U.S. patent application number 11/342413 was filed with the patent office on 2006-06-29 for substrates, devices, and methods for cellular assays.
Invention is credited to Nicholas Abbott, Barbara Israel, Christopher Murphy.
Application Number | 20060141446 11/342413 |
Document ID | / |
Family ID | 32738008 |
Filed Date | 2006-06-29 |
United States Patent
Application |
20060141446 |
Kind Code |
A1 |
Murphy; Christopher ; et
al. |
June 29, 2006 |
Substrates, devices, and methods for cellular assays
Abstract
The present invention relates to the field of molecular
diagnostics, and in particular to diagnostics based on a liquid
crystal assay format. In particular, the present invention provided
improved substrates and methods of using liquid crystal assays for
quantitating the amount of an analyte in a sample. The present
invention also provides materials and methods for detecting
non-specific binding of an analyte to a substrate by using a liquid
crystal assay format.
Inventors: |
Murphy; Christopher;
(Madison, WI) ; Israel; Barbara; (Mt. Horeb,
WI) ; Abbott; Nicholas; (Madison, WI) |
Correspondence
Address: |
MEDLEN & CARROLL, LLP
Suite 350
101 Howard Street
San Francisco
CA
94105
US
|
Family ID: |
32738008 |
Appl. No.: |
11/342413 |
Filed: |
January 30, 2006 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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10443419 |
May 22, 2003 |
7018838 |
|
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11342413 |
Jan 30, 2006 |
|
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60382446 |
May 22, 2002 |
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Current U.S.
Class: |
435/4 ;
435/287.1 |
Current CPC
Class: |
B82Y 30/00 20130101;
G01N 33/5029 20130101; B01L 2400/0442 20130101; B01L 3/50853
20130101; G01N 2015/1006 20130101; B01L 2300/0877 20130101; B01L
3/502761 20130101; B01L 2300/0893 20130101; B01L 2400/0487
20130101; B01L 9/52 20130101; B01L 2300/0654 20130101; B01L
2200/0663 20130101; B01L 2300/0822 20130101; B01L 2400/0415
20130101; B01L 2300/046 20130101; B01L 2200/0668 20130101; B01L
2400/0406 20130101 |
Class at
Publication: |
435/004 ;
435/287.1 |
International
Class: |
C12Q 1/00 20060101
C12Q001/00; C12M 1/34 20060101 C12M001/34 |
Claims
1-94. (canceled)
95. An apparatus comprising, a substrate having thereon at least
one assay region, wherein said at least one assay region is
configured to culture cells and comprises an optically opaque
region and an optically transparent region.
96. The apparatus of claim 95, wherein said assay regions are
configured for readouts selected from the group consisting of
colorimetric, fluorimetric, optical density, and light scattering
readouts.
97. The assay apparatus of claim 95, wherein said optically opaque
region further comprises at least one cell seeding region.
98. The assay apparatus of claim 97, wherein said at least one cell
seeding region contains at least one cell.
99. The assay apparatus of claim 95, wherein said at least one
assay region is configured to orient mesogens.
100. The assay apparatus of claim 95, further comprising at least
one reservoir.
101. The assay apparatus of claim 100, wherein said at least one
reservoir contains a first test compound.
102. The assay apparatus of claim 101, wherein said test compound
is suspected of promoting or inhibiting movement of said at least
one cell.
103. The assay apparatus of claim 100, wherein said at least one
reservoir is fluidically connected to at least one microfluidic
channel.
104. The assay apparatus of claim 100, wherein said at least one
reservoir fluidically contacts said at least one assay region.
105. The assay apparatus of claim 98, wherein said at least one
cell is vitally stained.
106. The assay apparatus of claim 95, comprising 6, 12, 24, 36, 96,
384, or 1536 assay regions.
107. The assay apparatus of claim 106, wherein said 24, 36, 96,
384, or 1536 of said assay regions are arranged in an array of a
plurality of rows and columns.
108. The assay apparatus of claim 106, wherein said array of said
assay regions is configured to correspond to the reading positions
of a plate reader device.
109-201. (canceled)
202. An apparatus comprising a substrate having thereon a plurality
of assay regions, wherein said plurality of assay regions are
configured to culture cells and comprises an optically opaque
region and an optically transparent region.
203. The apparatus of claim 202, wherein said plurality of assay
regions is 6, 12, 24, 36, 96, 384, or 1536 assay regions.
204. An apparatus comprising a substrate having thereon a plurality
of assay regions, wherein said plurality of assay regions comprise
an optically opaque region and an optically transparent region and
are configured to culture cells and for readouts selected from the
group consisting of colorimetric, fluorimetric, optical density,
and light scattering readouts.
205. The apparatus of claim 204, wherein said plurality of assay
regions is 6, 12, 24, 36, 96, 384, or 1536 assay regions.
Description
[0001] This application claims the benefit of provisional
application 60/382,446, filed May 22, 2002.
FIELD OF THE INVENTION
[0002] The present invention relates to the fields of molecular
biology, cellular biology, developmental biology, stem cell
differentiation, immunology, oncology, general laboratory sciences
and microbiology, and in particular to methods and compositions
based on liquid crystal assays and other biophotonically based
assays for detecting and quantifying the number of cells present on
a test surface or within a test substrate and the proliferation,
death or movement of cells under control conditions and in response
to chemotactic and other cytoactive (including compounds that are
chemokinetic but not chemotactic and agents that inhibit cell
migration) agents. Additionally, the present invention describes a
novel biophotonic approach for the detection and quantification of
enzymatic activity.
