U.S. patent application number 14/237120 was filed with the patent office on 2014-10-02 for streptococcal glcnac-lacking glycopolypeptides, cell wall carbohydrates, streptococcus vaccines, and methods for making and using them.
This patent application is currently assigned to THE REGENTS OF THE UNIVERSITY OF CALIFORNIA. The applicant listed for this patent is Victor Nizet, Nina van Sorge. Invention is credited to Victor Nizet, Nina van Sorge.
Application Number | 20140294930 14/237120 |
Document ID | / |
Family ID | 47629938 |
Filed Date | 2014-10-02 |
United States Patent
Application |
20140294930 |
Kind Code |
A1 |
Nizet; Victor ; et
al. |
October 2, 2014 |
STREPTOCOCCAL GlcNAc-LACKING GLYCOPOLYPEPTIDES, CELL WALL
CARBOHYDRATES, STREPTOCOCCUS VACCINES, AND METHODS FOR MAKING AND
USING THEM
Abstract
In alternative embodiments, the invention provides vaccines,
pharmaceutical compounds and formulations for diagnosing,
preventing, treating or ameliorating Group A Streptococcus (GAS),
Group C Streptococcus (GCS), or Group A Streptococcus (GGS),
infections, or other pathogenic Streptococcus infections. In
alternative embodiments, the invention provides compositions such
as diagnostic tests, assays, immunoassays and test strips, and
methods, for detecting or diagnosing the presence of a
Streptococcal infection, e.g., Group A Streptococcus (GAS), Group C
Streptococcus (GCS), or Group A Streptococcus (GGS), infections, or
other pathogenic Streptococcus infections.
Inventors: |
Nizet; Victor; (San Diego,
CA) ; van Sorge; Nina; (Leusden, NL) |
|
Applicant: |
Name |
City |
State |
Country |
Type |
Nizet; Victor
van Sorge; Nina |
San Diego
Leusden |
CA |
US
NL |
|
|
Assignee: |
THE REGENTS OF THE UNIVERSITY OF
CALIFORNIA
Oakland
CA
|
Family ID: |
47629938 |
Appl. No.: |
14/237120 |
Filed: |
August 3, 2012 |
PCT Filed: |
August 3, 2012 |
PCT NO: |
PCT/US2012/049604 |
371 Date: |
June 9, 2014 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
|
|
61515287 |
Aug 4, 2011 |
|
|
|
Current U.S.
Class: |
424/450 ;
424/133.1; 424/137.1; 424/193.1; 424/244.1; 435/7.1; 435/7.34;
436/501; 506/18; 530/387.3; 530/387.5; 530/395; 536/123.1 |
Current CPC
Class: |
C12N 1/20 20130101; C08B
37/0006 20130101; A61K 2039/522 20130101; G01N 33/56938 20130101;
G01N 2400/02 20130101; G01N 33/5308 20130101; G01N 33/56944
20130101; A61K 39/092 20130101; C07K 14/315 20130101; A61K 2039/552
20130101; C07K 16/1275 20130101; C07K 16/44 20130101; C12N 1/36
20130101; G01N 2500/00 20130101 |
Class at
Publication: |
424/450 ;
424/133.1; 424/137.1; 424/193.1; 424/244.1; 435/7.1; 435/7.34;
436/501; 506/18; 530/387.3; 530/387.5; 530/395; 536/123.1 |
International
Class: |
C07K 16/44 20060101
C07K016/44; C08B 37/00 20060101 C08B037/00; C07K 14/315 20060101
C07K014/315; G01N 33/569 20060101 G01N033/569; G01N 33/53 20060101
G01N033/53 |
Goverment Interests
GOVERNMENT RIGHTS
[0002] This invention was made with government support under grants
A 1077780 and AI060536, awarded by the National Institutes of
Health (NIH). The government has certain rights in the invention.
Claims
1: An isolated, synthetic or recombinant Group A Streptococcus
(GAS) carbohydrate, glycoprotein or glycoconjugate variant/mutant:
(a) partially lacking, substantially lacking, or completely lacking
an immunodominant GlcNac side chain; (b) partially lacking,
substantially lacking, or completely lacking an autoreactive GlcNAc
component; (c) having a polyrhamnose backbone rather than: an
immunodominant side chain, an immunodominant GlcNac side chain, or
a group A carbohydrate (GAC) antigen, or (d) comprising any
combination of (a) to (c).
2: An isolated, synthetic or recombinant Group C Streptococcus
(GCS) carbohydrate, glycoprotein or glycoconjugate variant/mutant:
(a) partially lacking, substantially lacking, or completely lacking
an immunodominant GalNAc-GalNAc side chain; (b) partially lacking,
substantially lacking, or completely lacking an autoreactive
GalNAc-GalNAc component; (c) having a polyrhamnose backbone rather
than: an immunodominant GalNAc-GalNAc side chain, or a group C
carbohydrate (GCC) antigen, or (d) comprising any combination of
(a) to (c).
3: An isolated, synthetic or recombinant Group G Streptococcus
(GGS) carbohydrate, glycoprotein or glycoconjugate variant/mutant:
(a) partially lacking, substantially lacking, or completely lacking
an immunodominant glycan side chain; or, (b) partially lacking,
substantially lacking, or completely lacking an autoreactive glycan
component; or, (c) having a polyrhamnose backbone rather than: an
immunodominant glycan side chain, or a group G carbohydrate (GGC)
antigen, or (d) comprising any combination of (a) to (c).
4: A vaccine, a formulation, a composition or a pharmaceutical
composition comprising a carbohydrate, glycoconjugate or
glycopeptide selected from the group consisting of: (a) an
isolated, synthetic or recombinant Group A Streptococcus (GAS)
carbohydrate, glycoprotein or glycoconjugate variant/mutant: (i)
partially lacking, substantially lacking, or completely lacking an
immunodominant GlcNac side chain; (ii) partially lacking,
substantially lacking, or completely lacking an autoreactive GlcNAc
component; (iii) having a polyrhamnose backbone rather than: an
immunodominant side chain, an immunodominant GlcNac side chain, or
a group A carbohydrate (GAC) antigen, or (iv) comprising any
combination of (i) to (iii); (b) an isolated, synthetic or
recombinant Group G Streptococcus (GGS) carbohydrate, glycoprotein
or glycoconjugate variant/mutant: (i) partially lacking,
substantially lacking, or completely lacking an immunodominant
glycan side chain; or, (ii) partially lacking, substantially
lacking, or completely lacking an autoreactive glycan component;
or, (iii) having a polyrhamnose backbone rather than: an
immunodominant glycan side chain, or a group G carbohydrate (GGC)
antigen, or (iv) comprising any combination of (i) to (iii); (c) an
isolated, synthetic or recombinant Group C Streptococcus (GCS)
carbohydrate variant/mutant: (i) partially or completely lacking an
immunodominant GalNAc-GalNAc side side chain; (ii) partially or
completely lacking an autoreactive GalNAc-GalNAc side component;
(iii) having a polyrhamnose backbone rather than: an immunodominant
GalNAc-GalNAc side side chain, or a Group C carbohydrate (GCC)
antigen; or (iv) comprising any combination of (i) to (iii)
partially or completely lacking an immunodominant side chain; or,
partially or completely lacking an autoreactive component; or
having a polyrhamnose backbone rather than an immunodominant glycan
side chain, or a group G carbohydrate (GGS) antigen; (d) the
isolated, synthetic or recombinant carbohydrate variant/mutant of
(a) and (b); (e) the isolated, synthetic or recombinant
carbohydrate variant/mutant of (a) and (c); (f) the isolated,
synthetic or recombinant carbohydrate variant/mutant of (b) and
(c); and (g) the isolated, synthetic or recombinant carbohydrate
variant/mutant of (a), (b) and (c).
5: The vaccine, formulation, composition or pharmaceutical
composition of claim 4, further comprising one or more different or
additional GAS, GCC and/or GGC protein antigen or antigens.
6: The vaccine, formulation, composition or pharmaceutical
composition of claim 4: (a) further comprising an adjuvant and/or a
pharmaceutically acceptable excipient; (b) formulated as a liquid,
a powder, a liposome, an aerosol, a nanoparticle or a lyophilized,
freeze-dried or cryodessicated preparation, (c) formulated as an
emulsion, a lyophilized powder, a spray, a cream, a lotion, a
controlled release formulation, a tablet, a pill, a gel, a patch,
in an implant or in a spray, or is formulated as an aqueous or a
non-aqueous isotonic sterile injection solution, or an aqueous or a
non-aqueous sterile suspension; or (d) formulated as a vaccine or a
pharmaceutical for the prevention, amelioration or treatment of
strep throat, impetigo, cellulitis, necrotizing fascititis, toxic
shock syndrome, or post-streptococcal glomerulonephritis.
7-14. (canceled)
15: A kit comprising: a vaccine, a formulation, a composition or a
pharmaceutical composition of claim 4.
16: An isolated or recombinant antibody, a polyclonal or a
monoclonal antibody, or a sera or a hyperimmune serum, wherein the
antibody or serum specifically reacts against, or specifically
binds to, or is specifically derived against: (a) a mutant GAS, GGS
or GCS carbohydrate antigen, engineered to partially lack,
substantially lack or completely lack an immuno-crossreactive
carbohydrate side chain, (b) a mutant GAS carbohydrate antigen
engineered to partially lack, substantially lack or completely lack
an immuno-crossreactive GlcNac side chain; (c) a mutant GCS
carbohydrate antigen engineered to partially lack, substantially
lack or completely lack an immunodominant GalNac-GalNac side chain;
or (d) any combination or all of (a), (b) and (c).
17: The isolated or recombinant antibody, polyclonal or a
monoclonal antibody, or a sera or a hyperimmune serum of claim 16,
wherein the antibody or serum is formulated for active or passive
immunotherapy in a mammal.
18: A vaccine or formulation comprising one or more isolated or
recombinant antibodies, a polyclonal or a monoclonal antibodies, or
a sera or a hyperimmune sera of claim 16, wherein the antibodies or
sera specifically react against, or specifically bind to, or are
specifically derived against one, two or all of: (a) a mutant GAS,
GGS or GCS carbohydrate antigen, engineered to partially lack,
substantially lack or completely lack an immuno-crossreactive
carbohydrate side chain, (b) a mutant GAS carbohydrate antigen
engineered to partially lack, substantially lack or completely lack
an immuno-crossreactive GlcNac side chain; and/or (c) a mutant GCS
carbohydrate antigen engineered to partially lack, substantially
lack or completely lack an immunodominant GalNac-GalNac side
chain.
19: A method for active or passive immunotherapy in a mammal for
preventing or ameliorating a GAS, a GGS or a GCS infection in a
mammal, a human or a horse, comprising: (a) providing the isolated
or recombinant antibody, polyclonal or a monoclonal antibody, or
hyperimmune serum of claim 16; and (b) administering a
therapeutically or prophylactically effective dose or dosages of
the isolated or recombinant antibody, polyclonal or a monoclonal
antibody, or the serum or hyperimmune serum, or vaccine or
formulation, to the mammal, a human or a horse.
20: A diagnostic test, an assay, an immunoassay or a test strip, or
a bead or latex bead, or an array, a microarray, a biochip,
diagnostic chip or chip, for detecting or diagnosing the presence
of a Streptococcal infection, comprising or having affixed or
attached thereon: the isolated or recombinant antibody, polyclonal
or a monoclonal antibody, or serum or hyperimmune serum of claim
16.
21: The diagnostic test, assay, immunoassay or test strip, or
array, microarray, biochip, diagnostic chip or chip, of claim 20,
wherein the test or assay comprises a latex agglutination assay or
beads, enzyme immunoassay or an optical, liquid or solid phase
immunoassay.
22: A hydrogel, a particle or a magnetic particle for detecting or
diagnosing the presence of a Streptococcal infection, comprising or
having affixed or attached thereon the isolated or recombinant
antibody, polyclonal or a monoclonal antibody, or hyperimmune serum
of claim 16, wherein optionally the hydrogel, particle or magnetic
particle detects the presence of or diagnoses a Streptococcal
pharyngitis ("strep throat"), impetigo, cellulitis, necrotizing
fascititis, toxic shock syndrome, or post-streptococcal
glomerulonephritis, in a human, wherein optionally the hydrogel,
particle or magnetic particle detects the presence of or diagnoses
a Streptococcal infection, wherein optionally the Streptococcal
infection is a GAS, a GGS or a GCS infection in a mammal.
23: An array, a microarray, a biochip, a diagnostic chip or a chip,
for detecting or diagnosing the presence of a Streptococcal
infection, comprising or having affixed or attached thereon an
isolated or a recombinant antibody, polyclonal or a monoclonal
antibody, or a serum or a hyperimmune serum of claim 16, wherein
optionally the biochip, diagnostic chip or chip detects the
presence of or diagnoses a Streptococcal pharyngitis ("strep
throat") in a human, wherein optionally the diagnostic test, assay,
immunoassay or test strip detects the presence of or diagnoses a
Streptococcal infection, wherein optionally the Streptococcal
infection is a GAS, a GGS or a GCS infection in a mammal.
24-25. (canceled)
26: The vaccine, formulation, composition or pharmaceutical
composition of claim 4, wherein the carbohydrate, glycoconjugate or
glycopeptide comprises, or is the same as or is derived from: a
pathogenic streptococci of a group B Streptococcus (GBS), for
example, a Streptococcus agalactiae, or a group G Streptococcus
(GGS) carbohydrate (GCC) antigen.
27: The vaccine, formulation, composition or pharmaceutical
composition of claim 4, wherein the vaccine, formulation,
composition or pharmaceutical composition, comprises: a
polyrhamnose backbone, or a plurality of polyrhamnose backbones
derived from a GAS; GCS; a GBS; a GGS; a GAS and a GCS; a GAS and a
GBS; a GAS and a GGS; a GCS and a GBS; a GCS and a GGS; a GBS and a
GGS; or a GAS, a GCS, a GBS and a GGS.
28: The isolated or recombinant antibody, polyclonal or a
monoclonal antibody, or a sera or a hyperimmune serum of claim 16,
wherein the antibody or serum is formulated for treating,
ameliorating or for preventing a GAS, GGS or GCS infection in a
mammal, a human or a horse.
29: The method of claim 19, wherein the immunotherapy is for the
prevention, amelioration or treatment of strep throat, impetigo,
cellulitis, necrotizing fascititis, toxic shock syndrome, or
post-streptococcal glomerulonephritis.
