tggcatgctg ggcaaagtgc tggaacttct
ggaattgagc 2580aaaaattctt ccattactag ctacattttc aacgctggta
aagcagacaa catctaccgc 2640tttctgaatg gtgagtccat cggcactcgc
atcagcccgg acaagcgtgt ttaagctagt 2700tattaaccta aatgctctaa
accagttatg agctctacaa ggaggaaaaa aacatgatta 2760acactaccag
ccgccgcaaa attgaacacc tgaaactctg cgcagaatcc ccggttgaag
2820cgcgtcaggt atctgccggc tttgaagacg ttactctgat ccaccgcgct
ttaccggagc 2880tgaacatgga tgaactggac ctcagcgttg atttcctggg
taaacgcatc aaagcgccgt 2940tcctgattgc gtctatcacg ggtggtcacc
cagataccat cccggttaac gctgcgctgg 3000cagctgctgc tgaggagctg
ggtgttggca tcggcgttgg ctctcagcgc gcggccattg 3060atgatccgag
ccaggaagac agcttccgtg tagtgcgtga tgaagcccca gatgcgtttg
3120tttatggcaa cgtcggcgca gcacagatcc gtcagtatgg tgttgaaggt
gttgaaaaac 3180tgatcgaaat gattgacgca gatgccttgg caatccacct
gaactttctg caagaagcgg 3240tccaaccgga aggtgaccgc gacgcgaccg
gttgcctgga catgattacc gaaatttgct 3300ctcagattaa aactccggta
atcgtgaaag aaaccggtgc aggcattagc cgtgaagatg 3360cgattctgtt
ccagaaagct ggcgtgagcg caatcgacgt tggcggcgcg ggcggcacct
3420cctgggctgg cgtcgaggtc taccgtgcta aagaaagccg tgactctgtt
agcgagcgtt 3480taggtgagct gttttgggat ttcggcattc cgacggtagc
ttctctgatt gaatcccgcg 3540tttccttgcc gctgatcgca accggcggta
tccgtaacgg tctggacatt gctaaaagca 3600ttgctctcgg cgcaagcgct
gccagcgccg ctctgccgtt cgttggtccg tccctggagg 3660gcaaagaatc
cgttgtacgt gtgctgagct gcatgctgga agaatttaaa gcagcaatgt
3720ttttgtgcgg ttgcggcaac atcaaagacc tgcacaactc tccagtagtg
gtaactggtt 3780ggacccgcga atacctggag cagcgcggtt ttaacgttaa
ggacctctcc ctgccgggca 3840acgctctgta agcttcaacg cgtctacaaa
taaaaaaggc acgtcagatg acgtgccttt 3900tttcttgtct aga
3913476647DNAArtificial SequenceSynthetic Construct 47aagggcgagc
tcaacgatcc ggctgctaac aaagcccgaa aggaagctga gttggctgct 60gccaccgctg
agcaataact agcataaccc cttggggcct ctaaacgggt cttgaggagt
120tttttgctga aaggaggaac tatatccgga tatcccgcaa gaggcccggc
agtaccggca 180taaccaagcc tatgcctaca gcatccaggg tgacggtgcc
gaggatgacg atgagcgcat 240tgttagattt catacacggt gcctgactgc
gttagcaatt taactgtgat aaactaccgc 300attaaagctt atcgatgata
agctgtcaaa catgagaatt aattcttgaa gacgaaaggg 360cctcgtgata
cgcctatttt tataggttaa tgtcatgata ataatggttt cttagacgtc
420aggtggcact tttcggggaa atgtgcgcgg aacccctatt tgtttatttt
tctaaataca 480ttcaaatatg tatccgctca tgagacaata accctgataa
atgcttcaat aatattgaaa 540aaggaagagt atgattgaac aagatggatt
gcacgcaggt tctccggccg cttgggtgga 600gaggctattc ggctatgact
gggcacaact gacaatcggc tgctctgatg ccgccgtgtt 660ccggctgtca
gcgcaggggc gcccggttct ttttgtcaag accgacctgt ccggtgccct
720gaatgaactg caggacgagg cagcgcggct atcgtggctg gccacgacgg
gcgttccttg 780cgcagctgtg ctcgacgttg tcactgaagc gggaagggac
tggctgctat tgggcgaagt 840gccggggcag gatctcctgt catctcacct
tgctcctgcc gagaaagtat ccatcatggc 900tgatgcaatg cggcggctgc
atacgcttga tccggctacc tgcccattcg accaccaagc 960gaaacatcgc
atcgagcggg cacgtactcg gatggaagcc ggtcttgtcg atcaggatga
1020tctggacgaa gagcatcagg ggctcgcgcc agccgaactg ttcgccaggc
tcaaggcgcg 1080catgcccgac ggcgaggatc tcgtcgtgac acatggcgat
gcctgcttgc cgaatatcat 1140ggtggaaaat ggccgctttt ctggattcat
cgactgtggc cggctgggtg tggcggaccg 1200ctatcaggac atagcgttgg
ctacccgtga tattgctgaa gagcttggcg gcgaatgggc 1260tgaccgcttc
ctcgtgcttt acggtatcgc cgctcccgat tcgcagcgca tcgccttcta
1320tcgccttctt gacgagttct tctgagcggg actctggggt tcgaaatgac
cgaccaagcg 1380acgcctaact gtcagaccaa gtttactcat atatacttta
gattgattta aaacttcatt 1440tttaatttaa aaggatctag gtgaagatcc