BACKGROUND OF THE INVENTION
[0003] Every year cancer claims the lives of hundreds of thousands
of people worldwide. The populations of many of the heavily
industrialized countries are particularly susceptible to cancer
induced morbidity and mortality. In fact, cancer is the second
leading cause of death in industrialized nations. For example,
prostate cancer is the second most common malignancy in men. It is
estimated that in 2002 in the United States nearly 180,000 men will
be diagnosed with prostate cancer. Breast cancer is the most common
female malignancy in most industrialized countries, and in the
United States it is estimated that breast cancer will affect about
10% of women during their lives. Approximately 30 to 40% of women
with operable breast cancer eventually develop metastases distant
from the primary tumor.
[0004] Metastasis, the formation of secondary tumors in organs and
tissues remote from the site of the primary tumor, is the main
cause of treatment failure and death for cancer patients. Indeed,
the distinguishing feature of malignant cells is their capacity to
invade surrounding normal tissues and metastasize through the blood
and lymphatic systems to distant organs. Cancer metastasis is a
complex process by which certain cancer cells acquire substantial
genetic mutations and perturbed signal cascades that allow them to
leave the primary tumor mass and establish secondary tumors at
distant sites. Metastatic cancer cells break adhesions with
neighboring cells, dissolve the extracellular matrix, migrate and
invade surrounding tissue, travel via the circulatory system,
invade, survive and proliferate in new sites. Unfortunately, the
molecular mechanisms that promote and restrain the metastatic
spread of cancer cells have yet to be clearly identified.
[0005] Medical researchers have made considerable efforts to
understand whether chemotactic agents are involved in metastasis
and why particular cancers preferentially metastasize to certain
sites. Breast cancer, for example, favors metastasizing to regional
lymph nodes, bone marrow, and lung and liver tissues. Prostate
cancer favors metastasizing to bone marrow. Several theories have
been advanced to explain the preferential metastasis of certain
cancers.
[0006] It has recently been shown that one important property of
highly metastatic cells is their ability to respond to chemotactic
agents such as paracrine and autocrine motility factors. For
example, recent work done by Muller et al. provides evidence for
chemotactic homing of breast cancer to metastatic sites. (Muller et
al. "Involvement of chemokine receptors in breast cancer
metastasis," Nature, 410:50-56 [2001]); See also, M. More, "The
role of chemoattraction in cancer metastases," Bioessays,
23:674-676 [2001]). Muller et al. findings indicate that CXCR4 and
CCR7 chemokine receptors are found on breast cancer cells and that
ligands for these receptors are highly expressed at sites
associated with preferential breast cancer metastases.
[0007] Many conventional assay methods have been adapted for
studying the effects of chemotactic agents on cancer and other
cells of interest (e.g., densitometric, analyses of membrane
filters, visible spectrum or spectrophotometric ELISA microplate
readers, fluorescence microplate readers, scintillation counters,
and photoluminescence readers). Each of these methods has
particular advantages and disadvantages. One disadvantage found in
each of these methods is the requirement that the cells of interest
be "tagged" with dyes, fluorescing agents, or radioisotopes, in
order to observe the cellular responses to chemical agents.
Extrinsic cell labeling techniques add to the expense and
complexity of the existing assay methods and often requires the
expertise of highly skilled technicians.
[0008] An important property of metastatic cells is their ability
to produce proteases, such as Matrix Metalloproteinases (MMPs) that
are capable of digesting constituents of the extracellular matrix.
The elaboration of these proteases facilitates their invasion of
tissues. The role of proteases in the metastatic process using in
vitro and in vivo systems as well as their quantification for use
as a prognostic indicator for metastatic potential has been widely
reported. The amount of a given protease present can be measured
using ELISA but this requires a specific antibody capable of
reacting with the protease from a given species. Another drawback
of ELISA is that it measures the total amount of a given protease
and does not discriminate between proenzyme, activated enzyme or
inhibitor complexed enzyme. For example, the activation state of
MMP's in the cellular environment is tightly regulated by Tissue
Inhibitors of Metalloproteinases (TIMPs). Zymography (to measure
proteases) and reverse zymography (to measure TIMPs), are widely
used methods that involve gel electrophoresis combined with
enzymatic digestion of an appropriate substrate. Both the proenzyme
and active forms of proteases can be distinguished on the basis of
molecular weight. Unfortunately, standard zymographic methods are
laborious requiring many preparative steps (Hawkes S P, Li H,
Taniguchi T. Zymography and reverse zymography for detecting MMPs
and TIMPs. In Matrix Metalloproteinase Protocols. Volume 151 of
Methods in Molecular Biology. Ian Clark ed. Humana Press. Totowa
N.J. 2001. pp 399-410).
[0009] Other assays used include a variety of protease assays
including quantifying radiolabelled collagen fragments released by
enzymatic cleavage of a radiolabelled substrate, and the
measurement of fluorescence produced when an fluorescently
autoquenched fluorescent substrate undergoes digestion and creating
an increase in quantifiable fluorescvent signal. These methods do
not allow discrimination between proteases however (Cawston T E,
Koshy P, Rowan A D. Assay of matrix metalloproteinases against
matrix substrates. In Matrix Metalloproteinase Protocols. Volume
151 of Methods in Molecular Biology. Ian Clark ed. Humana Press.
Totowa N.J. 2001. pp 389-397).
[0010] What are needed are assay devices and systems for detecting
quantifying cell number and identifying their spatial location as
well as identifying and quantifying proteases and protease
inhibitors that do not require extrinsic cell labeling techniques
that are robust and easier to use which allows for enhanced
evaluation of samples.