30: The diagnostic test, assay, immunoassay, test strip, bead,
latex bead, array, microarray, biochip, diagnostic chip or chip, of
claim 20, wherein: (a) the diagnostic test, assay, immunoassay or
test strip, or array, microarray, biochip, diagnostic chip or chip,
detects the presence of or diagnoses a Streptococcal pharyngitis
("strep throat") in a human, (b) the diagnostic test, assay,
immunoassay or test strip, or array, microarray, biochip,
diagnostic chip or chip, detects the presence of or diagnoses a
strep throat, impetigo, cellulitis, necrotizing fascititis, toxic
shock syndrome, or post-streptococcal glomerulonephritis, (c) the
diagnostic test, assay, immunoassay or test strip, or array,
microarray, biochip, diagnostic chip or chip, detects the presence
of or diagnoses a Streptococcal infection, or (d) the Streptococcal
infection is a GAS, a GGS or a GCS infection in a mammal.
Description
RELATED APPLICATIONS
[0001] This application claims benefit of priority to U.S.
Provisional Patent Application Ser. No. 61/515,287, filed Aug. 4,
2011. The aforementioned application is expressly incorporated
herein by reference in its entirety and for all purposes.
TECHNICAL FIELD
[0003] This invention generally relates to medicine, vaccines and
microbiology. In particular, in alternative embodiments, the
invention provides vaccines, pharmaceutical compounds and
formulations for diagnosing, preventing, treating or ameliorating
Group A Streptococcus (GAS), Group C Streptococcus (GCS), or
related pathogenic streptococcal, infections. In alternative
embodiments, the invention provides compositions such as diagnostic
tests, assays, immunoassays and test strips, and methods, for
detecting or diagnosing the presence of a Streptococcal infection,
e.g., Group A Streptococcus (GAS), Group C Streptococcus (GCS), or
Group A Streptococcus (GGS), infections, or other pathogenic
Streptococcus infections.
BACKGROUND
[0004] Group A Streptococcus (GAS), also known as S. pyogenes, is a
preeminent human pathogen ranking among the top 10
infection-related causes of mortality worldwide. GAS causes a wide
spectrum of disease, ranging from pharyngitis ("strep throat"), to
severe invasive infections including necrotizing fasciitis and
toxic shock syndrome, to the autoimmune disorder acute rheumatic
fever (ARF). No effective GAS vaccine has been developed, a goal
made more challenging by the greater than 150 different serotypes
produced by the immunovariable surface M protein.
[0005] Group C Streptococcus (GCS), although less extensively
studied that GAS, can produce human infections quite similar to
those caused by GAS, although these are more often opportunistic
infections or nosocomial infections. For example, GCS can cause
epidemic pharyngitis and cellulitis clinically indistinguishable
from GAS disease, and can cause septicemia, endocarditis, septic
arthritis and necrotizing infections in patients with predisposing
conditions such as diabetes, cancer or advanced aged. GCS is also
the cause of the highly contagious and serious upper respiratory
tract infection of horses and other equines known as strangles,
which is enzootic in a worldwide distribution.
[0006] GAS is classically defined by expression of a unique
carbohydrate structure called the group A carbohydrate (GAC).
Comprising approximately 50% of the dry weight of the bacterial
cell wall, GAC consists of a rhamnose backbone and an
immunodominant N-acetylglucosamine (GlcNAc) side chain. GAC is the
basis for all contemporary rapid diagnostic testing for GAS
pharyngitis. GAC has shown potential as a universal GAS vaccine in
animal studies, but serious safety concerns were raised since the
antibodies against the GlcNAc side chain have been implicated in
the immunopathogenesis of rheumatic fever (RF), a poststreptococcal
inflammatory disorder of global health importance. In particular,
evidence of anti-GlcNAc antibodies have been associated with two
cardinal manifestations of RF: rheumatic carditis and Sydenham's
chorea.
[0007] Group A Streptococcus (GAS) mutants with variant group A
carbohydrate (GAC), so-called A-variants, have been observed to
originate upon serial passage in mice, however the molecular basis
for this spontaneous variation has never been documented. In
addition, such variants have never been isolated from humans,
possibly indicating the GlcNAc side chain is plays an essential
role in human colonization, infection or transmission. Human serum
contains antibodies against GAC that are predominantly directed
against the GlcNAc side chain and promote phagocytosis of GAS.
However, anti-GlcNAc antibodies have also been observed to
crossreact with human cardiac myosin and lysoganglioside on
neuronal cells, associating them to rheumatic carditis and Sydenham
chorea, respectively. Anti-GAC antibodies that recognize the
rhamnose backbone have also been described to be present in human
serum, however, their protective effect against streptococcal
infection is currently unknown. Importantly, the identical GAC
rhamnose backbone is shared by the group carbohydrate antigens of
other medically important pathogens including GCS. GCS are
distinguished immunologically from GAS by the expression of a
distinct sugar side chain, i.e. two GalNAc residues in GCS vs. the
single GlcNAc residue in GAS.
[0008] There is currently no universal vaccine available for GAS
nor GCS. Historically, experimental GAS vaccines have focused on
using the major immunologic epitope, the surface-anchored M
protein. This approach is hampered by the existence of more than
150 serotypes based on hypervariability of the M protein N-terminal
domain, with evidence that individual M protein vaccines offer only
serotype specific protection. In addition, M protein can elicit
cross reactive antibodies against myosin and tropomyosin that are
believed to be central in the pathogenesis of RF, again raising an
important safety issue regarding use of M protein or M protein
sequences in vaccine formulations.
SUMMARY
[0009] In alternative embodiments, the invention provides isolated,
synthetic or recombinant Group A Streptococcus (GAS) carbohydrate,
glycoprotein or glycoconjugate compositions or variants and/or
mutants: partially lacking, substantially lacking, or completely
lacking an immunodominant GlcNac side chain; or, partially lacking,
substantially lacking, or completely lacking an autoreactive GlcNAc
component; or, having a polyrhamnose backbone rather than an
immunodominant GlcNac side chain, or a group A carbohydrate (GAC)
antigen.
[0010] In alternative embodiments, the invention provides isolated,
synthetic or recombinant Group C Streptococcus (GCS) carbohydrate,
glycoprotein or glycoconjugate compositions or variants and/or
mutants: partially lacking, substantially lacking, or completely
lacking an immunodominant GalNAc-GalNAc side chain; or, partially
lacking, substantially lacking, or completely lacking an
autoreactive GalNAc-GalNAc component; or, having a polyrhamnose
backbone rather than an immunodominant GalNAc-GalNAc side chain, or
a group C carbohydrate (GCC) antigen.
[0011] In alternative embodiments, the invention provides isolated,
synthetic or recombinant Group G Streptococcus (GGS) carbohydrate,
glycoprotein or glycoconjugate compositions or variants and/or
mutants: partially lacking, substantially lacking, or completely
lacking an immunodominant glycan side chain; or, partially lacking,
substantially lacking, or completely lacking an autoreactive glycan
component; or, having a polyrhamnose backbone rather than an
immunodominant glycan side chain, or a group G carbohydrate (GGC)
antigen.
[0012] In alternative embodiments, the invention provides vaccines,
formulations, compositions or pharmaceutical compositions,
comprising a carbohydrate, glycoconjugate or glycopeptide selected
from the group consisting of:
[0013] (a) an isolated, synthetic or recombinant Group A
Streptococcus (GAS) carbohydrate variant/mutant: partially or
completely lacking an immunodominant GlcNac side chain; or,
partially or completely lacking an autoreactive GlcNAc component;
or having a polyrhamnose backbone rather than an immunodominant
GlcNac side chain, or a group A carbohydrate (GAC) antigen;
[0014] (b) an isolated, synthetic or recombinant Group C
Streptococcus (GCS) polypeptide or glycopeptide variant/mutant:
partially or completely lacking an immunodominant GalNac-GalNac
side chain; or, partially or completely lacking a potentially
autoreactive GalNac-GalNac component; or having a polyrhamnose
backbone rather than an immunodominant GalNac-GalNac side chain, or
a group C carbohydrate (GCC) antigen;
[0015] (c) an isolated, synthetic or recombinant carbohydrate
variant/mutant: partially or completely lacking an immunodominant
glycan side chain; or, partially or completely lacking an
autoreactive glycan component; or having a polyrhamnose backbone
rather than an immunodominant glycan side chain, or
[0016] an isolated, synthetic or recombinant Group G Streptococcus
(GGS) carbohydrate variant/mutant: partially or completely lacking
an immunodominant glycan side chain; or, partially or completely
lacking an autoreactive glycan component; or having a polyrhamnose
backbone rather than an immunodominant glycan side chain, or a
group G carbohydrate (GGC) antigen,
[0017] wherein optionally the carbohydrate, glycoconjugate or
glycopeptide comprises, or is the same as or is derived from: a
pathogenic streptococci of a group B Streptococcus (GBS), for
example, a Streptococcus agalactiae, or a group G Streptococcus
(GGS) carbohydrate (GCC) antigen (both of which are known to have
polyrhamnose backbones similar to that of GAS/GCS, but with more
complex antennary structures);
[0018] (d) the isolated, synthetic or recombinant carbohydrate
variant/mutant of (a) and (b);
[0019] (e) the isolated, synthetic or recombinant carbohydrate
variant/mutant of (a) and (c);
[0020] (f) the isolated, synthetic or recombinant carbohydrate
variant/mutant of (b) and (c); and
[0021] (g) the isolated, synthetic or recombinant carbohydrate
variant/mutant of (a), (b) and (c).
[0022] In alternative embodiments, the vaccine, formulation,
composition or pharmaceutical composition, comprises: a
polyrhamnose backbone, or a plurality of polyrhamnose backbones
derived from a GAS; GCS; a GBS; a GGS; a GAS and a GCS; a GAS and a
GBS; a GAS and a GGS; a GCS and a GBS; a GCS and a GGS; a GBS and a
GGS; or a GAS, a GCS, a GBS and a GGS.
[0023] In alternative embodiments, the vaccine, formulation,
composition or pharmaceutical composition, comprises: an isolated,
synthetic or recombinant carbohydrate variant/mutant derived from a
GAS; GCS; a GBS; a GGS; a GAS and a GCS; a GAS and a GBS; a GAS and
a GGS; a GCS and a GBS; a GCS and a GGS; a GBS and a GGS; or a GAS,
a GCS, a GBS and a GGS, wherein the carbohydrate variant/mutant
partially or completely lacks an autoreactive glycan component.
[0024] In alternative embodiments, the vaccine, formulation,
composition or pharmaceutical composition, comprises: an isolated,
synthetic or recombinant carbohydrate variant/mutant: partially or
completely lacking an immunodominant glycan side chain from: a GAS;
GCS; a GBS; a GGS; a GAS and a GCS; a GAS and a GBS; a GAS and a
GGS; a GCS and a GBS; a GCS and a GGS; a GBS and a GGS; or a GAS, a
GCS, a GBS and a GGS.
[0025] In alternative embodiments the vaccines, formulations,
compositions or pharmaceutical compositions further comprise one or
more (different or additional) GAS, a GCC and/or a GGC protein
antigen, or further comprise an adjuvant and/or a pharmaceutically
acceptable excipient.
[0026] In alternative embodiments the vaccines, formulations,
compositions or pharmaceutical compositions of the invention can be
manufactured or formulated as a liquid, a powder, a liposone, an
aerosol, a nanoparticle or a lyophilized, freeze-dried or
cryodessicated preparation, or can be manufactured or formulated as
an emulsion, a lyophilized powder, a spray, a cream, a lotion, a
controlled release formulation, a tablet, a pill, a gel, a patch,
in an implant or in a spray, or is formulated as an aqueous or a
non-aqueous isotonic sterile injection solution, or an aqueous or a
non-aqueous sterile suspension.
[0027] In alternative embodiments the vaccines, formulations,
compositions or pharmaceutical compositions of the invention
are:
[0028] formulated as a liquid, a powder, a liposome, an aerosol, a
nanoparticle or a lyophilized, freeze-dried or cryodessicated
preparation,
[0029] formulated as an emulsion, a lyophilized powder, a spray, a
cream, a lotion, a controlled release formulation, a tablet, a
pill, a gel, a patch, in an implant or in a spray, or is formulated
as an aqueous or a non-aqueous isotonic sterile injection solution,
or an aqueous or a non-aqueous sterile suspension; or
[0030] formulated as a vaccine or a pharmaceutical for the
prevention, amelioration or treatment of strep throat, impetigo,
cellulitis, necrotizing fascititis, toxic shock syndrome, or
post-streptococcal glomerulonephritis.
[0031] In alternative embodiments the invention provides isolated,
modified or recombinant Group A Streptococcus (GAS) engineered or
modified:
[0032] (a) to lack one or more functional genes necessary to
synthesize and/or assemble one or more, or all of its
immunodominant GlcNac side chains, or group A carbohydrate (GAC)
antigens;
[0033] ((b) to lack a functional gacI (Spy0610) gene or gene
product, or lack any functional copy of the gacI (Spy0610) gene or
gene product,
[0034] wherein optionally the GAS is an allelic replacement
knockout of gacI (Spy0610);
[0035] (c) such that it cannot assemble a GlcNac side chain; or
[0036] (d) as in any or all of (a), (b) or (c) and also engineered
or modified to lack a functional M protein gene or gene
product.
[0037] The M protein, along with the immunodominant GlcNac side
chain, has been implicated in the immunopathogenesis of rheumatic
fever; thus, in one embodiment, the invention provides a double
mutant lacking both GlcNac and M protein; this embodiment provides
an added safety advantage in manufacture.
[0038] In alternative embodiments the invention provides isolated,
modified or recombinant Group C Streptococcus (GCS) engineered or
modified: [0039] (a) to lack one or more functional genes necessary
to synthesize and/or assemble one or more, or all of its
immunodominant GalNAc-GalNAc side chains, or group G carbohydrate
(GCC) antigens;
[0040] (b) to lack a functional gene or gene product providing the
homologous function to GAS gacI, or lack any functional copy of the
this gene or gene product,
[0041] wherein optionally the GCS is an allelic replacement
knockout of the gene encoding the homologous function to GAS
gacI;
[0042] (c) such that it cannot assemble a GalNAc-GalNAc side chain;
or
[0043] (d) as in any or all of (a), (b) or (c) and also engineered
or modified to lack a functional M protein gene or gene
product.
[0044] In alternative embodiments the invention provides isolated,
modified or recombinant Group C Streptococcus (GCS) engineered or
modified:
[0045] (a) to lack one or more functional genes necessary (e.g.
gccN) to synthesize and/or assemble one or more, or all of its
immunodominant glycan side chains, or group C carbohydrate (GGC)
antigens;
[0046] (b) to lack a functional gene or gene product, or lack any
functional copy of the gene or gene product providing the
homologous function to GAS gacI,
[0047] wherein optionally the GCS mutant is an allelic replacement
knockout of this gene; or
[0048] (c) such that it cannot assemble its glycan side chain on
the GCC; or
[0049] (d) as in any or all of (a), (b) or (c) and also engineered
or modified to lack a functional M protein gene or gene
product.