tttttgataa tctcatgacc aaaatccctt 1500aacgtgagtt ttcgttccac
tgagcgtcag accccgtaga aaagatcaaa ggatcttctt 1560gagatccttt
ttttctgcgc gtaatctgct gcttgcaaac aaaaaaacca ccgctaccag
1620cggtggtttg tttgccggat caagagctac caactctttt tccgaaggta
actggcttca 1680gcagagcgca gataccaaat actgtccttc tagtgtagcc
gtagttaggc caccacttca 1740agaactctgt agcaccgcct acatacctcg
ctctgctaat cctgttacca gtggctgctg 1800ccagtggcga taagtcgtgt
cttaccgggt tggactcaag acgatagtta ccggataagg 1860cgcagcggtc
gggctgaacg gggggttcgt gcacacagcc cagcttggag cgaacgacct
1920acaccgaact gagataccta cagcgtgagc tatgagaaag cgccacgctt
cccgaaggga 1980gaaaggcgga caggtatccg gtaagcggca gggtcggaac
aggagagcgc acgagggagc 2040ttccaggggg aaacgcctgg tatctttata
gtcctgtcgg gtttcgccac ctctgacttg 2100agcgtcgatt tttgtgatgc
tcgtcagggg ggcggagcct atggaaaaac gccagcaacg 2160cggccttttt
acggttcctg gccttttgct ggccttttgc tcacatgttc tttcctgcgt
2220tatcccctga ttctgtggat aaccgtatta ccgcctttga gtgagctgat
accgctcgcc 2280gcagccgaac gaccgagcgc agcgagtcag tgagcgagga
agcggaagag cgcctgatgc 2340ggtattttct ccttacgcat ctgtgcggta
tttcacaccg caatggtgca ctctcagtac 2400aatctgctct gatgccgcat
agttaagcca gtatacactc cgctatcgct acgtgactgg 2460gtcatggctg
cgccccgaca cccgccaaca cccgctgacg cgccctgacg ggcttgtctg
2520ctcccggcat ccgcttacag acaagctgtg accgtctccg ggagctgcat
gtgtcagagg 2580ttttcaccgt catcaccgaa acgcgcgagg cagctgcggt
aaagctcatc agcgtggtcg 2640tgaagcgatt cacagatgtc tgcctgttca
tccgcgtcca gctcgttgag tttctccaga 2700agcgttaatg tctggcttct
gataaagcgg gccatgttaa gggcggtttt ttcctgtttg 2760gtcactgatg
cctccgtgta agggggattt ctgttcatgg gggtaatgat accgatgaaa
2820cgagagagga tgctcacgat acgggttact gatgatgaac atgcccggtt
actggaacgt 2880tgtgagggta aacaactggc ggtatggatg cggcgggacc
agagaaaaat cactcagggt 2940caatgccagc gcttcgttaa tacagatgta
ggtgttccac agggtagcca gcagcatcct 3000gcgatgcaga tccggaacat
aatggtgcag ggcgctgact tccgcgtttc cagactttac 3060gaaacacgga
aaccgaagac cattcatgtt gttgctcagg tcgcagacgt tttgcagcag
3120cagtcgcttc acgttcgctc gcgtatcggt gattcattct gctaaccagt
aaggcaaccc 3180cgccagccta gccgggtcct caacgacagg agcacgatca
tgcgcacccg tggccaggac 3240ccaacgctgc ccgagatgcg ccgcgtgcgg
ctgctggaga tggcggacgc gatggatatg 3300ttctgccaag ggttggtttg
cgcattcaca gttctccgca agaattgatt ggctccaatt 3360cttggagtgg
tgaatccgtt agcgaggtgc cgccggcttc cattcaggtc gaggtggccc
3420ggctccatgc accgcgacgc aacgcgggga ggcagacaag gtatagggcg
gcgcctacaa 3480tccatgccaa cccgttccat gtgctcgccg aggcggcata
aatcgccgtg acgatcagcg 3540gtccaatgat cgaagttagg ctggtaagag
ccgcgagcga tccttgaagc tgtccctgat 3600ggtcgtcatc tacctgcctg
gacagcatgg cctgcaacgc gggcatcccg atgccgccgg 3660aagcgagaag
aatcataatg gggaaggcca tccagcctcg cgtcgcgaac gccagcaaga
3720cgtagcccag cgcgtcggcc gccatgccgg cgataatggc ctgcttctcg
ccgaaacgtt 3780tggtggcggg accagtgacg aaggcttgag cgagggcgtg
caagattccg aataccgcaa 3840gcgacaggcc gatcatcgtc gcgctccagc
gaaagcggtc ctcgccgaaa atgacccaga 3900gcgctgccgg cacctgtcct
acgagttgca tgataaagaa gacagtcata agtgcggcga 3960cgatagtcat
gccccgcgcc caccggaagg agctgactgg gttgaaggct ctcaagggca
4020tcggtcgaga tcccggtgcc taatgagtga gctaacttac attaattgcg
ttgcgctcac 4080tgcccgcttt ccagtcggga aacctgtcgt gccagctgca
ttaatgaatc ggccaacgcg 4140cggggagagg cggtttgcgt attgggcgcc
agggtggttt ttcttttcac cagtgagacg 4200ggcaacagct gattgccctt
caccgcctgg ccctgagaga gttgcagcaa gcggtccacg 4260ctggtttgcc
ccagcaggcg aaaatcctgt ttgatggtgg ttaacggcgg gatataacat
4320gagctgtctt cggtatcgtc gtatcccact accgagatat ccgcaccaac