SUMMARY OF THE INVENTION
[0011] The present invention relates to the fields of molecular
biology, cellular biology, immunology, oncology, developmental
biology, stem cell differentiation, general laboratory sciences and
microbiology, and in particular to methods and compositions based
on liquid crystal assays and other biophotonically based assays for
detecting and quantifying the number of cells present on a
substrate (allows for the quantitation of cell adhesion and cell
proliferation) as well as direct quantification of proliferation,
cell death, differentiation, or cell migration on a surface or
through an extracellular matrix (cell invasion) under control
conditions and in response to the presence of chemotactic, growth,
differentiation enhancing and other cytoactive (accounts for
chemokinetic agents and agents that inhibit cell migration)
agents.
[0012] In some embodiments, the present invention provides an
analyte assay apparatus comprising a substrate having a surface,
the surface having thereon at least one non-specific binding assay
region configured to orient mesogen. In some embodiments, the
mesogens are oriented by anisotropic features on the surface. In
other embodiments, the assay region promotes homeotropic
orientation that can be disrupted by presence of an analyte. In
some preferred embodiments, the non-specific binding assay region
is substantially free of recognition moieties specific for the
analyte. The assays are useful for detecting a variety of analytes,
including, but not limited to, cells, particulate matter and
microorganisms. The present invention is not limited to the
detection of any particular microorganism. Indeed, the detection of
a variety of microorganisms is contemplated, including, but not
limited to, bacteria, viruses, and fungi. The present invention is
not limited to any particular non-specific assay region configured
to orient mesogens. Indeed, a variety of such assay regions are
contemplated, including but not limited to regions comprising
rubbed proteins, rubbed polymeric surfaces, and ordered polymeric
surfaces. The present invention is not limited to any particular
rubbed polymeric surface. Indeed, a variety of rubbed polymeric
surfaces are contemplated, including, but not limited to,
polyurethane, polyimide, tissue culture polystyrene and
polystyrene. The present invention is not limited to the use of any
particular ordered surface. Indeed, a variety of ordered surfaces
are contemplated, including, but not limited to, micromolded
polymeric surfaces, micro/nanoabraded polymeric surfaces,
photolithographically created polymeric surfaces, and obliquely
deposited metallic films. In still other embodiments, the at least
one non-specific assay region configured to orient mesogens
comprises particles arranged on the surface. The present invention
is not limited to any particular method of orienting the particles.
Indeed, a variety of orienting methods are contemplated, including,
but not limited to, electric fields, a magnetic fields, shear
fields, fluid flow, and mechanical transfer. The present invention
is not limited to any particular number of assay regions. Indeed, a
variety of assay region configurations are contemplated, including
assays comprising 6, 12, 24, 36, 96, 384, or 1536 assay regions,
wherein the assay regions are readable by a plate reader. In some
particularly preferred embodiments, the 6, 12, 24, 36, 96, 384, or
1536 assay regions are arranged in an array.
[0013] In other embodiments, the present invention provides an
assay apparatus comprising a surface, the surface having thereon
particles, wherein the particles are ordered to orient mesogens.
The present invention is not limited to any particular method of
orienting the particles. Indeed, a variety of orienting methods are
contemplated, including, but not limited to, electric fields, a
magnetic fields, a shear fields, fluid flow, and mechanical
transfer. The present invention is not limited to the use of any
particular particles. Indeed, the use of a variety of particles is
contemplated, including, but not limited to metallic, charcoal,
chalk, soapstone, graphite, and pumice particles.
[0014] In still further embodiments, the present invention provides
an assay apparatus comprising an assay region, the assay region
comprising an extracellular matrix configured to orient mesogens.
In some preferred embodiments, the assay apparatus further
comprises mesogens. The present invention is not limited to the use
of any particular mesogens. Indeed, the use of a variety of
mesogens is contemplated, including, but not limited to
thermotropic and lyotropic liquid crystals.
[0015] In other embodiments, the present invention provides an
assay apparatus comprising an assay region, the assay region
comprising a matrix having mesogens embedded therein. In some
preferred embodiments, the assay apparatus further comprises
mesogens. The present invention is not limited to the use of any
particular mesogens. Indeed, the use of a variety of mesogens is
contemplated, including, but not limited to thermotropic and
lyotropic liquid crystals.