[0050] In alternative embodiments the invention provides isolated,
modified or recombinant Group G Streptococcus (GGS) engineered or
modified:
[0051] (a) to lack one or more functional genes necessary to
synthesize and/or assemble one or more, or all of its
immunodominant glycan side chains, or group C carbohydrate (GGC)
antigens;
[0052] (b) to lack a functional gene or gene product, or lack any
functional copy of the gene or gene product providing the
homologous function to GAS sagI,
[0053] wherein optionally the GGS mutant is an allelic replacement
knockout of this gene; or
[0054] (c) such that it cannot assemble its glycan side chain on
the GGC; or
[0055] (d) as in any or all of (a), (b) or (c) and also engineered
or modified to lack a functional M protein gene or gene
product.
[0056] In alternative embodiments the invention provides attenuated
live bacteria comprising: an isolated, modified or recombinant
Group A Streptococcus (GAS) of the invention; an isolated, modified
or recombinant Group C Streptococcus (GCS) of the invention; or, an
isolated, modified or recombinant Group G Streptococcus (GGS) of
the invention.
[0057] In alternative embodiments the invention provides vaccines,
formulations, compositions or pharmaceutical compositions
comprising an attenuated live bacteria of the invention.
[0058] In alternative embodiments the invention provides vaccines,
formulations, compositions or pharmaceutical compositions
comprising: an isolated, modified or recombinant Group A
Streptococcus (GAS) of the invention; an isolated, modified or
recombinant Group G Streptococcus (GGS) of the invention; or, an
isolated, modified or recombinant Group C Streptococcus (GCS) of
the invention.
[0059] In alternative embodiments the invention provides methods
for screening for a composition that can render a Group A
Streptococcus (GAS) susceptible to innate immune clearance or
pharmacological antibiotics comprising:
[0060] (a) identifying a composition or a small molecule inhibitor
of a gacI (Spy0610) gene expression, or a gacI (Spy0610) gene
product function; or
[0061] (b) identifying a composition or a small molecule inhibitor
of any gene or gene product in any of the carbohydrate gene
clusters or operons.
[0062] In alternative embodiments the invention provides kits
comprising: an antibody of the invention; a vaccine, a formulation,
a composition or a pharmaceutical composition of the invention; an
isolated, synthetic or recombinant Group A Streptococcus (GAS)
carbohydrate, glycoprotein or glycoconjugate variant/mutant of the
invention; an isolated, synthetic or recombinant Group C
Streptococcus (GCS) carbohydrate, glycoprotein or glycoconjugate
variant/mutant of the invention; and/or, an isolated, synthetic or
recombinant Group G Streptococcus (GGS) carbohydrate, glycoprotein
or glycoconjugate variant/mutant of the invention.
[0063] In alternative embodiments the invention provides isolated
or recombinant antibodies, polyclonal or a monoclonal antibodies,
or a serum (e.g., a hyperimmune serum or hyperimmune sera), wherein
the antibody or serum or sera specifically react(s) against, or
specifically binds to, or is specifically derived against:
[0064] (a) a mutant GAS, GGS or GCS carbohydrate antigen,
engineered to partially lack, substantially lack or completely lack
an immuno-crossreactive carbohydrate side chain,
[0065] (b) a mutant GAS carbohydrate antigen engineered to
partially lack, substantially lack or completely lack an
immuno-crossreactive GlcNac side chain; or
[0066] (c) a mutant GCS carbohydrate antigen engineered to
partially lack, substantially lack or completely lack an
immunodominant GalNac-GalNac side chain.
[0067] In alternative embodiments, the antibody or serum is
formulated for active or passive immunotherapy in a mammal,
optionally formulated for treating, ameliorating or for preventing
a GAS, GGS or GCS infection in a mammal, a human or a horse,
[0068] wherein optionally the immunotherapy is for the prevention,
amelioration or treatment of strep throat, impetigo, cellulitis,
necrotizing fascititis, toxic shock syndrome, or post-streptococcal
glomerulonephritis.
[0069] In alternative embodiments the invention provides vaccines
or formulations comprising one or more isolated or recombinant
antibodies, a polyclonal or a monoclonal antibodies, or a sera
(e.g., a hyperimmune sera) of the invention, wherein the antibodies
or sera specifically react against, or specifically bind to, or are
specifically derived against one, two or all of:
[0070] (a) a mutant GAS, GGS or GCS carbohydrate antigen,
engineered to partially lack, substantially lack or completely lack
an immuno-crossreactive carbohydrate side chain,
[0071] (b) a mutant GAS carbohydrate antigen engineered to
partially lack, substantially lack or completely lack an
immuno-crossreactive GlcNac side chain; and/or
[0072] (c) a mutant GCS carbohydrate antigen engineered to
partially lack, substantially lack or completely lack an
immunodominant GalNac-GalNac side chain.
[0073] In alternative embodiments the invention provides methods
for active or passive immunotherapy in a mammal for preventing a
GAS, a GGS or a GCS infection in a mammal, a human or a horse,
comprising:
[0074] (a) providing the isolated or recombinant antibody,
polyclonal or a monoclonal antibody, or a serum or a hyperimmune
serum of the invention, or a vaccine or formulation of the
invention; and
[0075] (b) administering a therapeutically or prophylactically
effective dose or dosages of the isolated or recombinant antibody,
polyclonal or a monoclonal antibody, or a serum or a hyperimmune
serum, or vaccine or formulation, to the mammal, a human or a
horse,
[0076] wherein optionally the immunotherapy is for the prevention,
amelioration or treatment of strep throat, impetigo, cellulitis,
necrotizing fascititis, toxic shock syndrome, or post-streptococcal
glomerulonephritis.
[0077] In alternative embodiments the invention provides diagnostic
tests, assays, immunoassays or test strips, or arrays, microarrays,
biochips, diagnostic chips or chips, for detecting or diagnosing
the presence of a Streptococcal infection, comprising the isolated
or recombinant antibody, polyclonal or a monoclonal antibody, or a
serum or a hyperimmune serum of the invention, or a vaccine or
formulation of the invention,
[0078] wherein optionally the diagnostic test, assay, immunoassay
or test strip detects the presence of or diagnoses a Streptococcal
pharyngitis ("strep throat") in a human,
[0079] wherein optionally the diagnostic test, assay, immunoassay
or test strip, or array, microarray, biochip, diagnostic chip or
chip, detects the presence of or diagnoses a strep throat,
impetigo, cellulitis, necrotizing fascititis, toxic shock syndrome,
or post-streptococcal glomerulonephritis,
[0080] wherein optionally the diagnostic test, assay, immunoassay
or test strip detects the presence of or diagnoses a Streptococcal
infection,
[0081] wherein optionally the Streptococcal infection is a GAS, a
GGS or a GCS infection in a mammal.
[0082] In alternative embodiments, the diagnostic test, assay,
immunoassay or test strip comprises a latex agglutination, enzyme
immunoassay or an optical immunoassay.
[0083] In alternative embodiments the invention provides methods
for detecting the presence of or diagnosing a Streptococcal
infection, or a Streptococcal pharyngitis ("strep throat") in a
human, comprising use of a diagnostic test, assay, immunoassay or
test strip, latex agglutination assay, enzyme immunoassay or
optical immunoassay of the invention,
[0084] wherein optionally the infection is or involves a strep
throat, impetigo, cellulitis, necrotizing fascititis, toxic shock
syndrome, or post-streptococcal glomerulonephritis.
[0085] Thus, in alternative embodiments, the invention provides a
diagnostic test, assay or test strip (e.g., latex agglutination,
enzyme immunoassay, or optical immunoassay) for detecting the
presence of or diagnosing a Streptococcal infection, or a
streptococcal pharyngitis ("strep throat") in a mammal, e.g., a
human. In alternative embodiments, the diagnostic test, assay or
test strip is rapid and/or has improved sensitivity and/or
specificity to as compared to current technologies since it targets
a bacterial specific motif (polyrhamnose) rather than a common
sugar motif (e.g., a GlcNac or a GlcNac) present on mammalian
(e.g., human) cells and mucosal secretions. Since an identical
polyrhamnose backbone is shared by GAS and GCS, in alternative
embodiments these rapid diagnostic tests and assays have the
advantage of identifying both species lacking in current rapid
diagnostic methodologies.
[0086] In alternative embodiments the invention provides diagnostic
tests, assays, immunoassays, test strips, beads or latex beads,
arrays, microarrays, biochips, diagnostic chips or chips, or gels
or hydrogels, or magnetic particles, for detecting or diagnosing
the presence of a Streptococcal infection, comprising (or having
affixed or attached thereon) the isolated or recombinant antibody,
polyclonal or a monoclonal antibody, or serum or hyperimmune serum
of the invention, or a vaccine or formulation of the invention,
[0087] wherein optionally the diagnostic tests, assays,
immunoassays, test strips, beads or latex beads, arrays,
microarrays, biochips, diagnostic chips or chips, or gels or
hydrogels, or magnetic particles, detect the presence of or
diagnoses a Streptococcal pharyngitis ("strep throat"), impetigo,
cellulitis, necrotizing fascititis, toxic shock syndrome, or
post-streptococcal glomerulonephritis, in a human,
[0088] wherein optionally the diagnostic tests, assays,
immunoassays, test strips, beads or latex beads, arrays,
microarrays, biochips, diagnostic chips or chips, or gels or
hydrogels, or magnetic particles, detect the presence of or
diagnoses a Streptococcal infection,
[0089] wherein optionally the Streptococcal infection is a GAS, a
GGS or a GCS infection in a mammal.
[0090] In alternative embodiments the invention provides hydrogels,
particles or magnetic particles for detecting or diagnosing the
presence of a Streptococcal infection, comprising (or having
affixed or attached thereon) the isolated or recombinant antibody,
polyclonal or a monoclonal antibody, or serum or hyperimmune serum
of the invention, or a vaccine or formulation of the invention,
[0091] wherein optionally the hydrogel, particle or magnetic
particle detects the presence of or diagnoses a Streptococcal
pharyngitis ("strep throat"), impetigo, cellulitis, necrotizing
fascititis, toxic shock syndrome, or post-streptococcal
glomerulonephritis, in a human,
[0092] wherein optionally the hydrogel, particle or magnetic
particle detects the presence of or diagnoses a Streptococcal
infection,
[0093] wherein optionally the Streptococcal infection is a GAS, a
GGS or a GCS infection in a mammal.
[0094] In alternative embodiments the invention provides arrays,
microarrays, biochips, diagnostic chips or chips, for detecting or
diagnosing the presence of a Streptococcal infection, comprising
(or having affixed or attached thereon) the isolated or recombinant
antibody, polyclonal or a monoclonal antibody, or serum or
hyperimmune serum of the invention, or a vaccine or formulation of
the invention,
[0095] wherein optionally the biochip, diagnostic chip or chip
detects the presence of or diagnoses a Streptococcal pharyngitis
("strep throat"), impetigo, cellulitis, necrotizing fascititis,
toxic shock syndrome, or post-streptococcal glomerulonephritis, in
a human,
[0096] wherein optionally the diagnostic test, assay, immunoassay
or test strip detects the presence of or diagnoses a Streptococcal
infection,
[0097] wherein optionally the Streptococcal infection is a GAS, a
GGS or a GCS infection in a mammal.
[0098] In alternative embodiments the invention provides uses of:
an isolated, synthetic or recombinant Group A Streptococcus (GAS)
carbohydrate, glycoprotein or glycoconjugate variant/mutant of
claim 1, an isolated, synthetic or recombinant Group C
Streptococcus (GCS) carbohydrate, glycoprotein or glycoconjugate
variant/mutant of claim 2, or an isolated, synthetic or recombinant
Group G Streptococcus (GGS) carbohydrate, glycoprotein or
glycoconjugate variant/mutant of claim 3, or an isolated or a
recombinant antibody, polyclonal or a monoclonal antibody, or a
serum or a hyperimmune serum of claim 16 or claim 17, or a vaccine
or formulation of claim 18, for the manufacture of a pharmaceutical
or a medicament,
[0099] wherein optionally the isolated, synthetic or recombinant
GAS, GCS and/or GGS is used for the manufacture of a pharmaceutical
or a medicament to treat, prevent or ameliorate a Streptococcal
infection, a Streptococcal pharyngitis ("strep throat"), impetigo,
cellulitis, necrotizing fascititis, toxic shock syndrome, or
post-streptococcal glomerulonephritis.
[0100] In alternative embodiments the invention provides an
isolated, synthetic or recombinant Group A Streptococcus (GAS)
carbohydrate, glycoprotein or glycoconjugate variant/mutant of the
invention, an isolated, synthetic or recombinant Group C
Streptococcus (GCS) carbohydrate, glycoprotein or glycoconjugate
variant/mutant of the invention, or an isolated, synthetic or
recombinant Group G Streptococcus (GGS) carbohydrate, glycoprotein
or glycoconjugate variant/mutant of the invention, or an isolated
or a recombinant antibody, polyclonal or a monoclonal antibody, or
a serum or a hyperimmune serum of the invention, or a vaccine or
formulation of the invention, for use in a method of treating a
Streptococcal infection, a Streptococcal pharyngitis ("strep
throat"), impetigo, cellulitis, necrotizing fascititis, toxic shock
syndrome, or post-streptococcal glomerulonephritis.
[0101] The details of one or more embodiments of the invention are
set forth in the accompanying drawings and the description below.
Other features, objects, and advantages of the invention will be
apparent from the description and drawings, and from the
claims.
[0102] All publications, patens, patent applications cited herein
are hereby expressly incorporated by reference for all
purposes.
BRIEF DESCRIPTION OF THE DRAWINGS
[0103] The drawings set forth herein are illustrative of
embodiments of the invention and are not meant to limit the scope
of the invention as encompassed by the claims.
[0104] FIG. 1A schematically illustrates the genetic operon for
assembling the GAC in GAS through bioinformatics analysis, and
shows the twelve-gene locus encoding the biosynthetic machinery for
the group A streptococcal (GAS) cell wall carbohydrate antigen;
FIG. 1B illustrates a PCR analysis shows absence of the gacI gene
(incorrectly labeled gacH) in the knockout mutant; FIG. 1C
illustrates a latex agglutination for group A carbohydrate (GlcNac
side chain) is no longer reactive in the GAS .DELTA.gacI
(incorrectly labeled .DELTA.gacI) mutant; FIG. 1D graphically
summarizes this data.
[0105] FIG. 2 graphically illustrates a glycoanalysis subsequent to
purification of this mutant GAC carbohydrate, the data
unambiguously demonstrating the absence of GlcNAc side chain.