gcgcagcccg 4380gactcggtaa tggcgcgcat tgcgcccagc gccatctgat
cgttggcaac cagcatcgca 4440gtgggaacga tgccctcatt cagcatttgc
atggtttgtt gaaaaccgga catggcactc 4500cagtcgcctt cccgttccgc
tatcggctga atttgattgc gagtgagata tttatgccag 4560ccagccagac
gcagacgcgc cgagacagaa cttaatgggc ccgctaacag cgcgatttgc
4620tggtgaccca atgcgaccag atgctccacg cccagtcgcg taccgtcttc
atgggagaaa 4680ataatactgt tgatgggtgt ctggtcagag acatcaagaa
ataacgccgg aacattagtg 4740caggcagctt ccacagcaat ggcatcctgg
tcatccagcg gatagttaat gatcagccca 4800ctgacgcgtt gcgcgagaag
attgtgcacc gccgctttac aggcttcgac gccgcttcgt 4860tctaccatcg
acaccaccac gctggcaccc agttgatcgg cgcgagattt aatcgccgcg
4920acaatttgcg acggcgcgtg cagggccaga ctggaggtgg caacgccaat
cagcaacgac 4980tgtttgcccg ccagttgttg tgccacgcgg ttgggaatgt
aattcagctc cgccatcgcc 5040gcttccactt tttcccgcgt tttcgcagaa
acgtggctgg cctggttcac cacgcgggaa 5100acggtctgat aagagacacc
ggcatactct gcgacatcgt ataacgttac tggtttcaca 5160ttcaccaccc
tgaattgact ctcttccggg cgctatcatg ccataccgcg aaaggttttg
5220cgccattcga tggtgtccgg gatctcgacg ctctccctta tgcgactcct
gcattaggaa 5280gcagcccagt agtaggttga ggccgttgag caccgccgcc
gcaaggaatg gtgcatgcaa 5340ggagatggcg cccaacagtc ccccggccac
ggggcctgcc accataccca cgccgaaaca 5400agcgctcatg agcccgaagt
ggcgagcccg atcttcccca tcggtgatgt cggcgatata 5460ggcgccagca
accgcacctg tggcgccggt gatgccggcc acgatgcgtc cggcgtagag
5520gatcgagatc tcgatcccgc gaaattaata cgactcacta taggggaatt
gtgagcggat 5580aacaattccc ctctagaaat aattttgttt aactttaaga
aggagatata catatgcggg 5640gttctcatca tcatcatcat catggtatgg
ctagcatgac tggtggacag caaatgggtc 5700gggatctgta cgacgatgac
gataaggatc atcccttcac catggtatcc tgttctgcgc 5760cgggtaagat
ttacctgttc ggtgaacacg ccgtagttta tggcgaaact gcaattgcgt
5820gtgcggtgga actgcgtacc cgtgttcgcg cggaactcaa tgactctatc
actattcaga 5880gccagatcgg ccgcaccggt ctggatttcg aaaagcaccc
ttatgtgtct gcggtaattg 5940agaaaatgcg caaatctatt cctattaacg
gtgttttctt gaccgtcgat tccgacatcc 6000cggtgggctc cggtctgggt
agcagcgcag ccgttactat cgcgtctatt ggtgcgctga 6060acgagctgtt
cggctttggc ctcagcctgc aagaaatcgc taaactgggc cacgaaatcg
6120aaattaaagt acagggtgcc gcgtccccaa ccgatacgta tgtttctacc
ttcggcggcg 6180tggttaccat cccggaacgt cgcaaactga aaactccgga
ctgcggcatt gtgattggcg 6240ataccggcgt tttctcctcc accaaagagt
tagtagctaa cgtacgtcag ctgcgcgaaa 6300gctacccgga tttgatcgaa
ccgctgatga cctctattgg caaaatctct cgtatcggcg 6360aacaactggt
tctgtctggc gactacgcat ccatcggccg cctgatgaac gtcaaccagg
6420gtctcctgga cgccctgggc gttaacatct tagaactgag ccagctgatc
tattccgctc 6480gtgcggcagg tgcgtttggc gctaaaatca cgggcgctgg
cggcggtggc tgtatggttg 6540cgctgaccgc tccggaaaaa tgcaaccaag
tggcagaagc ggtagcaggc gctggcggta 6600aagtgactat cactaaaccg
accgagcaag gtctgaaagt agattaa 6647487519DNAArtificial
SequenceSynthetic Construct 48ctcgggccgt ctcttgggct tgatcggcct
tcttgcgcat ctcacgcgct cctgcggcgg 60cctgtagggc aggctcatac ccctgccgaa
ccgcttttgt cagccggtcg gccacggctt 120ccggcgtctc aacgcgcttt
gagattccca gcttttcggc caatccctgc ggtgcatagg 180cgcgtggctc
gaccgcttgc gggctgatgg tgacgtggcc cactggtggc cgctccaggg
240cctcgtagaa cgcctgaatg cgcgtgtgac gtgccttgct gccctcgatg
ccccgttgca 300gccctagatc ggccacagcg gccgcaaacg tggtctggtc
gcgggtcatc tgcgctttgt 360tgccgatgaa ctccttggcc gacagcctgc
cgtcctgcgt cagcggcacc acgaacgcgg 420tcatgtgcgg gctggtttcg
tcacggtgga tgctggccgt cacgatgcga tccgccccgt 480acttgtccgc
cagccacttg tgcgccttct cgaagaacgc cgcctgctgt tcttggctgg
540ccgacttcca ccattccggg ctggccgtca tgacgtactc gaccgccaac