[0016] In some embodiments, the present invention provides an assay
apparatus comprising a substrate having a surface, the surface
having thereon at least one assay region that is contacted by
mesogens, the surface configured to orient the mesogens, and at
least one cell seeding region associated with the at least one
assay region. In some preferred embodiments, the substrate has
therein at least one reservoir for containing a test compound and
the at least one cell seeding region comprises a well. In some
other preferred embodiments, one or more of the at least one cell
seeding regions contains at least one cell. In further embodiments,
the reservoir contains a test compound. The present invention is
not limited to any particular type of cell. Indeed, the use of a
variety of cells is contemplated, including, but not limited to,
prokaryotic cells and eukaryotic cells. The present invention is
not limited to any particular non-assay region configured to orient
mesogens. Indeed, a variety of such assay regions are contemplated,
including but not limited to regions comprising rubbed proteins,
rubbed polymeric surfaces, and ordered polymeric surfaces. The
present invention is not limited to any particular rubbed polymeric
surface. Indeed, a variety of rubbed polymeric surfaces are
contemplated, including, but not limited to, polyimide,
polyurethane, tissue culture polystyrene and polystyrene. The
present invention is not limited to the use of any particular
ordered surface. Indeed, a variety of ordered surfaces are
contemplated, including, but not limited to, micromolded polymeric
surfaces, micro/nanoabraded polymeric surfaces,
photolithographically created polymeric surfaces, and obliquely
deposited metallic films. In still other embodiments, the at least
one assay region configured to orient mesogens comprises a surface
having particles thereon, the particles configured to orient liquid
crystals. In other preferred embodiments, the surface is decorated
with at least one molecular recognition moiety. In some preferred
embodiments, the recognition moieties are attached to the surface
by covalent bonds. The present invention is not limited to the use
of any particular recognition moiety. Indeed, the use of a variety
of recognition moieties is contemplated, including, but not limited
to, metals, amino acids, peptides, polypeptides, antibodies,
nucleic acids, lipids, phospholipids, fatty acid derivatives,
steroids, transcription factors, saccharides, cellular receptors,
and receptor recognition sequences. The present invention is not
limited to the use of any particular polypeptides. Indeed, the use
of a variety of polypeptides is contemplated, including, but not
limited to collagens, fibronectin, laminins, osteopontin,
thrombospondin, vascular cell adhesion molecule-1, intracellular
adhesion molecule-1, intracellular adhesion molecule-2, chondroitin
sulfate, von Willebrand factor, entactin, fibrinogen, tenascin,
mucosal addressin cell adhesion molecule, C3b, MDC proteins and
vitronectin. The present invention is not limited to the use of any
particular receptor recognition sequences. Indeed, the use of a
variety of receptor recognition sequences is contemplated,
including, but not limited to, cadherin, the immunoglobulin
superfamily, selectins, mucins and integrin binding sequences. The
present invention is not limited to the use of any particular
integrin binding sequences. Indeed, the use of a variety of
integrin binding sequences is contemplated, including, but not
limited to, RGD, EILDV, LDV, LDVP, IDAP, PHSRN, SLDVP, GRGDAC and
IDSP. The present invention is not limited to any particular
configuration of assay regions. In some embodiments, an assay
apparatus of the present invention comprises 6, 12, 24, 36, 96,
384, or 1536 assay regions. In some preferred embodiments, the
plurality of assay regions are arranged in an array. In other
embodiments, the array of assay regions is configured to correspond
to the reading positions of commercial plate reading devices. In
some embodiments, an assay apparatus of the present invention
comprises at least one microfluidic channel. In other embodiments,
the at least one microfluidic channel is configured to be
fluidically connected to the reservoirs.
[0017] In some embodiments of the present invention, methods are
provided for analyzing an analyte comprising: a substrate having a
surface, an analyte, and mesogens, wherein the analyte is not
specifically bound to the surface; and applying the mesogens to the
surface on the substrate so that the analyte is detected. In some
embodiments, the mesogens are applied under conditions such that
regions of order and disorder on the surface are identified. In
some embodiments, the surface is configured to orient the mesogens.
In other embodiments, the surface does not orient the mesogens. In
some embodiments, the presence of the analyte disrupts ordering of
the mesogens. The methods of the present invention are not limited
to the analysis of any particular analyte. Indeed, the analysis of
a variety of analytes is contemplated, including, but not limited
to, prokaryotic cells, eukaryotic cells, viruses, and particulate
matter. In some embodiments, migration of the cells across the
surface creates regions of disorder. In other embodiments,
migration of the cells across the surface creates regions of order.
In still further embodiments, the presence of cells on the surface
causes ordering or disordering of mesogens, thereby allowing
detection of the presence of the cells. In further embodiments, the
methods of the present invention comprise the step of quantifying
the number of the cells on the surface by comparing areas of
disorder to areas of order.
[0018] In still other embodiments of the present invention, methods
are provided for analyzing cells comprising: providing mesogens and
apparatus comprising a substrate having a surface, the surface
having thereon at least one assay region configured to orient
mesogens and at least one cell seeding region associated with the
at least one assay region; applying cells to the at least one cell
seeding region; and assaying the movement of the cells into the at
least one assay region by applying the mesogens to the surface. In
some embodiments, the apparatus further comprises a reservoir for
containing a test compound. In further embodiments, the effect of
the test compound on the cells is analyzed by movement of the cells
into the at least one assay region. In some embodiments, the test
compound is suspected of affecting cell motility. In other
embodiments, the test compound is suspected of effecting cell
proliferation or cell adhesion.
[0019] The present invention also provides methods for detecting
the effects of test compounds on cell motility, comprising,
providing: an assay apparatus comprising a substrate having a
surface, the surface having thereon at least one assay region
configured to orient mesogens and at least one cell seeding region
associated with the at least one assay region, wherein the at least
one cell seeding region contains at least one cell; a test compound
suspected of inhibiting or promoting cell motility; and contacting
the at least one cell, with the test compound; and analyzing the
effect of the test compound on the at least one cell. The methods
of the present invention are not limited to the analysis of any
particular cell. Indeed, a variety of cells can be analyzed,
including eukaryotic (e.g., mammalian) and prokaryotic cells. In
some embodiments, the mammalian cell is suspected of being
cancerous. In other embodiments, the mammalian cell is a human
cell. In some embodiments, the analysis is performed with a liquid
crystal. In still other embodiments, the orientation of the
mesogens within a liquid crystal film is analyzed on a plate
reader.