[0106] FIG. 3 illustrates information regarding types of mucosal
and invasive infections associated with the leading human pathogen
GAS, or Group A Streptococcus, including strep throat, impetigo,
cellulitis, necrotizing fascititis, toxic shock syndrome,
post-streptococcal glomerulonephritis, that can be treated,
ameliorated or prevented using compositions of the invention, e.g.,
vaccine and antibodies or the invention; or that can be diagnosed
using compositions, e.g., devices of the invention such as test
strips or immunoassays, of the invention.
[0107] FIG. 4 schematically illustrates a representation of the
cell wall and surface structures of the leading human pathogen:
group A Streptococcus.
[0108] FIG. 5A schematically illustrates the chemical structure of
group A streptococcal cell wall carbohydrate antigen (GAC), and
FIG. 5B illustrates an electron microscopic appearance or image of
the group A streptococcal cell wall carbohydrate antigen (GAC),
with its polyrhamnose backbone and GlcNAc side chain.
[0109] FIG. 6 illustrates an electron microscopic appearance or
image of GAS (FIG. 6A) and variant GAS (FIG. 6B) strains that lose
immune reactivity to the GlcNAc side chain (stained with ferritin
conjugated Group A antibodies)--so called "A variant strains",
isolated from mice on serial passage.
[0110] FIG. 7 graphically illustrates data from a latex
agglutination test on the natural antibody response to the group A
carbohydrate and use of the WT GlcNAc-containing carbohydrate as a
vaccine antigen.
[0111] FIG. 8 schematically illustrates the twelve-gene locus
encoding the biosynthetic machinery for the group A streptococcal
(GAS) cell wall carbohydrate antigen, as discussed in Example 1,
below.
[0112] FIG. 9A illustrates a gel of a restriction digest of a PCR
amplification of the mutant GAC GlcNAc-deficient knockout mutant,
the PCR analysis shows absence of the gacI gene in the knockout
mutant; FIG. 9B illustrates an image of a latex agglutination for
group A carbohydrate (GlcNac side chain) showing it is no longer
reactive in the GAS .DELTA.gacI mutant; FIG. 9C schematically
illustrates or diagrams an exemplary method for generation of GAC
GlcNAc-deficient knockout mutant through allelic replacement of the
gacI gene.
[0113] FIG. 10A graphically illustrates data showing that the wild
type (WT) parent M1 GAS strain and the isogenic .DELTA.gacI mutant
show similar growth kinetics in bacteriologic growth media
(Todd-Hewitt Broth); FIG. 10B graphically illustrates data showing
an analysis of the wild-type GAS strain demonstrating binding of
the sWGA lectin probe, specific for terminal GlcNac sugars to the
bacterial surface; this binding is lost in the .DELTA.gacI mutant,
and the results confirms loss of the GlcNac side chain in the
mutant.
[0114] FIG. 11A graphically illustrates data from a cytochrome C
binding assay indicating that the .DELTA.gacI mutant expresses less
negative surface charge than the WT parent M1 GAS strain in both
stationary and exponential growth phases. FIG. 11A graphically
illustrates data from a N-hexadecane partition analysis indicating
that the .DELTA.gacI mutant is more hydrophobic than the WT parent
M1 GAS strain.
[0115] FIG. 12 graphically illustrates SpeB activity in supernatant
demonstrating that levels of cysteine protease (SpeB) activity are
similar in the WT GAS MIT1 parent strain and the isogenic
.DELTA.gacI mutant.
[0116] FIG. 13 graphically illustrates data of a hyaluronic acid
ELISA, showing that the WT parent M1 GAS strain and the isogenic
.DELTA.gacI mutant express similar levels of hyaluronic acid
capsule; animal passage increases hyaluronic acid expression in M
GAS (by selection of covS mutants); a similar increase is seen in
both the WT parent strain and the isogenic .DELTA.gacI mutant.
[0117] FIG. 14 illustrates a microscopic appearance comparing WT
(FIG. 14A) and .DELTA.gacI mutant (FIG. 14B) chain length, where
the .DELTA.gacI mutant (FIG. 14B) showing a gross morphology of
cell walls is similar, but there is a tendency in the mutation to
longer chain length, when compared to the WT parent GAS MIT1 strain
(FIG. 14A).
[0118] FIG. 15 illustrates a formal glycoanalysis of linkages in
the WT M1 GAS carbohydrate showing rhamnose sugars and the
.beta.-1-3-linked GlcNac side chain.
[0119] FIG. 16 illustrates a formal glycoanalysis of linkages in
the M1 GAS .DELTA.gacI mutant cell wall carbohydrate showing
unambiguously the loss of the .beta.-1-3-linked GlcNac side
chain.
[0120] FIG. 17 graphically illustrates data from a mouse infection
experiment (.DELTA.gacI mutant compared to the WT parent) showing a
trend towards attenuation of virulence of .DELTA.gacI mutant
compared to the WT parent strain in a mouse model of systemic
infection.
[0121] FIG. 18 graphically illustrates data from a whole blood
survival test demonstrating that the .DELTA.gacI mutant survives
less well than the WT parent M1 GAS strain in freshly isolated
human whole blood whether heparin (FIG. 18A) or lepirudin (FIG.
18B) is used for anticoagulation; the results indicate the GlcNAc
side chain contributes to whole blood survival.
[0122] FIG. 19 illustrates data from a cell killing/cell survival
assay showing that the .DELTA.gacI mutant is more sensitive to
killing by the human cathelicidin antimicrobial peptide LL-37 and
the murine cathelicidin mCRAMP, which are produced abundantly by
neutrophils and epithelial cells and known to be an important
effector of bacterial killing; thus, the GlcNac side chain
contributes to cathelicidin resistance.
[0123] FIG. 20 graphically illustrates data from a cell
killing/cell survival assay showing that the .DELTA.gacI mutant is
more sensitive to killing by the human cathelicidin antimicrobial
peptide LL-37, which is produced abundantly by neutrophils and
epithelial cells and known to be an important effector of bacterial
killing; thus, the GlcNac side chain contributes to LL-37
resistance.
[0124] FIG. 21 graphically illustrates data from a serum survival
assay showing that the .DELTA.gacI mutant is more rapidly killed
than the WT parent M1 GAS strain in 5% normal human serum (FIG.
21A) and 5% baby rabbit serum (FIG. 21B), indicating the GlcNac
side chain promotes GAS serum resistance, as discussed in Example
1.
[0125] FIG. 22 graphically illustrates data from a C3b complement
deposition assay showing that compared to the WT parent GAS MIT1
strain the .DELTA.gacI mutant shows less complement deposition via
the lectin pathway (in absence of IgG) (FIG. 22B), as compared to
the classical complement pathway (FIG. 22A).
[0126] FIG. 23A schematically illustrates the classical complement
pathway and the lectin pathway; and FIGS. 23B and 23C graphically
illustrate that data from a serum survival assay showing that C4b
(upstream) complement deposition (FIG. 23B) and C5B-9 complement
deposition (FIG. 23C) is reduced in the .DELTA.gacI mutant (reduced
in the absence of GAC side chain) compared to the WT parent GAS
strain.
[0127] FIG. 24 illustrates a test showing the sensitivity of WT
(FIG. 24A) and .DELTA.gacI mutant (FIG. 24B) GAS to the antibiotic
vancomycin by E-test.
[0128] FIG. 25 is a summary of some phenotypic characteristics and
virulence properties that are changed or unaffected when comparing
the WT GAS MIT1 strain to the isogenic .DELTA.gacI mutant lacking
the GlcNAc side chain on its cell wall carbohydrate antigen.
[0129] FIG. 26 schematically illustrates the structure of the Group
C streptococcal cell wall carbohydrate (GCC), and a description of
its association with human and equine infectious diseases, as
discussed in Example 1.
[0130] FIG. 27 schematically illustrates a comparison of the gene
loci encoding the GAS and GCS cell wall carbohydrate antigens and
predicted gene annotations.
[0131] FIG. 28 schematically illustrates a comparison of the gene
loci encoding the GAS and GCS cell wall carbohydrate antigens and
predicted gene annotations and prediction of genes from GCS that
could encode the GlcNAc-GlcNAc side chain.
[0132] FIG. 29 schematically illustrates an exemplary scheme by
which a knockout of the GCS gccN gene yields a .DELTA.gccN mutant
lacking the GalNAc-GalNAc side chain that can be studied in
virulence and vaccine models analogous to what we have achieved in
with the deletion of .DELTA.gacI gene in GAS.
[0133] FIG. 30A illustrates the results of a latex bead test
showing that knockout of the GCS gccN gene yields a .DELTA.gccN
mutant lacking the GalNAc-GalNAc side chain, as confirmed by loss
of reactivity in the latex agglutination test; FIG. 30B
schematically illustrates a scheme for synthesizing GCC and
GAC.
[0134] FIG. 31 illustrates the results of a latex bead test showing
that knockout of the GCS gccN gene yields a .DELTA.gccN mutant
lacking the GalNAc-GalNAc side chain, as confirmed by loss of
binding to SBA, a lectin recognizing GalNAc.
[0135] FIG. 32 illustrates the results of a formal glycolinkage
analysis showing that knockout of the GCS gccN gene yields a
.DELTA.gccN mutant lacking the GalNAc-GalNAc side chain, as
confirmed by the glycolinkage analysis.
[0136] FIG. 33 schematically illustrates that cloning of gccL-N
genes from GCS into GAS could encode incorporation of a
GlcNAc-GlcNAc side chain.
[0137] FIG. 34 illustrates the results of a latex bead test showing
that heterologous expression of the gccL-N genes from GCS into GAS
causes incorporation of GlcNAc-GlcNAc side chain, as shown by latex
agglutination test.
[0138] FIG. 35 graphically illustrates the results of a flow
cytometry assay demonstrating incorporation of GCS side chain into
GAS upon heterologous expression of the gccL-N genes, as confirmed
by lectin binding assay.
[0139] FIG. 36 illustrates the results of a carbohydrate
composition analysis demonstrating that heterologous expression of
the gccL-N genes from GCS into GAS causes incorporation of
GlcNAc-GlcNAc side chain by composition analysis.
[0140] FIG. 37 graphically illustrates the results of a whole blood
killing assay demonstrating that heterologous expression of the
gccL-N genes from GCS into GAS causes reduced survival in whole
blood killing assay.
[0141] FIG. 38 schematically illustrates the twelve-gene locus
encoding the biosynthetic machinery for the group A streptococcal
(GAS) cell wall carbohydrate antigen, as discussed in Example
1.
[0142] FIG. 39 illustrates targeted knockout of the gacI gene in M1
GAS strain 5448 by allelic exchange mutagenesis; FIG. 39A
illustrates a PCR analysis showing the absence of the gacI gene in
the knockout mutant; FIG. 39B illustrates a latex agglutination for
group A carbohydrate (GlcNac side chain) is no longer reactive in
the GAS .DELTA.gacI mutant; and FIG. 39C schematically illustrates
how if a copy of the gacI gene is knocked back into the mutant, the
reactivity for the GlcNac is restored.
[0143] FIG. 40A illustrates a flow cytometry analysis of the
wild-type GAS strain showing binding of the sWGA lectin probe,
specific for terminal GlcNac sugars, to the bacterial surface; FIG.
40B graphically illustrates how this binding is lost in the
.DELTA.gacI mutant and restored in the complemented mutant; the
results confirm loss of the GlcNac side chain in the mutant.
[0144] FIG. 41 illustrates a formal glycoanalysis of linkages in
the WT M1 GAS carbohydrate, the linkage analysis shows rhamnose
sugars and the .beta.-1-3-linked GlcNac side chain.
[0145] FIG. 42 illustrates a formal glycoanalysis of linkages in
the M1 GAS .DELTA.gacI mutant cell wall carbohydrate, the linkage
analysis shows unambiguously the loss of the .beta.-1-3-linked
GlcNac side chain.
[0146] FIG. 43 graphically illustrates that the WT parent M1 GAS
strain and the isogenic .DELTA.gacI mutant show similar growth
kinetics in bacteriologic growth media (Todd-Hewitt Broth).
[0147] FIG. 44 illustrates a transmission electron microscopy image
showing that the WT parent M1 GAS strain and the isogenic
.DELTA.gacI mutant show ultrastructural appearance under
transmission electron microscopy.
[0148] FIG. 45 graphically illustrates that the WT parent M1 GAS
strain and the isogenic .DELTA.gacI mutant express similar levels
of hyaluronic acid capsule, as discussed in Example 1.
[0149] FIGS. 46A and 46B illustrate images showing that the
.DELTA.gacI mutant tends to express longer chain length than the WT
parent M1 GAS strain; and FIG. 46C graphically illustrates these
results.
[0150] FIG. 47A graphically illustrates a cytochrome C binding
assay that indicates the .DELTA.gacI mutant expresses less negative
surface charge than the WT parent M1 GAS strain in both stationary
and exponential growth phases; FIG. 47B graphically illustrates an
N-hexadecane partition analysis that indicates the .DELTA.gacI
mutant is more hydrophobic than the WT parent M1 GAS strain.
[0151] FIGS. 48A and 48B graphically illustrate that the
.DELTA.gacI mutant survives less well than the WT parent M1 GAS
strain in freshly isolated human whole blood, whether heparin (FIG.
48A) or lepirudin (FIG. 48G) is used for anticoagulation; the
results indicate the GlcNAc side chain contributes to whole blood
survival.
[0152] FIGS. 49A and 49B graphically illustrate that the
.DELTA.gacI mutant survives less well than the WT parent M1 GAS
strain in freshly isolated human whole blood, whereas
complementation of the mutation restores WT levels of survival, as
discussed in Example 1, below.
[0153] FIGS. 50A and 50B graphically illustrate that the
.DELTA.gacI mutant is more rapidly killed than the WT parent M1 GAS
strain in a human neutrophil opsonophagocytic killing assay,
whereas complementation of the mutation restores WT levels of
survival, as discussed in Example 1, below.
[0154] FIG. 51A graphically illustrates that the .DELTA.gacI mutant
is more rapidly killed than the WT parent M1 GAS strain in a human
neutrophil extracellular trap (NET) killing assay, indicating the
GlcNac side chain promotes resistance to extracellular neutrophil
killing within NETs; and FIG. 50B graphically illustrates that the
.DELTA.gacI mutant is more sensitive to killing by the human
cathelicidin antimicrobial peptide LL-37, which is produced
abundantly by neutrophils and known to be an important effector of
bacterial killing within NETs; thus the GlcNac side chain
contributes to cathelidicin resistance.
[0155] FIGS. 52A and 52B graphically illustrate that the
I.DELTA.gacI mutant is more rapidly killed than the WT parent M1
GAS strain in 5% normal human serum (FIG. 52A) and 5% baby rabbit
serum (FIG. 52B), indicating the GlcNac side chain promotes GAS
serum resistance, as discussed in Example 1, below.