acagcgtcct 600tgcgccgctt ctctggcagc aactcgcgca gtcggcccat
cgcttcatcg gtgctgctgg 660ccgcccagtg ctcgttctct ggcgtcctgc
tggcgtcagc gttgggcgtc tcgcgctcgc 720ggtaggcgtg cttgagactg
gccgccacgt tgcccatttt cgccagcttc ttgcatcgca 780tgatcgcgta
tgccgccatg cctgcccctc ccttttggtg tccaaccggc tcgacggggg
840cagcgcaagg cggtgcctcc ggcgggccac tcaatgcttg agtatactca
ctagactttg 900cttcgcaaag tcgtgaccgc ctacggcggc tgcggcgccc
tacgggcttg ctctccgggc 960ttcgccctgc gcggtcgctg cgctcccttg
ccagcccgtg gatatgtgga cgatggccgc 1020gagcggccac cggctggctc
gcttcgctcg gcccgtggac aaccctgctg gacaagctga 1080tggacaggct
gcgcctgccc acgagcttga ccacagggat tgcccaccgg ctacccagcc
1140ttcgaccaca tacccaccgg ctccaactgc gcggcctgcg gccttgcccc
atcaattttt 1200ttaattttct ctggggaaaa gcctccggcc tgcggcctgc
gcgcttcgct tgccggttgg 1260acaccaagtg gaaggcgggt caaggctcgc
gcagcgaccg cgcagcggct tggccttgac 1320gcgcctggaa cgacccaagc
ctatgcgagt gggggcagtc gaaggcgaag cccgcccgcc 1380tgccccccga
gcctcacggc ggcgagtgcg ggggttccaa gggggcagcg ccaccttggg
1440caaggccgaa ggccgcgcag tcgatcaaca agccccggag gggccacttt
ttgccggagg 1500gggagccgcg ccgaaggcgt gggggaaccc cgcaggggtg
cccttctttg ggcaccaaag 1560aactagatat agggcgaaat gcgaaagact
taaaaatcaa caacttaaaa aaggggggta 1620cgcaacagct cattgcggca
ccccccgcaa tagctcattg cgtaggttaa agaaaatctg 1680taattgactg
ccacttttac gcaacgcata attgttgtcg cgctgccgaa aagttgcagc
1740tgattgcgca tggtgccgca accgtgcggc accctaccgc atggagataa
gcatggccac 1800gcagtccaga gaaatcggca ttcaagccaa gaacaagccc
ggtcactggg tgcaaacgga 1860acgcaaagcg catgaggcgt gggccgggct
tattgcgagg aaacccacgg cggcaatgct 1920gctgcatcac ctcgtggcgc
agatgggcca ccagaacgcc gtggtggtca gccagaagac 1980actttccaag
ctcatcggac gttctttgcg gacggtccaa tacgcagtca aggacttggt
2040ggccgagcgc tggatctccg tcgtgaagct caacggcccc ggcaccgtgt
cggcctacgt 2100ggtcaatgac cgcgtggcgt ggggccagcc ccgcgaccag
ttgcgcctgt cggtgttcag 2160tgccgccgtg gtggttgatc acgacgacca
ggacgaatcg ctgttggggc atggcgacct 2220gcgccgcatc ccgaccctgt
atccgggcga gcagcaacta ccgaccggcc ccggcgagga 2280gccgcccagc
cagcccggca ttccgggcat ggaaccagac ctgccagcct tgaccgaaac
2340ggaggaatgg gaacggcgcg ggcagcagcg cctgccgatg cccgatgagc
cgtgttttct 2400ggacgatggc gagccgttgg agccgccgac acgggtcacg
ctgccgcgcc ggtagcactt 2460gggttgcgca gcaacccgta agtgcgctgt
tccagactat cggctgtagc cgcctcgccg 2520ccctatacct tgtctgcctc
cccgcgttgc gtcgcggtgc atggagccgg gccacctcga 2580cctgaatgga
agccggcggc acctcgctaa cggattcacc gtttttatca ggctctggga
2640ggcagaataa atgatcatat cgtcaattat tacctccacg gggagagcct
gagcaaactg 2700gcctcaggca tttgagaagc acacggtcac actgcttccg
gtagtcaata aaccggtaaa 2760ccagcaatag acataagcgg ctatttaacg
accctgccct gaaccgacga ccgggtcgaa 2820tttgctttcg aatttctgcc
attcatccgc ttattatcac ttattcaggc gtagcaccag 2880gcgtttaagg
gcaccaataa ctgccttaaa aaaattacgc cccgccctgc cactcatcgc
2940agtcggccta ttggttaaaa aatgagctga tttaacaaaa atttaacgcg
aattttaaca 3000aaatattaac gcttacaatt tccattcgcc attcaggctg
cgcaactgtt gggaagggcg 3060atcggtgcgg gcctcttcgc tattacgcca
gctggcgaaa gggggatgtg ctgcaaggcg 3120attaagttgg gtaacgccag
ggttttccca gtcacgacgt tgtaaaacga cggccagtga 3180gcgcgcgtaa
tacgactcac tatagggcga attggagctc caccgcggtg gcggccgctc
3240tagaactagt ggatcccccg ggctgcatgc tcgagcggcc gccagtgtga
tggatatctg 3300cagaattcgc ccttcttgat atcttagtgt gcgttaacca
ccacccacat tggtccctgc 3360ccgaccgcat agcggccttt ttcatgcagt
agcccctgct cgccaacaat ttcgtatacc 3420gagatgtggt gagatttttg