[0020] The present invention further provides methods for detecting
the effects of test compounds on the production of cellular
secretory products, comprising: providing mesogens and an assay
apparatus comprising a substrate having a surface, the surface
having thereon at least one assay region comprising recognitions
moieties that recognize the cellular secretory product and at least
one cell; contacting the at least one cell with the at least a
first test compound; and applying the mesogens to the surface to
analyze the production of the at least one cellular secretory
product. The present invention is not limited to the analysis of
any particular cell secretory product. Indeed, the analysis of a
variety of cell secretory products is contemplated, including, but
not limited to, trophic factors, cytokines, chemokines, and
electrolytes. The present invention is not limited to the analysis
of any particular trophic factor. Indeed, the analysis of a variety
of trophic factors is contemplated, including, but not limited to,
epidermal growth factors, fibroblast growth factors, neurotrophins,
platelet derived growth factors, hepatocyte growth factors, growth
hormone, prolactin, angiotensin, kinins, neurodifferentiation
factor, insulin, insulin like growth factors (IGF) I and II,
keratinocyte growth factor, amphiregulin, heregulin, TGF-alpha,
TGF-beta, neuropeptides, and neurotransmitters. The present
invention is not limited to the analysis of any particular cytokine
or chemokine. Indeed, the analysis of a variety of cytokines and
chemokines is contemplated, including, but not limited to
interleukins, erythropoietin, tumor necrosis factor, colony
stimulating factors, interferons and cell migration factors. The
present invention is not limited to the analysis of any particular
electrolytes. Indeed, the analysis of a variety of electrolytes is
contemplated, including, but not limited to, calcium, magnesium,
sodium and potassium. The present invention is not limited to the
analysis of any particular type of cell. Indeed, the methods of the
present invention are useful for analysis of a variety of cell
types, including, but not limited to, eukaryotic cells (e.g.,
mammalian cells including human cells, and cancerous cells as well
as cells derived from other vertebrate and invertebrate species).
In some embodiments, the analyzing step is performed with mesogens.
In further embodiments, the mesogens are analyzed on a plate
reader.
[0021] The present invention also provides methods for detecting
production of cellular secretory products, comprising: providing
mesogens, at least one cell, and an assay apparatus comprising a
substrate having a surface, the surface having thereon at least one
assay region comprising recognitions moieties that recognize the
cellular secretory product; and applying the mesogens to the
surface to analyze the production of the at least one cellular
secretory product. In some embodiments, the cellular secretory
product is a natural secretory product, while in other embodiments,
the cellular secretory product is a recombinant secretory
product.
[0022] In still further embodiments, the present invention provides
methods for detecting cytoskeletal alignment in a cell, comprising:
providing: mesogens; and at least one cell; contacting the at least
one cell with the mesogens under conditions such that the mesogens
respond to the cytoskeletal alignment in the at least one cell; and
analyzing the response in the mesogens. In some embodiments, the
methods further comprise the step of solubilizing the membrane of
at least one cell with a solubilizing agent. In some embodiments,
the solubilizing agent comprises a surfactant. In further
embodiments, the surfactant comprises lyotropic mesogens. The
present invention is not limited to the analysis of any particular
type of cell. Indeed, the methods of the present invention are
useful for analysis of a variety of cell types, including, but not
limited to, eukaryotic cells (e.g., mammalian cells including human
cells, cancerous cells and cells from other vertebrate and
invertebrate species). In some embodiments, the analyzing step is
performed with mesogens. In further embodiments, the mesogens are
analyzed on a plate reader.
[0023] In still other embodiments, the present invention provides
an apparatus comprising a substrate having a surface, the surface
having thereon at least one assay region, the at least one assay
region comprising a region that orients mesogens and a region that
does not orient mesogens. In some embodiments, the at least one
assay region further comprises a cell seeding region. In other
embodiments, the apparatus further comprises at least one
reservoir. In further embodiments, the at least one reservoir
contains a test compound. In some embodiments, the test compound is
suspected of inhibiting or promoting the movement of the at least
one cell.
[0024] Additional embodiments of the present invention provide an
apparatus comprising, a substrate and at least one assay region,
wherein the at least one assay region comprises an optically opaque
region and an optically transparent region. In some embodiments,
the assay regions are configured for readouts selected from the
group consisting of calorimetric, fluorimetric, optical density,
and light scattering readouts. In some embodiments, the optically
opaque region further comprises at least one cell seeding region.
In some preferred embodiments, the at least one cell seeding region
contains at least one cell. In some embodiments, the at least one
assay region is configured to orient mesogens. In further
embodiments, the apparatus comprises at least one reservoir. In
some embodiments, the at least one reservoir contains a first test
compound. In some preferred embodiments, the test compound is
suspected of promoting or inhibiting movement of the at least one
cell. In further embodiments, the at least one reservoir is
fluidically connected to at least one microfluidic channel. In some
preferred embodiments, the at least one reservoir fluidically
contacts the at least one assay region.
[0025] In additional embodiments, the at least one cell is vitally
stained or is fixed and subsequently stained. The assay apparatuses
of the present invention are not limited to any particular
configuration. Indeed, the present invention contemplates a variety
of configurations, including, but not limited to, 6, 12, 24, 36,
96, 384, or 1536 assay regions. In some embodiments, the 6, 12, 24,
36, 96, 384, or 1536 of the assay regions are arranged in an array
of a plurality of rows and columns. In some preferred embodiments,
the array of the assay regions is configured to correspond to the
reading positions of a plate reader device.
[0026] In still other embodiments, the present invention provides
an assay apparatus comprising at least a first and a second
discrete assay regions, wherein each of the first and second
discrete assay regions comprise a first side, a second side, a
region that orients mesogens, and a region that does not orient
mesogens, wherein in one of the first and second discrete assay
regions the region that orients mesogens is on the first side and
the region that does not orient mesogens is on the second side and
in the other of the first and second discrete assay regions the
region that orients mesogens is on the second side and the region
that does not orient mesogens is on the first side. In some
embodiments, each of the first and the second discrete assay
regions comprise a cell seeding region. In further embodiments, the
cell seeding region contains at least one cell. The present
invention is not limited to the analysis of any particular type of
cell. Indeed, the methods of the present invention are useful for
analysis of a variety of cell types, including, but not limited to,
eukaryotic cells (e.g., mammalian cells including human cells,
cancerous cells and cells from other vertebrate and invertebrate
species). In some embodiments, the analyzing step is performed with
mesogens. In some embodiments, the assay apparatus further
comprises at least one reservoir. In further embodiments, the at
least one reservoir contains a test compound. In some embodiments,
the test compound is suspected of promoting or inhibiting
chemotaxis of the at least one cell. In further embodiments, the at
least one reservoir is fluidically connected to at least one
microfluidic channel.