[0156] FIG. 53 graphically illustrates that the .DELTA.gacI mutant
is more rapidly killed than the WT parent M1 GAS strain by thrombin
activated platelets, indicating the GlcNac side chain promotes GAS
resistance to platelet-derived antimicrobial peptides.
[0157] FIG. 54A graphically illustrates that the .DELTA.gacI mutant
is markedly attenuated for virulence in a rabbit model of GAS
necrotizing pneumonia; FIGS. 54B and 54C illustrate images of gross
examination of the lungs in a wild type and a .DELTA.gacI mutant,
as discussed in Example 1, below.
[0158] FIG. 56 graphically illustrates that a monoclonal antibody
derived from a patient with rheumatic heart disease binds to the WT
GAS strain better than the .DELTA.gacI mutant, as discussed in
Example 1.
[0159] FIG. 57 is a summary of phenotypic characteristics and
virulence properties that are changed or unaffected when comparing
the WT GAS MIT1 strain to the isogenic .DELTA.gacI mutant lacking
the GlcNAc side chain on its cell wall carbohydrate antigen.
[0160] FIG. 58 summarizes data showing that polyclonal antisera
from rabbit immunized with a protein conjugate of the GAC mutant
antigen detect WT GAC and WT GAS bacteria, as discussed in Example
1.
[0161] FIG. 59A and FIG. 59B graphically illustrate data from two
experiments showing that polyclonal antiserum raised against cell
wall carbohydrate purified from the .DELTA.gacI mutant (lacking the
GlcNAc side chain) promotes killing of M1 GAS in a human neutrophil
opsonophagocytosis assay (compared to normal rabbit serum control);
this demonstrates utility of vaccines of the invention as a
universal vaccine antigen for GAS.
[0162] FIG. 60 graphically illustrates data from an experiment
showing that polyclonal antiserum raised against the cell wall
carbohydrate purified from the .DELTA.gacI mutant (lacking the
GlcNAc side chain) promotes killing of M49 GAS in a human
neutrophil opsonophagocytosis assay (compared to normal rabbit
serum control); this demonstrates utility of vaccines of the
invention as a universal vaccine antigen for GAS.
[0163] FIG. 61 graphically illustrates data from an experiment
showing that polyclonal antiserum raised against the cell wall
carbohydrate purified from the .DELTA.gacI mutant (lacking the
GlcNAc side chain) promotes opsonophagocytic killing of M1 GAS in
human whole blood (compared to normal rabbit serum control); this
demonstrates utility of vaccines of the invention as a universal
vaccine antigen for GAS.
[0164] FIG. 62 schematically illustrates the structure of the Group
C streptococcal cell wall carbohydrate (GCC) and provides a
description of its association with human and equine infectious
diseases, as discussed in Example 1.
[0165] FIG. 63A illustrates a slide showing that if genes from the
group C streptococcal operon encoding its group carbohydrate are
cloned into group A Streptococcus, evidence of some GalNAc side
chain incorporation into the GAS antigen can be demonstrated; FIG.
63B illustrates GalNAc side chain incorporation into the GAS
antigen, as discussed in Example 1.
[0166] FIG. 64 illustrates a comparison of GAS and GCS cell wall
carbohydrate operons, illustrating gene loci encoding the GAS and
GCS cell wall carbohydrate antigens and predicted gene
annotations.
[0167] FIG. 65A schematically illustrates how GCS epimerase gccN is
required for GCC side chain formation, where GalE epimerases can
convert Glc to Gal, and/or GlcNAc to GalNAc, and that no GalE
epimerase gccN is present in GAS; and FIG. 65B and FIG. 65C
illustrate data showing that GCS epimerase gccN is required for GCC
side chain formation, as discussed in Example 1.
[0168] FIGS. 66A, 66B and 66C schematically illustrate that
knockout of the GCS gccN gene yields a .DELTA.gccN mutant lacking
the GalNAc-GalNAc side chain, as confirmed by loss of binding to
SBA, a lectin recognizing GalNAc; where FIG. 66A illustrates a
latex bead test showing loss of binding by a .DELTA.gccN mutant
lacking the GalNAc-GalNAc side chain, and FIG. 66C graphically
illustrates loss of binding to SBA by a .DELTA.gccN mutant lacking
the GalNAc-GalNAc side chain.
[0169] Like reference symbols in the various drawings indicate like
elements.
[0170] Reference will now be made in detail to various exemplary
embodiments of the invention, examples of which are illustrated in
the accompanying drawings. The following detailed description is
provided to give the reader a better understanding of certain
details of aspects and embodiments of the invention, and should not
be interpreted as a limitation on the scope of the invention.
DETAILED DESCRIPTION
[0171] In alternative embodiments, the invention provides a Group A
Streptococcus (GAS) cell wall carbohydrate (GAC) variant lacking
all of its immunodominant GlcNac side chains. In alternative
embodiments, the invention provides a Group A Streptococcus (GAS)
genetically modified such that it cannot express one or more, or
all (e.g., cannot express any) of its immunodominant GlcNac side
chains on its cell wall group A carbohydrate (GAC) antigens.
[0172] Genetic information described herein and the unique mutants
we have generated in this invention can serve as a tool to purify a
mutant GAC lacking the GlcNAc side that could be used as a
universal vaccine antigen against all GAS/GCS/GGS strains and at
the same time be devoid of the risk for autoimmune
complications.
[0173] In alternative embodiments these modified GAS bacteria of
the invention lack one or more genes necessary to synthesize and/or
assemble one or more, or all of its immunodominant group A GlcNac
side chains, or group A carbohydrate (GAC) antigens.
[0174] The 12 genes that we have discovered constitute the GAC
biosynthesis gene cluster are hereafter designated gacA-gacI,
corresponding to Spy0602 to Spy0613 in the published M5005 GAS
genome. The 9th gene of this operon, gacI (Spy0610), encodes the
enzymatic function required for addition of the GlcNac side chain
to the polyrhamnose backbone of the GAC. Thus in one embodiment,
modified bacteria lack the gacI gene or lack a functional gacI gene
or gene product, and therefore express a mutant GAC lacking the
GlcNac side chain, also known as an "A-variant GAC". Thus, in one
embodiment, modified bacteria of the invention lack the gacI (or
Spy0610) gene or lack a functional gacI (or Spy0610 gene).
[0175] In alternative embodiments, the invention provides Group A
Streptococcus (GAS) polypeptide or glycopeptide variants that have
a polyrhamnose backbone (an "A-variant GAC") rather than an
immunodominant GlcNac side chain, or a group A carbohydrate (GAC)
antigen. In alternative embodiments, the invention provides a Group
A Streptococcus (GAS) genetically modified such that it expresses a
Group A Streptococcus (GAS) carbohydrate variant that has a
polyrhamnose backbone (an "A-variant GAC") rather than an
immunodominant GlcNac side chain, or a group A carbohydrate (GAC)
antigen.
[0176] We have generated an allelic replacement knockout of gacI
(Spy0610) in GAS parent strain 5448, representative of the globally
disseminated, highly virulent MIT1 GAS clone that has emerged as
the leading cause of both pharyngitis and severe invasive disease
for the last 20 to 30 years. These genetically modified bacteria of
this invention comprise an engineered mutation in the GAC lacking
specifically the Glc-Nac side chain; and this bacteria of the
invention can be used to purify (can be used as a source of)
high-molecular weight, intact polyrhamnose backbone (A-variant GAC)
for use as a safe vaccine antigen, e.g., formulated as a protein
conjugate.
[0177] Provided herein is definitive proof of principle of the
utility of the modified antigens of the invention as a vaccine.
Polyclonal antisera raised in a rabbit to the mutant GAC (isolated
from the isogenic .DELTA.gacI mutant) shows a high titer against
both the mutant GAC and the wild-type GAC (i.e. the antibodies are
able to recognize the underlying backbone even in the presence of
the native side chain). Moreover, the immune sera recognize equally
wild-type group A Streptococcus from the M1 serotype and M49
serotype, showing cross-protection that implies the potential for
universal reactivity against all GAS and GCS. Finally, the immune
sera are able to substantially promote opsono-phagocytic killing of
both M1 and M49 GAS by human neutrophils and in human whole blood,
confirming the utility of the vaccine compositions of the invention
and this vaccine strategy in prevention of invasive GAS
infection.
[0178] Thus, in alternative embodiments the invention provides
bacterial carbohydrates that will allow mammals, including humans,
to make antibodies that provide protection against all strains of
GAS, GCS and GGS without generation of antibodies to side chain
carbohydrates which may cross react with host tissues. The Glc-Nac
side chain epitope, which carbohydrates and conjugate vaccines of
the invention lack, is implicated in the immunopathogenesis of
rheumatic carditis/Sydenhanm's chorea--a potential prohibitive
safety concern for a vaccine. Our research confirms the validity of
this concern, as we found that a monoclonal antibody derived from
the blood of a patient with rheumatic carditis, previously shown to
cross-react with both human cardiac tissue and GAS, binds to our
wild-type parent GAS strain but not to the isogenic gacI mutant
lacking GlcNac.
[0179] Using bioinformatic and molecular genetics approaches, we
have discovered the genetic locus responsible for assembling the
group A carbohydrate (or GAC) antigen.
[0180] Using bioinformatic and molecular genetic approaches, we
have discovered the 12-gene locus (which we have named gacA-gacL)
responsible for assembling GAC antigen and the corresponding
homologous operons in GCS and GGS. By knocking out a specific gene
Spy0610, we generated the first-ever viable Group A Streptococcus
(GAS) mutant that expresses a GAC completely devoid of the
immunodominant GlcNac side chain, as confirmed by detailed
glyco-analysis. Thus, in alternative embodiments, the invention
provides a Group A Streptococcus (GAS), variant/mutant carbohydrate
that lacks an immunodominant GlcNac side chain, i.e., that lacks
the autoreactive GicNAc component; and Streptococcus GGS and/or GCS
variant/mutant carbohydrates that lack (GalNAc).sub.2 or a
combination of GalNAc/GlcNAc, respectively (side chains on the GCC
and GGC are not GlcNAc but (GalNAc).sub.2 or probably a combination
of GalNAc/GlcNAc, respectively). In one embodiment, the invention
provides Streptococcus (GAS) variants/mutants that lack a
functional gacI (Spy0610 gene), or cannot express the Spy0610 gene
product. In one embodiment, the invention provides Streptococcus
(GAS) variants/mutants that expresses a Group A Streptococcus (GAS)
variant/mutant that lacks an immunodominant GlcNac side chain,
i.e., that lacks the autoreactive GlcNAc component.
[0181] Interestingly, the GAC rhamnose backbone is shared by the
group carbohydrate antigens of other medically important pathogens
including groups C and G Streptococcus (GCS, GGS), each of which
expresses a different unique sugar side chain. Therefore, the
genetic mutant of this invention can serve as a unique tool to
purify a mutant GAC lacking the GlcNAc side that could be used as a
universal GAS/GCS/GGS vaccine antigen devoid of risk for autoimmune
complications.
[0182] In one embodiment, the invention provides compositions
(e.g., vaccines) and methods for immunizing with an A-variant
carbohydrate purified from the gacI (Spy0610) mutant GAS strain of
the invention to induce anti-GAC antibodies that are protective
against all serotypes of GAS but lack the that autoreactive GlcNAc
component. In alternative embodiments, this vaccine of the
invention protects against GCS infection, which has an identical
underlying polyrhamnose backbone, also protects against other
streptococcal species such as GBS and GGS, which have similar
underlying rhamnose backbone in their group carbohydrate
structures.
[0183] In one embodiment, an A-variant carbohydrate of the
invention is used in combination vaccines with other GAS protein
antigens, or standard techniques could be used to knock out the M
protein in an exemplary mutant of this invention, creating a
potential whole cell or live attenuated vaccine strain lacking both
antigens (GAC and M protein) implicated in rheumatic fever
pathogenesis.
[0184] Finally, the enzyme encoded by gacI (Spy0610) is responsible
for the addition of the GlcNac side chain to the GAC, and we have
shown the GAC is a virulence factor of the pathogen. Compared to
the wild-type parent strain, the GAS .DELTA.gacI knockout mutant
lacking the GAC side chain is markedly attenuated in both mouse and
rabbit models of invasive GAS infection. Compared to the wild-type
parent strain, the GAS .DELTA.gacI knockout mutant is much more
sensitive to killing by human whole blood, human serum, and baby
rabbit serum. Compared to the wild-type parent strain, the GAS
.DELTA.gacI knockout mutant is much more sensitive to killing by
the human cathelicidin antimicrobial peptide LL-37 and
antimicrobial peptides derived from activated human platelets, a
critical element of host innate immunity produced on epithelial
cell surfaces and by circulating and tissue-based immune cells
including neutrophils, macrophages and mast cells. Thus the GAS
.DELTA.gacI mutant is more susceptible to immune clearance in a
wide array of in vitro, tissue culture and in vivo model systems. A
screen to identify small molecule inhibitors of gacI (Spy0610)
could identify novel therapeutics for treatment of serious GAS
infections, by rendering the pathogen susceptible host innate
immune clearance.
[0185] Because the GAC compromises 50% of the bacterial cell wall
and because our experimental data suggests that targeting many of
the other genes in the operon is lethal to the pathogen, we
conclude that the GAC polyrhamnose backbone itself is essential for
viability of GAS. Thus this invention concludes that screening for
small molecule inhibitors for enzymes each of the other candidate
enzymes and transport proteinsin the GAC operon (gacA, gacB, gacC,
gacD, gacE, gacF, gacG, gacH, gacJ, gacK) or corresponding genes in
the GCC operon would identify novel antibiotic agents with
bactericidal (lethal) activity against GAS and GCS for direct
development as antibiotic agents.
[0186] We have discovered the genetic operon for assembling the GAC
in GAS through bioinformatics analysis. We have generated a viable
allelic exchange GAS mutant, called .DELTA.gacI, expresses a
mutated GAC. Purification of this mutant GAC carbohydrate has been
performed and glycoanalysis has unambiguously demonstrated the
absence of GlcNAc side chain.
Products of Manufacture, Kits
[0187] The invention also provides products of manufacture (e.g.,
cells, carbohydrates, glycoconjugates), kits and pharmaceuticals (a
pharmaceutical composition or a formulation or a vaccine) for
practicing the methods of this invention. In alternative
embodiments, the invention provides products of manufacture, kits
and/or pharmaceuticals comprising all the components needed to
practice a method of the invention. In alternative embodiments, the
products of manufacture, kits and/or pharmaceuticals further
comprises instructions for practicing the methods of the
invention.