cccggcggca atcagatact tgccgctgtg atcaacattg 3480aagccgcgcg
gctgggtttc cgttggctgg aagccttctt tactcaacac gctgccatct
3540tccgaaacgc tgaaaacggt aatcaggctg gcggtacggt cgcaggcgta
taaatggcga 3600ccatccgggg tgatatgaat atcagccgcc caacgggtgt
cggagaagtt ttccggcatc 3660atatccagcg tctggacaca ttcgatatta
ccgtgcggat ctttcagttc ccagacatcc 3720actgagctgt ttaactcatt
gacgcaatac gcatattgtt cgtttggatg gaataccata 3780tgacgcgggc
cggccccttc aacggtggtc acttccgcag ggtcctgcgc cacgagatga
3840ccatcatcgc tgaccgtaaa caggcaaatg cgatcctgct ttaatgccgg
aacccacagc 3900gtacggttgt ccggtgagat attggcggaa tggcaaccgt
ccagcccctc gaccacatcg 3960acgacgccca ctggcaggcc atcttccaga
cgcgttacgc tcacgttacc cgcattgtaa 4020gaacctacaa agacaaactg
cccctggtga tcggtggaaa tatgcgtcgg actacccggc 4080agcgcagact
ctgcggcaaa ggtcagtgcg ccatcgtccg gggcgatacg atacgccagg
4140acgcgaaact cagggcgaac accaacatag agataacgtt tgtccgggct
gaccaccatc 4200ggctgcacct gccccggcac atcgacaacc tgtgtcagcg
tcagtgcgcc ttcatgattc 4260agattccaga cgtgaatttg ctggctctca
gggctggcga tataaactgt ttgcttcatg 4320aatgctcctt tgggttacct
ccgggaaacg cggttgattt gtttagtggt tgaattattt 4380gctcaggatg
tggcatagtc aagggcgtga cggctcgcta atacaactca ctatagggct
4440cgaggaagtt cctatacttt ctagagaata ggaacttccg cgccgcacac
aaaaaccaac 4500acacagatca tgaaaataaa gctcttttat tggtaccgaa
ttcgccaggg agctctcaga 4560cgtcgcttgg tcggtcttta ttcgaacccc
agagtcccgc ttacgccccg ccctgccact 4620catcgcagta ctgttgtaat
tcattaagca ttctgccgac atggaagcca tcacaaacgg 4680catgatgaac
ctgaatcgcc agcggcatca gcaccttgtc gccttgcgta taatatttgc
4740ccatggtgaa aacgggggcg aagaagttgt ccatattggc cacgtttaaa
tcaaaactgg 4800tgaaactcac ccagggattg gctgagacga aaaacatatt
ctcaataaac cctttaggga 4860aataggccag gttttcaccg taacacgcca
catcttgcga atatatgtgt agaaactgcc 4920ggaaatcgtc gtggtattca
ctccagagcg atgaaaacgt ttcagtttgc tcatggaaaa 4980cggtgtaaca
agggtgaaca ctatcccata tcaccagctc accgtctttc attgccatac
5040ggaattccgg atgagcattc atcaggcggg caagaatgtg aataaaggcc
ggataaaact 5100tgtgcttatt tttctttacg gtctttaaaa aggccgtaat
atccagctga acggtctggt 5160tataggtaca ttgagcaact gactgaaatg
cctcaaaatg ttctttacga tgccattggg 5220atatatcaac ggtggtatat
ccagtgattt ttttctccat ggtttagttc ctcaccttgt 5280cgtattatac
tatgccgata tactatgccg atgattaatt gtcaacacgt gctgctgcag
5340gtcgaaaggc ccggagatga ggaagaggag aacagcgcgg cagacgtgcg
cttttgaagc 5400gtgcagaatg ccgggcctcc ggaggacctt cgggcgcccg
ccccgcccct gagcccgccc 5460ctgagcccgc ccccggaccc accccttccc
agcctctgag cccagaaagc gaaggagcaa 5520agctgctatt ggccgctgcc
ccaaaggcct acccgcttcc attgctcagc ggtgctgtcc 5580atctgcacga
gactagtgag acgtgctact tccatttgtc acgtcctgca cgacgcgagc
5640tgcggggcgg gggggaactt cctgactagg ggaggagtgg aaggtggcgc
gaaggggcca 5700ccaaagaacg gagccggttg gcgcctaccg gtggatgtgg
aatgtgtgcg aggccagagg 5760ccacttgtgt agcgccaagt gcccagcggg
gctgctaaag cgcatgctcc agactgcctt 5820gggaaaagcg cctcccctac
ccggtagaat gaagttccta tactttctag agaataggaa 5880cttcgcggcc
gccctttagt gagggttaat tcaactgact gtaacagcta aaattagtcg
5940cttttggcgg taagggcgaa ttccagcaca ctggcggccg ttactagtgg
atccgagctc 6000ggtaccaagc ttgatgcagg aattcgatat caagcttatc
gataccgtcg acctcgaggg 6060ggggcccggt acccagcttt tgttcccttt
agtgagggtt aattgcgcgc ttggcgtaat 6120catggtcata gctgtttcct
gtgtgaaatt gttatccgct cacaattcca cacaacatac 6180gagccggaag
cataaagtgt aaagcctggg gtgcctaatg agtgagctaa ctcacattaa
6240ttgcgttgcg ctcactgccc gctttccagt cgggaaacct gtcgtgccag
ctgcattaat 6300gaatcggcca acgcgcgggg agaggcggtt tgcgtattgg