[0027] In other embodiments, the present invention provides kits
comprising: an assay apparatus comprising: an analyte assay
apparatus comprising a substrate having a surface, the surface
having thereon at least one non-specific assay region configured to
orient mesogens; mesogens; and instructions.
[0028] In still other embodiments, the present invention provides
methods of quantifying cells on a surface comprising: providing:
mesogens, and a substrate having a surface, the surface having
cells thereon; applying the mesogens to the surface under
conditions such that regions of ordered and disordered mesogens are
formed; and quantifying the number of cells on the surface by
comparing the regions of ordered and disordered mesogens.
[0029] In still further embodiments, the present invention provides
methods of analyzing cells comprising: providing: cells, and an
apparatus comprising a substrate having thereon at least one assay
region, wherein the at least one assay region comprises an
optically opaque region and an optically transparent region; and
applying the cells to the assay region; and analyzing the cells. In
some embodiments, the assay region further comprises at least one
cell seeding region. In further embodiments, the at least one cell
seeding well contains at least one cell. In some embodiments, the
substrate has therein at least one reservoir containing a first
test compound. In some embodiments, the test compound is suspected
of promoting or inhibiting movement of the at least one cell. In
further embodiments, the at least one cell is vitally or
non-vitally stained. In some embodiments, the at least one cell
contains a fluorescent marker. In further embodiments, the
analyzing step comprises analysis by densitometric, light
scattering, calorimetric, or fluorometric methods.
[0030] In still other embodiments, the present invention provides
methods of examining the effect of cells on a matrix comprising:
providing, a matrix, cells, and mesogens; exposing the matrix to
the cells; and applying the mesogens to the matrix under conditions
such that orientation or disorientation of the mesogens is
indicative of forces exerted on the matrix by the cells. In some
preferred embodiments, the matrix orients liquid crystals. The
present invention is not limited to the use of any particular types
of liquid crystals. Indeed, the use of a variety of liquid crystal
types is contemplated, including, but not limited to, lyotropic
liquid crystals and thermotropic liquid crystals. In some
embodiments, the cells are eukaryotic cells. In further
embodiments, the cells invade the matrix. The present invention is
not limited to any particular type of matrix. Indeed, the use of a
variety of matrices is contemplated, including, but not limited to,
extracellular matrices such as reconstituted basement membrane like
complexes derived from some eukaryotic cell lines (e.g. EHS cells),
collagen, fibronectin, laminin, vitronectin and gelatin, a
bacterial extracellular matrix, a gel matrix, and polymeric
matrices.
[0031] In still other embodiments, the present invention provides
methods of examining the effect of cells on a matrix comprising:
providing, a matrix having mesogens embedded therein and cells;
exposing the matrix having mesogens embedded therein to the cells
under conditions such that orientation or disorientation of the
mesogens is indicative of forces exerted on the matrix by the
cells. In some preferred embodiments, the matrix orients liquid
crystals. The present invention is not limited to the use of any
particular types of liquid crystals. Indeed, the use of a variety
of liquid crystal types is contemplated, including, but not limited
to, lyotropic liquid crystals and thermotropic liquid crystals. In
some embodiments, the cells are eukaryotic cells. In further
embodiments, the cells invade the matrix. The present invention is
not limited to any particular type of matrix. Indeed, the use of a
variety of matrices is contemplated, including, but not limited to,
extracellular matrices such as reconstituted basement membrane like
complexes such as derived from some eukaryotic cell lines (e.g.,
EHS cells), collagen, fibronectin, laminin, vitronectin and
gelatin, a bacterial extracellular matrix, a gel matrix, and
polymeric matrices.
[0032] In other embodiments, the present invention provides methods
for culturing cells comprising: providing a liquid crystal
substrate and cells; and culturing the cells on the liquid crystal
substrate. The present invention is not limited to the use of any
particular types of liquid crystals. Indeed, the use of a variety
of liquid crystal types is contemplated, including, but not limited
to, lyotropic liquid crystals and thermotropic liquid crystals. In
some embodiments, the liquid crystal substrate comprises a matrix.
The present invention is not limited to any particular type of
matrix. Indeed, the use of a variety of matrices is contemplated,
including, but not limited to, extracellular matrices such as
reconstituted basement membrane like complexes such as derived from
some eukaryotic cell lines (e.g., EHS cells), collagen,
fibronectin, laminin, vitronectin and gelatin, a bacterial
extracellular matrix, a gel matrix, and polymeric matrices. In
still other embodiments, the liquid crystal substrate comprises a
moiety selected from the group consisting of phospholipids and
biological receptors.
[0033] In further embodiments, the present invention provides
methods for assaying the metabolic state of a cell comprising:
providing cells and mesogens; and exposing the cells to the
mesogens under conditions such that the ordering or disordering of
the mesogens is indicative of the metabolic state of the cell. The
present invention is not limited to the use of any particular types
of liquid crystals. Indeed, the use of a variety of liquid crystal
types is contemplated, including, but not limited to, lyotropic
liquid crystals and thermotropic liquid crystals. In some
embodiments, the mesogens undergo a phase transition at or near the
temperature at which the cells are cultured. In further
embodiments, the analysis of the phase transition indicates the
amount of heat produced by a cell.