Vaccines, Formulations and Pharmaceutical Compositions
[0188] In alternative embodiments, the invention provides vaccines,
pharmaceutical formulations and compositions to treat, prevent or
ameliorate Group A Streptococcus (GAS), Group C Streptococcus (GCS)
and/or Group G Streptococcus (GGS) infections, and other pathogenic
streptococci bearing similar polyrhamnose backbones in their cell
wall carbohydrate. These include the genetically engineered
polyrhamnose backbone GAC lacking the GlcNac side chain, for use as
a vaccine antigen alone, conjugated to a protein carrier, or as a
component of a multiple antigen subunit vaccine. In alternative
embodiments, the invention provides GAS strains with engineered
deletion of gacI, or GCS mutants with an engineered deletion of
gccN, alone or in combination with other virulence factor
mutations, that can serve as a whole cell or live-attenuated
vaccine strain(s) for protection against GAS, GCS and GGS
infection.
[0189] In alternative embodiments, the vaccines, solutions,
formulations or pharmaceutical compositions of the invention can be
administered parenterally, topically, intranasally,
intramuscularly, subcutaneously, intradermally, orally or by local
administration, such as by aerosol or transdermally. The
pharmaceutical compositions can be formulated in any way and can be
administered in a variety of unit dosage forms depending upon the
condition or disease and the degree of illness, the general medical
condition of each patient, the resulting preferred method of
administration and the like. Details on techniques for formulation
and administration are well described in the scientific and patent
literature, see, e.g., the latest edition of Remington's
Pharmaceutical Sciences, Maack Publishing Co., Easton Pa.
("Remington's"). For example, in alternative embodiments, these
compositions of the invention are formulated in a buffer, in a
saline solution, in a powder, an emulsion, in a vesicle, in a
liposome, in a nanoparticle, in a nanolipoparticle and the like. In
alternative embodiments, the compositions can be formulated in any
way and can be applied in a variety of concentrations and forms
depending on the desired in vivo, in vitro or ex vivo conditions, a
desired in vivo, in vitro or ex vivo method of administration and
the like. Details on techniques for in vivo, in vitro or ex vivo
formulations and administrations are well described in the
scientific and patent literature. Formulations and/or carriers used
to practice this invention can be in forms such as tablets, pills,
powders, capsules, liquids, gels, syrups, slurries, suspensions,
etc., suitable for in vivo, in vitro or ex vivo applications.
[0190] In practicing this invention, the compounds (e.g., vaccines,
solutions, formulations or pharmaceutical compositions) of the
invention can comprise a solution of compositions (which include
GAS, GGS or GCS carbohydrates or glycopeptides of the invention)
disposed in or dissolved in a pharmaceutically acceptable carrier,
e.g., acceptable vehicles and solvents that can be employed include
water and Ringer's solution, an isotonic sodium chloride. In
addition, sterile fixed oils can be employed as a solvent or
suspending medium. For this purpose any fixed oil can be employed
including synthetic mono- or diglycerides, or fatty acids such as
oleic acid. In one embodiment, solutions and formulations used to
practice the invention are sterile and can be manufactured to be
generally free of undesirable matter. In one embodiment, these
solutions and formulations are sterilized by conventional,
well-known sterilization techniques.
[0191] The vaccines, solutions, formulations or pharmaceutical
compositions used to practice the invention can comprise auxiliary
substances as required to approximate physiological conditions such
as pH adjusting and buffering agents, toxicity adjusting agents,
e.g., sodium acetate, sodium chloride, potassium chloride, calcium
chloride, sodium lactate and the like. The concentration of active
agent in these formulations can vary widely, and can be selected
primarily based on fluid volumes, viscosities and the like, in
accordance with the particular mode of in vivo, in vitro or ex vivo
administration selected and the desired results.
[0192] The vaccines, solutions, formulations or pharmaceutical
compositions of the invention can be delivered by the use of
liposomes. By using liposomes, particularly where the liposome
surface carries ligands specific for target cells (e.g., immune
cells for stimulating a humoral response), or are otherwise
preferentially directed to a specific tissue or organ type, one can
focus the delivery of the active agent into a target cells in an in
vivo, in vitro or ex vivo application.
[0193] In alternative aspects, a vaccine of the invention can be
administered with an adjuvant, e.g., the adjuvant can comprise or
consist of incomplete Freund's adjuvant (IFA) or MONTANIDE ISA
51.RTM.; alum; aluminum phosphate; aluminum hydroxide; squalene;
complete Freund's adjuvant (CFA), or levamisole; QS-21.TM., or
STIMULON.RTM. (Antigenics, Lexington, Mass.); or muramyl dipeptide
(MDP) or derivatives thereof; monophosphoryl lipid (MPL) or
derivatives thereof; or monophosphoryl lipid A (MPLA) or
derivatives thereof; or MF59.TM. or FLUAD.RTM. (Novartis, Basel,
Switzerland); or as described in U.S. Pat. No. 7,182,962; or a
glycosylceramide as described e.g. in U.S. Pat. No. 7,488,491;
triacyl lipid A or derivatives thereof or OM-174.TM. (OM Pharma,
Geneva, Switzerland); or SB-AS2.TM., or an oil in water emulsion
comprising monophosphoryl lipid A (MPLA) and QS-21.TM.; or
SYNTEX.TM. adjuvant formulation (SAF) (Laboratorios Syntex SA,
Mexico City Mexico), or an adjuvant comprising a muramyl dipeptide
derivative (threonyl-MDP) in an oil-in-water (o/w) emulsion
vehicle; or pluronic L121 or poloxamer 401; or a mucosal adjuvant
comprising a detoxified mutant A subunit of a cholera toxin (CT) or
an E. coli heat labile toxin (LT1 or LT2) as described in U.S. Pat.
No. 7,485,304 (Novartis Vaccines and Diagnostics SRL); or an
adjuvant as described in U.S. Pat. No. 7,357,936 (SmithKline
Beecham Biologicals, SA); or any combination thereof.
[0194] In alternative aspects, a vaccine of the invention is
administered with a non-specific immuno-stimulator, e.g., the
non-specific immuno-stimulator can comprise or consist of a
granulocyte-macrophage colony-stimulating factor polypeptide; or
sargramostim, or LEUKINIE.TM. (Bayer, Leverkusen, Germany).
[0195] Methods of delivering the vaccine are also well known in the
art. For example, in alternative embodiments vaccines of the
invention are formulated and delivered via a parenteral route
comprising or consisting of a subcutaneous, an intravenous (IV), an
intradermal, an intramuscular, an intraperitoneal, an intranasal, a
transdermal or a buccal route.
[0196] In alternative embodiments vaccines of the invention are
delivered intradermally or intra-epidermally using any needle-like
structures or device, e.g., as described in U.S. Patent App. Pub.
No. 20090012494, describing use of microneedle devices, e.g., with
rows of hollow microneedles. In alternative embodiments vaccines of
the invention are delivered using micro-cannula, e.g., as described
in U.S. Pat. No. 7,473,247. When using this or another device or
needle to practice this invention, vaccine formulations can be
directly targeted into an intradermal space; or can be delivered
into an intradermal space as a bolus or by infusion. In alternative
embodiments, "intradermal" is administration of a vaccine
formulation of this invention into the dermis in such a manner that
the glycopeptide of the invention therein readily reaches the
richly vascularized papillary dermis where it can be rapidly
systemically absorbed, or the vaccine can be taken up directly by
cells (e.g., dendritic cells) in the skin. In alternative
embodiments, "intradermal" includes every layer of the skin,
including stratum corneum, epidermis and dermis.
[0197] In one embodiment, a drug-delivery patch is used to deliver
a vaccine formulation of this invention, e.g., as described in U.S.
Patent App. Pub. No. 20090010998. In one embodiment, the invention
provides a drug-delivery patch having at least one dissolvable
layer comprising a carbohydrate or protein-conjugated carbohydrate
of the invention and an adhesive backing or cover. In one
embodiment, an individual is transdermally vaccinated by ablating
an area of the stratum corneum of the individual and applying the
patch to that area.
[0198] In one embodiment, a carbohydrate or protein-conjugated
carbohydrate of the invention is delivered via dendritic cell
administration, e.g., as described in U.S. Patent App. Pub. No.
20090010948. In one embodiment, a carbohydrate or
protein-conjugated carbohydrate of the invention is formulated as a
dendritic cell (DC)-based tumor vaccine; this modality is a
well-known therapeutic approach for generating immune responses and
for cancer treatment; see e.g., Schuler (2003) Curr. Opin. Immunol.
15(2):138-47; Dallal (2000) Curr. Opin. Immunol. 12(5):583-8;
Steinman (2001) Int J. Cancer. 94(4):459-73. In practicing this
embodiment, DCs can deliver not only the tumor antigen contained
within a carbohydrate or protein-conjugated carbohydrate of this
invention, but the DC also can be a natural adjuvant to boost the
vaccine's efficiency. DCs also can provide critical molecules,
cytokines or co-stimulatory signals to the T cells they interact
with during activation.
[0199] Methods for determining the efficacy of a vaccine
formulation of this invention, or a particular administration of a
vaccine formulation of this invention, are well known in the art.
For example, cell-based or humoral responses can be assessed
(measured) using in vitro based assays and/or in vivo based assays,
including animal based assays. Assays for measuring cell-based or
humoral immune response are well known in the art, e.g., see,
Coligan et al., (eds.), 1997, Current Protocols in Immunology, John
Wiley and Sons, Inc. Cell-based or humoral immune responses may be
detected and/or quantitated using standard methods known in the art
including, e.g., an ELISA assay, chromium release assays and the
like. The humoral immune response may be measured by detecting
and/or quantitating the relative amount of an antibody which
specifically recognizes an antigenic or immunogenic agent in the
sera of a subject who has been treated with a vaccine formulation
of this invention relative to the amount of the antibody in an
untreated subject. ELISA assays can be used to determine total
antibody titers in a sample obtained from a subject treated with an
agent of the invention.
Whole Cell Attenuated Vaccines
[0200] In alternative embodiments, the invention provides whole
cell or live attenuated vaccines comprising a bacterial cell of the
invention, e.g., an isolated, modified or recombinant Group A
Streptococcus (GAS), Group C Streptococcus (GCS) or Group G
Streptococcus (GGS), e.g., a bacterial cell expressing a modified
GAC, GCC and or GGC carbohydrate of the invention.
[0201] In one aspect, the invention provides immunogenic
preparations comprising cells with reduced infectivity, e.g., as
prepared as described in U.S. Pat. Nos. 7,560,113; 7,919,096, for
example, by contacting whole microorganisms with a fluid comprising
carbon dioxide at or near its supercritical pressure and
temperature conditions such that the infectivity and/or
pathogenicity of the whole microorganisms are reduced. Chemical
additives can also be used, e.g., adding hydrogen peroxide, acetic
acid, peracetic acid, trifluoroacetic acid or mixtures thereof.
Polypeptides and Glycopeptides
[0202] In alternative embodiments, the invention provides
carbohydrate or protein-conjugated carbohydrate (glycoconjugates),
e.g., formulated as vaccines, for generating an immune response,
e.g., a humoral immune response, in a mammal to a Group A
Streptococcus (GAS), a Group C Streptococcus (GCS), or a Group G
Streptococcus (GGS). In alternative embodiments, a vaccine,
formulation, composition or pharmaceutical composition of the
invention, comprises: a glycoconjugate comprising a polyrhamnose
backbone, or a plurality of glycoconjugates comprising polyrhamnose
backbones derived from a GAS; GCS; a GBS; a GGS; a GAS and a GCS; a
GAS and a GBS; a GAS and a GGS; a GCS and a GBS; a GCS and a GGS; a
GBS and a GGS; or a GAS, a GCS, a GBS and a GGS. In one embodiment,
the protein component of the glycoconjugate is endogenous (e.g., a
GAS polyrhamnose backbone attached or conjugated to a GAS peptide
or protein component), or in alternative embodiment the protein
component of the glycoconjugate is exogenous (the origin of the
carbohydrate and the protein component do not match). In one
embodiment, the protein component of the glycoconjugate is entirely
synthetic or has no sequence similarity to a peptide from the same
organism as the carbohydrate.
[0203] In alternative embodiments, molecules used to practice the
invention (e.g., a carbohydrate or protein-conjugated carbohydrate
of the invention) comprise a recombinant protein, a synthetic
protein, a peptidomimetic, a non-natural peptide, or a combination
thereof. Peptides and proteins used to practice the invention can
be recombinantly expressed in vitro or in vivo. The peptides and
polypeptides of the invention can be made and isolated using any
method known in the art as well as using the methods described
herein. Polypeptide and peptides used to practice the invention can
also be synthesized, whole or in part, using chemical methods well
known in the art. See e.g., Caruthers (1980) Nucleic Acids Res.
Symp. Ser. 215-223; Horn (1980) Nucleic Acids Res. Syrup. Ser.
225-232; Banga, A. K., Therapeutic Peptides and Proteins,
Formulation, Processing and Delivery Systems (1995) Technomic
Publishing Co., Lancaster, Pa. For example, peptide synthesis can
be performed using various solid-phase techniques (see e.g.,
Roberge (1995) Science 269:202; Merrifield (1997) Methods Enzymol.
289:3-13) including any automated polypeptide synthesis process
known in the art.
[0204] In alternative embodiments, carbohydrate or
protein-conjugated carbohydrate of the invention can comprise any
"mimetic" and/or "peptidomimetic" form. In alternative embodiments,
glycopeptides and glyco-polypeptides of the invention comprise
synthetic chemical compounds that have substantially the same
structural and/or functional characteristics of a natural
polypeptide. A mimetic used to practice the invention can be either
entirely composed of synthetic, non-natural analogues of amino
acids, or, is a chimeric molecule of partly natural peptide amino
acids and partly non-natural analogs of amino acids. A mimetic used
to practice the invention can also incorporate any amount of
natural or non-natural amino acid conservative substitutions as
long as such substitutions also do not substantially alter the
mimetic's structure and/or activity.
Nanoparticles, Nanolipoparticles and Liposomes
[0205] The invention also provides nanoparticles,
nanolipoparticles, vesicles and liposomal membranes comprising
compounds used to practice the compositions and methods of this
invention, e.g., use of vaccines, pharmaceutical formulations and
compositions to treat, prevent or ameliorate Group A Streptococcus
(GAS), Group C Streptococcus (GCS) and/or Group G Streptococcus
(GGS) infections. In alternative embodiments, these compositions
are designed to target specific molecules, including biologic
molecules, such as polypeptides, including cell surface
polypeptides, e.g., for targeting a desired cell type, e.g., a
dendritic cell and the like for stimulating an immune response.