gcgcatgcat aaaaactgtt 6360gtaattcatt aagcattctg ccgacatgga
agccatcaca aacggcatga tgaacctgaa 6420tcgccagcgg catcagcacc
ttgtcgcctt gcgtataata tttgcccatg gacgcacacc 6480gtggaaacgg
atgaaggcac gaacccagtt gacataagcc tgttcggttc gtaaactgta
6540atgcaagtag cgtatgcgct cacgcaactg gtccagaacc ttgaccgaac
gcagcggtgg 6600taacggcgca gtggcggttt tcatggcttg ttatgactgt
ttttttgtac agtctatgcc 6660tcgggcatcc aagcagcaag cgcgttacgc
cgtgggtcga tgtttgatgt tatggagcag 6720caacgatgtt acgcagcagc
aacgatgtta cgcagcaggg cagtcgccct aaaacaaagt 6780taggtggctc
aagtatgggc atcattcgca catgtaggct cggccctgac caagtcaaat
6840ccatgcgggc tgctcttgat cttttcggtc gtgagttcgg agacgtagcc
acctactccc 6900aacatcagcc ggactccgat tacctcggga acttgctccg
tagtaagaca ttcatcgcgc 6960ttgctgcctt cgaccaagaa gcggttgttg
gcgctctcgc ggcttacgtt ctgcccaggt 7020ttgagcagcc gcgtagtgag
atctatatct atgatctcgc agtctccggc gagcaccgga 7080ggcagggcat
tgccaccgcg ctcatcaatc tcctcaagca tgaggccaac gcgcttggtg
7140cttatgtgat ctacgtgcaa gcagattacg gtgacgatcc cgcagtggct
ctctatacaa 7200agttgggcat acgggaagaa gtgatgcact ttgatatcga
cccaagtacc gccacctaac 7260aattcgttca agccgagatc ggcttcccgg
ccgcggagtt gttcggtaaa ttgtcacaac 7320gccgccaggt ggcacttttc
ggggaaatgt gcgcgcccgc gttcctgctg gcgctgggcc 7380tgtttctggc
gctggacttc ccgctgttcc gtcagcagct tttcgcccac ggccttgatg
7440atcgcggcgg ccttggcctg catatcccga ttcaacggcc ccagggcgtc
cagaacgggc 7500ttcaggcgct cccgaaggt 75194937DNAArtificial
SequenceSynthetic Construct 49cgtgagatca tatgtgtgcg acctcttctc
aatttac 375038DNAArtificial SequenceSynthetic Construct
50cggtcgacgg atccctgcag ttagacatac atcagctg 385141DNAArtificial
SequenceSynthetic Construct 51catatgaaag cttgtatcga ttaaataagg
aggaataaac c 415260DNAArtificial SequenceSynthetic Construct
52gatcatgcat tcgcccttag gaggtaaaaa aacatgtgtg cgacctcttc tcaatttact
605331DNAArtificial SequenceSynthetic Construct 53gacatcaatt
gctccatttt cttctgctat c 315441DNAArtificial SequenceSynthetic
Construct 54attgagaaga ggtcgcacac actctttacc ctctcctttt a
415541DNAArtificial SequenceSynthetic Construct 55taaaaggaga
gggtaaagag tgtgtgcgac ctcttctcaa t 415641DNAArtificial
SequenceSynthetic Construct 56ccaaggccgg ttttttttag acatacatca
gctggttaat c 415741DNAArtificial SequenceSynthetic Construct
57gattaaccag ctgatgtatg tctaaaaaaa accggccttg g 415832DNAArtificial
SequenceSynthetic Construct 58gacatgacgg atccgattac gaatgccgtc tc
325927DNAArtificial SequenceSynthetic Construct 59gacatgaatt
cctccatttt cttctgc 276020DNAArtificial SequenceSynthetic Construct
60aggagagggt aaagagtgag 206122DNAArtificial SequenceSynthetic
Construct 61cttttccatc acccacctga ag 226228DNAArtificial
SequenceSynthetic Construct 62ggcgaaatgg tccaacaaca aaattatc
286340DNAArtificial SequenceSynthetic Construct 63gcttatggat
cctctagact attacacgta catcaattgg 406430DNAArtificial
SequenceSynthetic Construct 64caccatgtgt gcaacctcct cccagtttac
306551DNAArtificial SequenceSynthetic Construct 65ggtgaattca
gtctactggg gattcccaaa tctatatata ctgcaggtga c 516623DNAArtificial
SequenceSynthetic Construct 66gcaggtggga aactatgcac tcc
236736DNAArtificial SequenceSynthetic Construct 67cctgaattct
gttggattgg aggattggat agtggg 366830DNAArtificial SequenceSynthetic
Construct 68ggtgtcgacg tacggtcgag cttattgacc 306932DNAArtificial
SequenceSynthetic Construct 69ggtgggcccg cattttgcca cctacaagcc ag
327040DNAArtificial SequenceSynthetic Construct 70ggtgaattct
agaggatccc aacgctgttg cctacaacgg 407136DNAArtificial