[0034] In still further embodiments, the present invention provides
an apparatus comprising: a surface comprising at least one region
configured to orient mesogens and nano-sized to micro-sized
particles distributed randomly on the surface. In some embodiments,
the apparatus further comprises a liquid crystal overlying the
surface, wherein displacement of the particles results in ordering
of the liquid crystal.
[0035] In some embodiments, the present invention provides methods
comprising providing: a surface comprising at least one region
configured to orient mesogens, the surface having distributed
thereon nano- to micro-sized particles; cells, and mesogens;
applying the cells to the surface; and assaying the location or
movement of the cells across the region configured to orient
mesogens by applying the mesogens to the surface, wherein
displacement of the particles by the cells causes areas of ordered
mesogens to be formed.
[0036] In other embodiments, the present invention provides an
apparatus comprising a surface having two sides and electrodes
configured to cause an electric current to pass through the
surface, a liquid crystal one of the two sides, and an analyte on
the other of the two sides, wherein the presence of the analyte is
reported by the presence of disorder in the liquid crystal when a
current is passed through the electrodes.
[0037] In still other embodiments, the present invention provides
an apparatus comprising: a substrate having therein a fluidic
channel, the substrate comprising a test area and a reservoir, the
reservoir, wherein the fluidic channel fluidically communicating
with the test area so that a test compound placed in the reservoir
is delivered to the test area by diffusion. In some embodiments,
the fluidic channel ends in an open port adjacent to the test area.
In further embodiments, the apparatus is configured for use with an
assay system selected from the group consisting of calorimetric,
liquid crystal, fluorimetric, and densitometric assay systems. In
some embodiments, the reservoir and the fluidic channel are formed
from a material selected from the group consisting of glass,
polypropylene, polystyrene, and silicone. In other embodiments, the
apparatus is configured as an insert for use with a multiwell
plate. In further embodiments, the apparatus comprises a plurality
of test areas, reservoirs, and fluidic channels allowing parallel
testing of a plurality of test compounds.
[0038] In additional embodiments, the present invention provides
methods of analyzing cells comprising: providing: cells, and an
apparatus comprising a substrate having thereon at least one assay
region, wherein the at least one assay region comprises a region
that orients mesogens and a region that does not orient mesogens;
and applying the cells to the assay region; and analyzing the
cells.
[0039] In other embodiments, the present invention provides methods
for analyzing a predetermined property of a cell or cells
comprising: providing a substrate, cells and mesogens; applying the
cells to the surface; and analyzing the cells by contacting the
surface and the cells with the mesogens. The present invention is
not limited to the analysis of any particular predetermined
property. Indeed, analysis of a variety of predetermined properties
is contemplated, including, but not limited to proliferation in
response to a compound, differentiation in response to a compound,
and taxis in response to compound. In some embodiments, the
analyzing step further comprises measuring the effect of a
substance or compound on the cell. In some embodiments, the effect
is quantified.
[0040] In still other embodiments, the present invention provides
methods for manufacturing assay devices comprising providing a
substrate having a surface comprising at least one anisotropic area
and a coating material; and applying the coating material to the
substrate having a surface under conditions such that an assay area
comprising the least one anisotropic area is defined. In some
embodiments, the methods comprise the further steps of providing a
second substrate and contacting the second substrate with the first
substrate after the coating material has been applied. In some
embodiments, the first and second substrates are selected from the
group consisting of silica and quartz substrates.
[0041] In some embodiments, the coating material is selected from
the group consisting of polyurethane, polyethylene,
polytetrafluoroethylene, polyethylene tetraphthalate,
polytetrafluoroethylene, polyvinylidene difluoride, protein, latex,
polystyrene, silicone, cellulose, and nitrocellulose. In other
embodiments, the coating material comprises a pressure sensitive
adhesive. In still other embodiments, the coating material
comprises a pigment.
[0042] In some embodiments, the application of coating material
comprises printing the coating material onto the first substrate.
In some preferred embodiments, the printing method is selected from
the group consisting of silk screen printing, flexographic
printing, microcontact printing, seriagraphic printing, ink-jet
printing, intaligo printing, off-set printing, Heidelberg press
printing, and thermal laser printing. In some embodiments, the
application of the coating material defines a plurality of assay
areas. In still other embodiments, the at least one assay area is a
microfluidic channel. In further embodiments, application of the
coating material further defines at least one microfluidic channel
for delivery of material to an assay area.
[0043] In other embodiments, the present invention provides a
device comprising a support surface with external dimensions
substantially similar to a commercial multiwell plate, the support
member having at least one cutout therein, and an assay substrate,
the assay substrate inserted into the at least one cutout to
accommodate an assay substrate. In some preferred embodiments, the
assay substrate is a liquid crystal assay substrate. In other
embodiments, the support surface comprises a plurality of cutouts,
each having an assay substrate inserted therein.
[0044] In still other embodiments, the present invention provides
methods comprising a) providing an assay substrate having thereon
at least one enzymatic substrate configured to orient a liquid
crystal and a sample suspected of containing an enzymatic activity
that acts on the enzymatic substrate; and b) contacting the assay
substrate with the sample under conditions such that a change in
liquid crystal orientation is indicative of the presence of an
enzymatic activity that acts on the enzymatic activity in the
sample. In some embodiments, the change in liquid crystal
orientation is a loss of orientation. In other embodiments, the
change in liquid crystal orientation is the ability to orient a
liquid crystal upon digestion of a substrate that overlies an
anisotropically ordered surface. The digestion of the enzymatic
substrate allows the overlying mesogens access to the underlying
ordering influence of an anistropically ordered surface.