[0206] The invention provides multilayered liposomes comprising
compounds used to practice this invention, e.g., as described in
Park, et al., U.S. Pat. Pub. No. 20070082042. The multilayered
liposomes can be prepared using a mixture of oil-phase components
comprising squalane, sterols, ceramides, neutral lipids or oils,
fatty acids and lecithins, to about 200 to 5000 nm in particle
size, to entrap a composition used to practice this invention.
[0207] Liposomes can be made using any method, e.g., as described
in Park, et al., U.S. Pat. Pub. No. 20070042031, including method
of producing a liposome by encapsulating an active agent, the
method comprising providing an aqueous solution in a first
reservoir; providing an organic lipid solution in a second
reservoir, and then mixing the aqueous solution with the organic
lipid solution in a first mixing region to produce a liposome
solution, where the organic lipid solution mixes with the aqueous
solution to substantially instantaneously produce a liposome
encapsulating the active agent; and immediately then mixing the
liposome solution with a buffer solution to produce a diluted
liposome solution.
[0208] In one embodiment, liposome compositions used to practice
this invention comprise a substituted ammonium and/or polyanions,
e.g., for targeted delivery of a compound of the invention, as
described e.g., in U.S. Pat. Pub. No. 20070110798.
[0209] The invention also provides nanoparticles comprising
compounds used to practice this invention in the form of active
agent-containing nanoparticles (e.g., a secondary nanoparticle), as
described, e.g., in U.S. Pat. Pub. No. 20070077286. In one
embodiment, the invention provides nanoparticles comprising a
fat-soluble active agent of this invention or a fat-solubilized
water-soluble active agent to act with a bivalent or trivalent
metal salt.
[0210] In one embodiment, solid lipid suspensions can be used to
formulate and to deliver compositions used to practice this
invention to mammalian cells in vivo, in vitro or ex vivo, as
described, e.g., in U.S. Pat. Pub. No. 20050136121.
Delivery Vehicles
[0211] In alternative embodiments, any delivery vehicle can be used
to practice the methods or used to practice this invention, e.g.,
to deliver compositions of the invention (which include GAS, GGS or
GCS carbohydrate or protein-conjugated carbohydrate of the
invention) to mammalian cells in vivo, in vitro or ex vivo. For
example, delivery vehicles comprising polycations, cationic
polymers and/or cationic peptides, such as polyethyleneimine
derivatives, can be used e.g. as described, e.g., in U.S. Pat. Pub.
No. 20060083737.
[0212] In one embodiment, a dried polypeptide-surfactant complex is
used to formulate a composition used to practice this invention,
e.g. as described, e.g., in U.S. Pat. Pub. No. 20040151766.
[0213] In one embodiment, a composition used to practice this
invention can be applied to cells using vehicles with cell
membrane-permeant peptide conjugates, e.g., as described in U.S.
Pat. Nos. 7,306,783; 6,589,503. In one aspect, the composition to
be delivered is conjugated to a cell membrane-permeant peptide. In
one embodiment, the composition to be delivered and/or the delivery
vehicle are conjugated to a transport-mediating peptide, e.g., as
described in U.S. Pat. No. 5,846,743, describing
transport-mediating peptides that are highly basic and bind to
poly-phosphoinositides.
[0214] In one embodiment, electro-permeabilization is used as a
primary or adjunctive means to deliver the composition to a cell,
e.g., using any electroporation system as described e.g. in U.S.
Pat. Nos. 7,109,034; 6,261,815; 5,874,268.
Dosaging
[0215] The vaccines, formulations, pharmaceutical compositions and
formulations of the invention can be administered for prophylactic
and/or therapeutic treatments. In therapeutic applications,
compositions are administered to a subject already suffering from a
disease, condition, infection or defect in an amount sufficient to
cure, alleviate or partially arrest the clinical manifestations of
the disease, condition, infection or disease and its complications
(a "therapeutically effective amount"). For example, in alternative
embodiments, pharmaceutical compositions and formulations of the
invention are administered to an individual in need thereof in an
amount sufficient to treat, prevent, reverse and/or ameliorate an
infection, e.g., a GAS, GGS or GCS infection.
[0216] The amount of pharmaceutical composition adequate to
accomplish this is defined as a "therapeutically effective dose."
The dosage schedule and amounts effective for this use, i.e., the
"dosing regimen," will depend upon a variety of factors, including
the stage of the disease or condition, the severity of the disease
or condition, the general state of the patient's health, the
patient's physical status, age and the like. In calculating the
dosage regimen for a patient, the mode of administration also is
taken into consideration.
[0217] In alternative embodiments of the methods, a vaccine of the
invention is administered parentally or orally, or systemically or
topically. The vaccine can be administered via a parenteral route
or via a route comprising or consisting of a subcutaneous, an
intramuscular, an intravenous (IV), an intradermal, an
intramuscular, an intraperitoneal, an intranasal, an intradermal, a
transdermal or a buccal route. The vaccine can be administered
parenterally by bolus injection or by gradual perfusion over time,
or the vaccine can be administered by an oral or a topical
route.
[0218] In alternative embodiments, a vaccine of the invention is
administered using a vaccination regime comprising at least one
second (booster) administration, or the vaccine is administered at
intervals of 1 week, 2 weeks, 4 weeks (or one month), 6 weeks, 8
weeks (or two months) or one year.
[0219] In alternative embodiments, a vaccine of the invention is
administered at a daily dose of carbohydrate or protein-conjugated
carbohydrate in a range of about 10 nanograms to 10 milligrams, or
about 1 microgram to 10 milligrams.
[0220] In alternative embodiments, the invention provides methods
for generating a carbohydrate antigen-specific cytotoxic lymphocyte
(CTL) response, and/or a CD8+ T cell response, comprising
contacting naive CTL cells or CD8+ T cells with an effective amount
of one or more (at least one) carbohydrate or protein-conjugated
carbohydrate of the invention; the pharmaceutical or formulation of
the invention; the liposome of the invention; or the nanoparticle
of the invention. In alternative embodiments, the invention
provides methods for generating an antigen-specific helper T cell
response, and/or a CD4+ T cell response, comprising contacting
naive helper T cells or CD4+ T cells with an effective amount of
one or more (at least one) glycopeptides (glycoconjugates) of the
invention; the pharmaceutical or formulation of the invention; the
liposome of the invention; or the nanoparticle of the invention. In
alternative embodiments, the contacting is in vitro or in vivo. In
alternative embodiments, the contacting is in vivo to (in) a mammal
or a human.
[0221] The dosage regimen also takes into consideration
pharmacokinetics parameters well known in the art, i.e., the active
agents' rate of absorption, bioavailability, metabolism, clearance,
and the like (see, e.g., Hidalgo-Aragones (1996) J. Steroid
Biochem. Mol. Biol. 58:611-617; Groning (1996) Pharmazie
51:337-341; Fotherby (1996) Contraception 54:59-69; Johnson (1995)
J. Pharm. Sci. 84:1144-1146; Rohatagi (1995) Pharmazie 50:610-613;
Brophy (1983) Eur. J. Clin. Pharmacol. 24:103-108; the latest
Remington's, supra). The state of the art allows the clinician to
determine the dosage regimen for each individual patient, active
agent and disease or condition treated. Guidelines provided for
similar compositions used as pharmaceuticals can be used as
guidance to determine the dosage regiment, i.e., dose schedule and
dosage levels, administered practicing the methods of the invention
are correct and appropriate.
[0222] Single or multiple administrations of formulations can be
given depending on the dosage and frequency as required and
tolerated by the patient. The formulations should provide a
sufficient quantity of active agent to effectively treat, prevent
or ameliorate a conditions, diseases or symptoms as described
herein. Dosages can be used in topical or oral administration or
administering by powders, spray or inhalation. Actual methods for
preparing parenterally or non-parenterally administrable
formulations will be known or apparent to those skilled in the art
and are described in more detail in such publications as
Remington's, supra.
[0223] The methods of the invention can further comprise
co-administration with other drugs or pharmaceuticals, e.g.,
compositions for treating any infection, including a GAS, GGS or
GCS infection, and the like. For example, the methods and/or
compositions and formulations of the invention can be co-formulated
with and/or co-administered with, fluids, antibiotics, cytokines,
immunoregulatory agents, anti-inflammatory agents, pain alleviating
compounds, complement activating agents, such as peptides or
proteins comprising collagen-like domains or fibrinogen-like
domains (e.g., a ficolin), carbohydrate-binding domains, and the
like and combinations thereof.
Diagnostic Compositions and Methods
[0224] The invention provides compositions and methods for
diagnosing a Streptococcal infection, or a streptococcal
pharyngitis ("strep throat") in a mammal. In alternative
embodiments, the invention provides diagnostic tests, assays or
test strips, and the like (e.g., latex agglutination assays, enzyme
immunoassays, enzyme-linked immunosorbent assays (ELISAs), optical,
liquid or solid phase immunoassays and the like) for detecting the
presence of or diagnosing a Streptococcal infection, or a
streptococcal pharyngitis ("strep throat") in a mammal, e.g., a
human. In alternative embodiments, the diagnostic tests, assays,
test strips and the like of the invention can be rapid and/or have
improved sensitivity and/or specificity to as compared to current
technologies as they target a bacterial specific motif
(polyrhamnose) rather than a common sugar motif (e.g., a. GlcNac or
a GlcNac) present on mammalian (e.g., human) cells and mucosal
secretions. Since an identical polyrhamnose backbone is shared by
GAS and GCS, in alternative embodiments these rapid diagnostic
tests and assays have the advantage of identifying both species
lacking in current rapid diagnostic methodologies.
[0225] In alternative embodiments, the diagnostic tests, assays,
test strips and the like of the invention comprise use of one or
more isolated or recombinant antibodies, polyclonal or monoclonal
antibodies, or sera (e.g., hyperimmune sera) of the invention. In
alternative embodiments, the antibodies or sera can specifically
react against, or specifically bind to, or are specifically derived
against one, two or all of: (a) a mutant GAS, GGS or GCS
carbohydrate antigen, engineered to partially lack, substantially
lack or completely lack an immuno-crossreactive carbohydrate side
chain, (b) a mutant GAS carbohydrate antigen engineered to
partially lack, substantially lack or completely lack an
immuno-crossreactive GlcNac side chain; and/or (c) a mutant GCS
carbohydrate antigen engineered to partially lack, substantially
lack or completely lack an immunodominant GalNac-GalNac side
chain.
[0226] Any form or variation of diagnostic tests, assays,
immunoassays or test strips and the like utilizing antibodies
(including antigen-binding antibody fragments) or sera can be used
to practice this invention. For example, a composition or a method
of the invention can comprise or comprise use of a sampling device
and/or a test strip, or methods, as described in e.g.: U.S. Pat.
No. 8,231,549, e.g., where an on-site analyzer such as an optical
analyzer and/or an electrochemical analyzer can be mounted in the
device for analyzing a body fluid. For example, a composition or a
method of the invention can comprise or comprise use of an assay
device or test strip or a method as described in e.g.: U.S. Pat.
No. 8,206,661; or an assay device allowing for the testing for
multiple analytes in a liquid sample, as described in U.S. Pat. No.
8,202,487; or an analyte monitor having a sensor, a sensor control
unit, and a display unit as described in U.S. Pat. No. 8,177,716;
or an electrochemical test strip as described in U.S. Pat. No.
8,172,995; or an evanescent light fluoroimmunoassay, or waveguide
immunosensor, as described in U.S. Pat. No. 5,512,492; or a
chromatographic specific binding assay strip device for e.g.,
immuno gold lateral flow assays as described in U.S. Pat. No.
8,153,444; or an immunological latex turbidimetry method as
described in U.S. Pat. No. 7,759,074 or 7,560,238; or an assay
device as described in U.S. Pat. App. No. 20120193228; or an
analyte testing device having a casing and a test strip positioner
as described in U.S. Pat. App. No. 20120183442; or, a system as
described in U.S. Pat. App. No. 20120181190, for correcting the
measurement of an analyte in a sample, the system comprising a test
strip and a meter programmed to calculate and obtain a corrected
analyte concentration; or a lateral flow assay test strip as
described in U.S. Pat. App. No. 20120164028; or an
immunochromatographic assay as described in U.S. Pat. App. No.
20120135420; or an electronic diagnostic device for detecting the
presence of an analyte in a fluid sample assay as described in U.S.
Pat. App. No. 20120083044; or a magnetic immunochromatographic test
strip as described in U.S. Pat. App. No. 20110117672; or an
apparatus for the rapid determination of analyte in a liquid sample
using immunoassays incorporating magnetic capture of beads as
described in U.S. Pat. App. No. 20120034624 or 20120031773; or
devices and methods for detecting analytes using chemiluminescent
compounds as described in U.S. Pat. App. No. 20110318747; or
apparatus and methods for assaying analytes using
photoelectrochemical molecules as labels as described in U.S. Pat.
App. No. 20060148102. In alternative embodiments, a variation of
the Becton-Dickinson LINK 2 STREP A RAPID TEST.TM., a rapid antigen
detection test (RADT) for diagnosing streptococcal pharyngitis,
using compositions and methods of the invention can be used.
[0227] Compositions of the invention, e.g., carbohydrate antigens,
glycoconjugates, antibodies and the like, and antibody-antibody
binding detection for the diagnostic methods of the invention, can
be detected and/or quantified by any method known in the art,
including, e.g., nuclear magnetic resonance (NMR),
spectrophotometry, radiography (protein radiolabeling),
electrophoresis, capillary electrophoresis, high performance liquid
chromatography (HPLC), thin layer chromatography (TLC),
hyperdiffusion chromatography, various immunological methods, e.g.
immunoprecipitation, immunodiffusion, immuuno-electrophoresis,
radioimmunoassays (RIAs), enzyme-linked immunosorbent assays
(ELISAs), immuno-fluorescent assays, gel electrophoresis (e.g.,
SDS-PAGE), staining with antibodies, fluorescent activated cell
sorter (FACS), pyrolysis mass spectrometry, Fourier-Transform
Infrared Spectrometry, Raman spectrometry, GC-MS, and
LC-Electrospray and cap-LC-tandem-electrospray mass spectrometries,
and the like.
Magnetic Molecules or Particles
[0228] The invention provides magnetic molecules or particles for
diagnosing a Sreptococcal infection, or a streptococcal pharyngitis
("strep throat") in a mammal. In alternative embodiments, the
invention provides diagnostic tests using magnetic molecules or
particles for detecting the presence of or diagnosing a
Streptococcal infection, or a streptococcal pharyngitis ("strep
throat") in a mammal, e.g., a human.