SequenceSynthetic Construct 71ggtgcggccg ctgtctggac ctggtgagtt
tccccg 367237DNAArtificial SequenceSynthetic Construct 72ggtgggccca
ttaaatcagt tatcgtttat ttgatag 377335DNAArtificial SequenceSynthetic
Construct 73ggtgaccagc aagtccatgg gtggtttgat catgg
357435DNAArtificial SequenceSynthetic Construct 74ggtgcggccg
cctttggagt acgactccaa ctatg 357531DNAArtificial SequenceSynthetic
Construct 75gcggccgcag actaaattta tttcagtctc c 317628DNAArtificial
SequenceSynthetic Construct 76gatcaagctt aaccggaatt gccagctg
287733DNAArtificial SequenceSynthetic Construct 77gatccgatcg
tcagaagaac tcgtcaagaa ggc 337838DNAArtificial SequenceSynthetic
Construct 78catcaatgca tcgcccttag gaggtaaaaa aaaatgac
387926DNAArtificial SequenceSynthetic Construct 79ccttctgcag
gacgcgttgt tatagc 268060DNAArtificial SequenceSynthetic Construct
80gatcatgcat tcgcccttag gaggtaaaaa aacatgagtt ttgatattgc caaatacccg
608131DNAArtificial SequenceSynthetic Construct 81catgctgcag
ttatgccagc caggccttga t 31827DNAArtificial SequenceSynthetic
Construct 82aggaggt 7837DNAArtificial SequenceSynthetic Construct
83aaggagg 78441DNAArtificial SequenceSynthetic Construct
84aggaggtaaa aaaacatgtc attaccgttc ttaacttctg c 418552DNAArtificial
SequenceSynthetic Construct 85atggctgcag gcctatcgca aattagctta
tgaagtccat ggtaaattcg tg 528623DNAArtificial SequenceSynthetic
Construct 86gaattcgccc ttctgcagct acc 238738DNAArtificial
SequenceSynthetic Construct 87cgactggtgc acccttaagg aggaaaaaaa
catgtcag 388825DNAArtificial SequenceSynthetic Construct
88gtgctggaat tcgcccttct gcagc 258932DNAArtificial SequenceSynthetic
Construct 89gtagatgcat gcagaattcg cccttaagga gg 329025DNAArtificial
SequenceSynthetic Construct 90gtgtgatgga tatctgcaga attcg
259136DNAArtificial SequenceSynthetic Construct 91catcaatgca
tcgcccttag gaggtaaaaa aacatg 369221DNAArtificial SequenceSynthetic
Construct 92actgaaacgt tttcatcgct c 219350DNAArtificial
SequenceSynthetic Construct 93gagacatgag ctcaggaggt aaaaaaacat
gaaaacagta gttattattg 509454DNAArtificial SequenceSynthetic
Construct 94tttatcaatc ccaattgtca tgttttttta cctcctttat tgttttctta
aatc 549554DNAArtificial SequenceSynthetic Construct 95gatttaagaa
aacaataaag gaggtaaaaa aacatgacaa ttgggattga taaa
549640DNAArtificial SequenceSynthetic Construct 96gacatgacat
agatctttag tttcgataag aacgaacggt 409726DNAArtificial
SequenceSynthetic Construct 97atgaaaacag tagttattat tgatgc
269833DNAArtificial SequenceSynthetic Construct 98atgttattgt
tttcttaaat catttaaaat agc 339926DNAArtificial SequenceSynthetic
Construct
99atgacaattg ggattgataa aattag 2610024DNAArtificial
SequenceSynthetic Construct 100ttagtttcga taagaacgaa cggt
2410123DNAArtificial SequenceSynthetic Construct 101gaaatagccc
cattagaagt atc 2310224DNAArtificial SequenceSynthetic Construct
102ttgccaatca tatgattgaa aatc 2410325DNAArtificial
SequenceSynthetic Construct 103gctatgcttc attagatcct tatcg
2510425DNAArtificial SequenceSynthetic Construct 104gaaacctaca
tccaatcttt tgccc 2510531DNAArtificial SequenceSynthetic Construct
105cttgatgcat cctgcattcg cccttaggag g 3110623DNAArtificial
SequenceSynthetic Construct 106ccaggcaaat tctgttttat cag
2310743DNAArtificial SequenceSynthetic Construct 107gcatgctcga
gcggccgctt ttaatcaaac atcctgccaa ctc 4310837DNAArtificial
SequenceSynthetic Construct 108gatcgaaggg cgatcgtgtc acagtctggc
gaaaccg 3710943DNAArtificial SequenceSynthetic Construct
109ctgaattctg cagatatctg tttttccact cttcgttcac ttt
4311033DNAArtificial SequenceSynthetic Construct 110tctagagggc
ccaagaaaaa tgccccgctt acg 33111111DNAArtificial SequenceSynthetic
Construct 111gatcgcggcc gcgcccttga cgatgccaca tcctgagcaa ataattcaac
cactaattgt 60gagcggataa cacaaggagg aaacagctat gtcattaccg ttcttaactt
c 11111275DNAArtificial SequenceSynthetic Construct 112gatcgggccc
caagaaaaaa ggcacgtcat ctgacgtgcc ttttttattt gtagacgcgt 60tgttatagca
ttcta 7511381DNAArtificial SequenceSynthetic Construct
113aaagtagccg aagatgacgg tttgtcacat ggagttggca ggatgtttga
ttaaaagcaa 60ttaaccctca ctaaagggcg g 81114160DNAArtificial
SequenceSynthetic Construct 114agagtgttca ccaaaaataa taacctttcc
cggtgcagaa gttaagaacg gtaatgacat 60agctgtttcc tccttgtgtt atccgctcac
aattagtggt tgaattattt gctcaggatg 120tggcatcgtc aagggctaat
acgactcact atagggctcg 16011527DNAArtificial SequenceSynthetic
Construct 115gacatctgca gctccatttt cttctgc 2711642DNAArtificial
SequenceSynthetic Construct 116caataataac tactgttttc actctttacc
ctctcctttt aa 4211742DNAArtificial SequenceSynthetic Construct
117ttaaaaggag agggtaaaga gtgaaaacag tagttattat tg
4211845DNAArtificial SequenceSynthetic Construct 118cggggccaag
gccggttttt tttagtttcg ataagaacga acggt 4511945DNAArtificial
SequenceSynthetic Construct 119accgttcgtt cttatcgaaa ctaaaaaaaa
ccggccttgg ccccg 4512022DNAArtificial SequenceSynthetic Construct
120caccatggta tcctgttctg cg 2212122DNAArtificial SequenceSynthetic
Construct 121ttaatctact ttcagacctt gc 2212266DNAArtificial
SequenceSynthetic Construct 122gcgaacgatg cataaaggag gtaaaaaaac
atggtatcct gttctgcgcc gggtaagatt 60tacctg 6612348DNAArtificial
SequenceSynthetic Construct 123gggcccgttt aaactttaac tagactttaa
tctactttca gaccttgc 4812420DNAArtificial SequenceSynthetic
Construct 124caccaaagac ttcatagact 2012520DNAArtificial
SequenceSynthetic Construct 125agagatatct tcctgctgct
2012620DNAArtificial SequenceSynthetic Construct 126taatacgact
cactataggg 2012719DNAArtificial SequenceSynthetic Construct
127accaattgca cccggcaga 1912821DNAArtificial SequenceSynthetic
Construct 128gctaaagcgc atgctccaga c 2112920DNAArtificial
SequenceSynthetic Construct 129gactggcctc agatgaaagc
2013020DNAArtificial SequenceSynthetic Construct 130caaacatgtg
gcatggaaag 2013152DNAArtificial SequenceSynthetic Construct
131gggcccgttt aaactttaac tagactctgc agttagcgtt caaacggcag aa
5213238DNAArtificial SequenceSynthetic Construct 132cgcatgcatg
tcatgagatg tagcgtgtcc accgaaaa 3813322DNAArtificial
SequenceSynthetic Construct 133acaatttcac acaggaaaca gc
2213422DNAArtificial SequenceSynthetic Construct 134gcactgtctt
tccgtctgct gc 2213521DNAArtificial SequenceSynthetic Construct
135ggtttagttc ctcaccttgt c 2113621DNAArtificial SequenceSynthetic
Construct 136cgtgaatttg ctggctctca g 2113724DNAArtificial
SequenceSynthetic Construct 137gatagtaacg gctgcgctgc tacc
2413823DNAArtificial SequenceSynthetic Construct 138gacagcttat
catcgactgc acg 2313967DNAArtificial SequenceSynthetic Construct
139accgccaaaa gcgactaatt ttagctgtta cagtcagttg aattaaccct
cactaaaggg 60cggccgc 67140152DNAArtificial SequenceSynthetic
Construct 140gctggcgata taaactgttt gcttcatgaa tgctcctttg ggttacctcc
gggaaacgcg 60gttgatttgt ttagtggttg aattatttgc tcaggatgtg gcatagtcaa
gggcgtgacg 120gctcgctaat acgactcact atagggctcg ag
15214126DNAArtificial SequenceSynthetic Construct 141accgccaaaa
gcgactaatt ttagct 2614230DNAArtificial SequenceSynthetic Construct
142cttgatatct tagtgtgcgt taaccaccac 30
* * * * *