[0229] In alternative embodiments, compositions of the invention
(including vaccines and antibodies of the invention) comprise a
plurality of magnetic molecules or particles. Any magnetic molecule
or particle can be used. For example, in alternative embodiments,
magnetic molecules or particles used to practice the invention
comprise: dextran iron oxide nanoparticles; magnetically-responsive
microparticles or nanoparticles as described, e.g., in U.S. Pat.
No. 7,989,065, or magnetic microspheres, nanospheres, microbeads or
nanobeads, as described, e.g., in U.S. Pat. No. 7,994,592; a
superparamagnetic bead or polystyrene beads, as described, e.g., in
U.S. Pat. No. 7,989,614, e.g., DYNABEADS.TM., Dynal AS (Oslo,
Norway); or, superparamagnetic fine particles, as described, e.g.,
in U.S. Pat. Nos. 7,981,512; 7,713,627, or 7,399,523, describing
spinel ferrimagnetic particles. In one embodiment,
superparamagnetic particles comprising iron oxide having e.g.,
between about 0.1 to 10% by weight iron oxide based on the weight
of the magnetic particles are used, e.g., as described in U.S. Pat.
No. 5,368,933. Any device that can separate a magnetic particle or
molecule from a sample can be used, e.g., as a magnetic separator
as described in U.S. Pat. Nos. 7,985,340; 6,143,577; or
5,770,461.
Hydrogels or Gels
[0230] The invention provides gels or hydrogels for diagnosing a
Streptococcal infection, or a streptococcal pharyngitis ("strep
throat") in a mammal. In alternative embodiments, the invention
provides diagnostic tests using gels or hydrogels for detecting the
presence of or diagnosing a Streptococcal infection, or a
streptococcal pharyngitis ("strep throat") in a mammal, e.g., a
human.
[0231] Any gel or hydrogel can be used; for example, in alternative
embodiments, compositions of the invention comprise a hydrogel,
which can be any macromolecular networks that contains a large
fraction of solvent within their structure and do not dissolve, or,
a colloidal gel in which water is the dispersion medium of the
colloid having a mixture with properties between those of a
solution and fine suspension (a colloid gel is a colloid in a more
solid form than a sol). In alternative embodiments, compositions of
the invention comprise a "non-responsive" hydrogel, e.g., a simple
polymeric network that dramatically swells upon exposure to water,
and/or a "responsive" hydrogel, e.g., a gel having added
functionality and display changes in solvation in response to
certain stimuli such as temperature. Any non-toxic hydrogel can be
used.
[0232] For example, in alternative embodiments, compositions of the
invention comprise a hydrogel comprising: an acacia, alginic acid,
sodium carboxymethylcellulose, microcrystalline cellulose, dextrin,
ethylcellulose, gelatin, liquid glucose, polyvinyl pyrrolidone,
carboxyvinyl polymer, methylcellulose, hydroxymethyl cellulose, low
molecular weight polyethylene oxide polymers, hydroxyethyl
cellulose, hydroxypropyl cellulose, hydroxypropyl methylcellulose
(HPMC), gums, acrylate polymers, methacrylate polymers and/or
maltodextrin and/or mixtures thereof.
Arrays, or "BioChips"
[0233] Polypeptides of the invention, including antibodies and
serum, e.g., vaccine serum, and/or carbohydrates of the invention,
can be immobilized to, affixed to, or applied to, an array,
microarray, chip, diagnostic chip, biochip and the like to, e.g.,
identify the presence of, or to diagnose, a Streptococcal
infection, e.g., Group A Streptococcus (GAS), Group C Streptococcus
(GCS), or Group A Streptococcus (GGS), infections, or other
pathogenic Streptococcus infections.
[0234] Any form or variation of a carbohydrate or a polypeptide
array, microarray, chip, diagnostic chip, biochip and the like can
be used to practice this invention, e.g., as described in U.S. Pat.
Nos. 7,622,273; 7,303,924; 7,223,592; 6,506,558; and/or
6,919,211.
[0235] The invention will be further described with reference to
the examples described herein; however, it is to be understood that
the invention is not limited to such examples.
EXAMPLES
Example 1
Carbohydrate or Protein-Conjugated Carbohydrates of the Invention
as Vaccines and Formulations
[0236] This example describes exemplary methods for making and
using compounds of the invention.
[0237] We have discovered the genetic operon for assembling the GAC
in GAS through bioinformatics analysis, as schematically
illustrated in FIG. 1A. We have generated a viable allelic exchange
GAS mutant, called DgacH, which expresses a mutated GAC, as
illustrated in FIGS. 1B, 1C and 1D.
[0238] FIG. 1A schematically illustrates the genetic operon for
assembling the GAC in GAS through bioinformatics analysis, and
shows the twelve-gene locus encoding the biosynthetic machinery for
the group A streptococcal (GAS) cell wall carbohydrate antigen.
Included are proposed gene designations based on homology,
designation within the sequenced GAS M1 5005 genome sequence, and
length of the gene. Ultimately, we have designated the genes within
the locus as gacA-gacL. Highlighted is gene, then incorrectly
called gacH (correctly designated gacI in upcoming figures) because
of the role we demonstrate that it plays in adding the GlcNac side
chain to the polyrhamnose backbone of the antigen. FIG. 1B
illustrates a PCR analysis shows absence of the gacI gene
(incorrectly labeled gacH) in the knockout mutant. FIG. 1C
illustrates latex agglutination for group A carbohydrate (GlcNac
side chain) is no longer reactive in the GAS .DELTA.gacI
(incorrectly labeled .DELTA.gacI) mutant, and illustrates binding
of the sWGA lectin probe, specific for terminal GlcNac sugars, to
the bacterial surface. This binding is lost in the .DELTA.gacI
mutant (incorrectly labeled .DELTA.gacI). The results confirm loss
of the GlcNac side chain in the mutant. FIG. 1D graphically
summarizes this data.
[0239] Purification of this mutant GAC carbohydrate has been
performed and glycoanalysis has unambiguously demonstrates the
absence of GlcNAc side chain, as graphically illustrated in FIG. 2.
The invention provides carbohydrate or protein-conjugated
carbohydrate of this purified mutant GAC as a vaccine against GAS,
GCS, GBS and/or GGS, as well as for other pathogenic streptococci
bearing a polyrhamnose motifs in their cell wall carbohydrate.
[0240] FIG. 2A illustrates a formal glycoanalysis of linkages in
the WT M1 GAS carbohydrate shows rhamnose sugars and the
.beta.-1-3-linked GlcNac side chain; FIG. 2B illustrates a formal
glycoanalysis of linkages in the M1 GAS .DELTA.gacI mutant cell
wall carbohydrate (incorrectly labeled .DELTA.gacH) shows
unambiguously the loss of the .beta.-1-3-linked GlcNac side
chain.
[0241] FIG. 8 schematically illustrates the twelve-gene locus
encoding the biosynthetic machinery for the group A streptococcal
(GAS) cell wall carbohydrate antigen. Included are proposed gene
designations based on homology, designation within the sequenced
GAS M1 5005 genome sequence, and length of the gene. Ultimately, we
have designated the genes within the locus as gacA-gacL.
Highlighted is gene designated gacI because of the role we
demonstrate that it plays in adding the GlcNac side chain to the
polyrhamnose backbone of the antigen.
[0242] FIG. 21 graphically illustrates data from a serum survival
assay showing that the .DELTA.gacI mutant is more rapidly killed
than the WT parent M1 GAS strain in 5% normal human serum (FIG.
21A) and 5% baby rabbit serum (FIG. 21B), indicating the GlcNac
side chain promotes GAS serum resistance. The observed differences
remain after heat treatment of the serum to inactivate complement,
indicating the differences are not likely to be related to
complement. This was confirmed using complement-depleted serum and
complement inhibitors.
[0243] FIG. 26 schematically illustrates the structure of the Group
C streptococcal cell wall carbohydrate (GCC), and a description of
its association with human and equine infectious diseases. The GCC
shares the same core polyrhamnose backbone as the group A
streptococcal cell call carbohydrate antigen (GAC), demonstrating
that the .DELTA.gacI mutant polysaccharide can serve as a universal
vaccine target (as with the vaccines of this invention) to prevent
both GAS and GCS infection.
[0244] FIG. 38 schematically illustrates the twelve-gene locus
encoding the biosynthetic machinery for the group A streptococcal
(GAS) cell wall carbohydrate antigen. Included are proposed gene
designations based on homology, designation within the sequenced
GAS M1 5005 genome sequence, and length of the gene. We have
designated the genes within the locus as gacA-gacL. Highlighted is
gacI because of the role we demonstrate that it plays in adding the
GlcNac side chain to the polyrhamnose backbone of the antigen.
[0245] FIG. 45 graphically illustrates that the WT parent M1 GAS
strain and the isogenic .DELTA.gacI mutant express similar levels
of hyaluronic acid capsule. Animal passage increases hyaluronic
acid expression in M1 GAS (by selection of covS mutants); a similar
increase is seen in both the WT parent strain and the isogenic
.DELTA.gacI mutant. As listed, several other virulence phenotypes
of GAS are not affected by the elimination of the GlcNac side chain
in the isogenic .DELTA.gacI mutant.
[0246] FIGS. 49A and 49B graphically illustrate that the
.DELTA.gacI mutant survives less well than the WT parent M1 GAS
strain in freshly isolated human whole blood, whereas
complementation of the mutation restores WT levels of survival. The
observed differences between the respective strains are still
present when cytochalasin D, an actin microfilament inhibitor is
added to block phagocytotic uptake of the bacterial by neutrophils
and peripheral blood mononuclear cells. The results further confirm
the GlcNAc side chain contributes to whole blood survival.
[0247] FIG. 50A and 50B graphically illustrate that the .DELTA.gacI
mutant is more rapidly killed than the WT parent M1 GAS strain in a
human neutrophil opsonophagocytic killing assay, whereas
complementation of the mutation restores WT levels of survival. The
observed differences between the respective strains are still
present when cytochalasin D, an actin microfilament inhibitor is
added to block phagocytotic uptake of the bacteria by the
neutrophils, indicating the GlcNac side chain promotes resistance
to both total and extracellular neutrophil killing.
[0248] FIGS. 52A and 52B graphically illustrate that the
.DELTA.gacI mutant is more rapidly killed than the WT parent M1 GAS
strain in 5% normal human serum (FIG. 52A) and 5% baby rabbit serum
(FIG. 52B), indicating the GlcNac side chain promotes GAS serum
resistance. The observed differences remain after heat treatment of
the serum to inactivate complement, indicating the differences are
not likely to be related to complement. This was confirmed using
complement-depleted serum and complement inhibitors.
[0249] FIG. 54A graphically illustrates that the .DELTA.gacI mutant
is markedly attenuated for virulence in a rabbit model of GAS
necrotizing pneumonia; FIGS. 54B and 54C illustrate images of gross
examination of the lungs in a wild type and a .DELTA.gacI mutant.
Whereas 8 of 9 rabbits infected with the WT M1 GAS strain died
within 1 week of infection, all animals challenged with an
equivalent dose of the .DELTA.gacI mutant survived. Gross
examination of the lungs shows massive hemorrhage upon WT GAS
infection which is markedly reduced in the .DELTA.gacI
mutant-infected animals upon sacrifice at day #7. Thus, the GlcNac
side chain on the group A cell wall carbohydrate antigen
contributes strongly to GAS virulence.
[0250] FIG. 55 graphically illustrates that the .DELTA.gacI mutant
is significantly attenuated for virulence in a mouse
intraperitoneal model of systemic M1 GAS infection; this result
further confirms that the GlcNac side chain on the group A cell
wall carbohydrate antigen contributes strongly to GAS
virulence.
[0251] FIG. 56 graphically illustrates that a monoclonal antibody
derived from a patient with rheumatic heart disease, a serious
immune-mediate sequelae of GAS pharyngitis that causes morbidity
and mortality throughout the developing world, binds to the WT GAS
strain better than the .DELTA.gacI mutant. This result confirms
that the GlcNac side chain on the GAS cell wall carbohydrate may be
the source of cross-reactive antibodies that contribute to the
immunopathogenesis of rheumatic fever. This raises serious concerns
about using the WT GAS cell wall carbohydrate as a vaccine antigen,
whereas the .DELTA.gacI mutant cell wall carbohydrate, lacking the
GlcNac side-chain and containing only the non-mammalian sugar
rhamnose, should have a favorable profile, and that antibodies and
vaccines of the invention having specificity for only the
non-mammalian sugar rhamnose also have a favorable profile, e.g.,
will not be cross-reactive antibodies that contribute to the
immunopathogenesis of rheumatic fever.
[0252] FIG. 58 summarizes data showing that polyclonal antisera
from rabbit immunized with a protein conjugate of the GAC mutant
antigen detect WT GAC and WT GAS bacteria. Polyclonal antiserum
raised against the cell wall carbohydrate purified from the
.DELTA.gacI mutant (lacking the GlcNAc side chain) contains high
titers of antibodies that are able to recognize both the mutant
(GlcNAc-negative) and wild-type cell wall carbohydrate, as well as
mutant and WT GAS bacteria, including a WT GAS bacteria of a
different serotype (M49 and M1).
[0253] FIG. 62 illustrates the structure of the Group C
streptococcal cell wall carbohydrate (GCC) and provides a
description of its association with human and equine infectious
diseases. The GCC shares the same core polyrhamnose backbone as the
group A streptococcal cell call carbohydrate antigen (GAC),
demonstrating that vaccines and antibodies of the invention
directed to (that specifically bind to) the .DELTA.gacI mutant
polysaccharide can serve as a universal vaccine or pharmaceutical
to prevent both GAS and GCS infection.
[0254] FIG. 63A illustrates a slide showing that if genes from the
group C streptococcal operon encoding its group carbohydrate are
cloned into group A Streptococcus, evidence of some GalNAc side
chain incorporation into the GAS antigen can be demonstrated; FIG.
63B illustrates GalNAc side chain incorporation into the GAS
antigen. These data confirm that we are examining and genetically
manipulating the biosynthetic loci for both cell wall carbohydrate
antigens.
[0255] FIG. 65A schematically illustrates how GCS epimerase gccN is
required for GCC side chain formation, where GalE epimerases can
convert Glc to Gal, and/or GlcNAc to GalNAc, and that no GalE
epimerase gccN is present in GAS; and FIG. 65B and FIG. 65C
illustrate data showing that GCS epimerase gccN is required for GCC
side chain formation. Knockout of the GCS gccN gene yield a
.DELTA.gccN mutant lacking the GalNAc-GalNAc side chain that can be
studies in virulence and vaccine models analogous to what we have
achieved in with the deletion of .DELTA.gacI gene in GAS.
[0256] A number of embodiments of the invention have been
described. Nevertheless, it will be understood that various
modifications may be made without departing from the spirit and
scope of the invention. Accordingly, other embodiments are within
the scope of the following claims.
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