[0045] In further embodiments, the present invention provides
methods of analyzing an assay substrate comprising a) providing a
multiwell plate reader and an assay substrate comprising at least
one analytic area that is substantially free of cell culture wells;
and b) reading the at least one analytic area of the substrate with
multiwell plate reader. In some embodiments, the at least one
analytic area corresponds to the location of a cell culture well in
a commercial multiwell plate. In other embodiments, the at least
one analytic area does not correspond to the location of a cell
culture well in a multiwell plate. In some preferred embodiments,
the multiwell plate reader operates in a scanning mode. In still
other preferred embodiments, the assay substrate is a liquid
crystal assay substrate. In further preferred embodiments, the
assay substrate comprises areas of anisotropy. In some embodiments,
the at least one analytic area corresponds to an area of a
microfluidic channel. In some embodiments, the plate reader reads
multiple discreet areas in the at least one analytic area. In other
embodiments, the plate reader scans the at least one analytic area
to identify an area over which a reaction has occurred. In some
preferred embodiments, the reaction is disruption of liquid crystal
orientation. In still other embodiments, the methods comprise the
further step of applying cells to said at least one analytic area
and identifying the area over which said cells move with said plate
reader.
[0046] In other embodiments, the present invention provides a
device comprising a plurality of elongated cylinders arrayed to
correspond to wells in a multiwell plate, each of the elongated
members having a distal end having an opening therein so that when
the device is placed over a multiwell plate comprising wells having
a bottom surface, the elongated cylinders extend into the wells of
said multiwell plate so that the openings are adjacent to the
bottom surface of the wells.
[0047] In further embodiments, the present invention provides
methods comprising: a) providing a sample suspected of containing
an analyte, mesogens and a substrate having a microchannel therein
that orients a liquid crystal and is decorated with a recognition
moiety; b) applying the sample to the microchannel so that the
sample moves along the microchannel; and c) contacting the
microchannel with the mesogens, wherein the amount of analyte
binding is indicated by the length along the microchannel in which
liquid crystal orientation is disrupted. In some embodiments, the
mesogens are selected from the group consisting of thermotropic and
lyotropic liquid crystals. In some embodiments, the microchannel
comprises a rubbed surface. In other embodiments, the microchannel
comprises an obliquely deposited metal surface.
DESCRIPTION OF THE FIGURES
[0048] FIG. 1A is a schematic depiction of a nanostamper for use in
the present invention.
[0049] FIG. 1B is a schematic depiction of a negative nanostamper
for use in the present invention.
[0050] FIG. 2A is a schematic depiction of random ordering of
mesogens.
[0051] FIG. 2B is a schematic depiction of ordering of mesogens
induced by an electric field.
[0052] FIG. 3 is a schematic depiction of the effect of reducing or
discontinuing a motive force such as an electric field.
[0053] FIG. 4 is a graphical depiction of the relationship between
light transmission and motive force.
[0054] FIG. 5 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0055] FIG. 6 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0056] FIG. 7 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0057] FIG. 8 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0058] FIG. 9 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0059] FIG. 10 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0060] FIG. 11 is a schematic depiction of a device of the present
invention that incorporates particles on a substrate.
[0061] FIG. 12 is a schematic depiction of a device of the present
invention that incorporates a matrix.
[0062] FIG. 13 is a depiction of a cell assay device of the present
invention.
[0063] FIG. 14 is a schematic depiction of a cell culture device of
the present invention.
[0064] FIG. 15 is a schematic depiction of an assay device of the
present invention.
[0065] FIG. 16 is a schematic depiction of an assay device of the
present invention.
[0066] FIG. 17 is a schematic depiction of an assay device of the
present invention.
[0067] FIG. 18 is a schematic depiction of an assay device of the
present invention.
[0068] FIG. 19 is a schematic depiction of an assay device of the
present invention.
[0069] FIG. 20A is a schematic depiction of an assay device of the
present invention in use.
[0070] FIG. 20B is a schematic depiction of an assay device of the
present invention in use.
[0071] FIG. 20C is a schematic depiction of an assay device of the
present invention in use.
[0072] FIG. 21 is a schematic depiction of an assay device of the
present invention.
[0073] FIG. 22 is a schematic depiction of an assay device of the
present invention.
[0074] FIG. 23 is a schematic depiction of an assay device of the
present invention.
[0075] FIG. 24 is a schematic depiction of an assay device of the
present invention.
[0076] FIG. 25 is a schematic depiction of an assay device of the
present invention.
[0077] FIG. 26 is a schematic depiction of an assay device of the
present invention.
[0078] FIG. 27 is a schematic depiction of an assay device of the
present invention.
[0079] FIG. 28 is a schematic depiction of an assay device of the
present invention in use.
[0080] FIG. 29 is a schematic depiction of an assay device of the
present invention in use.
[0081] FIG. 30 is a schematic depiction of an assay device of the
present invention.
[0082] FIG. 31 is a schematic depiction of an assay device of the
present invention.
[0083] FIG. 32 is a schematic depiction of an assay device of the
present invention.
[0084] FIG. 33 is a schematic depiction of an assay device of the
present invention.
[0085] FIG. 34 is a schematic depiction of an assay device of the
present invention in use.
[0086] FIG. 35 is a schematic depiction of an assay device of the
present invention.
[0087] FIG. 36 is a schematic depiction of an assay device of the
present invention.
[0088] FIG. 37A is a schematic depiction of an assay device of the
present invention.
[0089] FIG. 37B is a schematic depiction of an assay device of the
present invention.
[0090] FIG. 38A is a schematic depiction of an assay device of the
present invention.
[0091] FIG. 38B is a schematic depiction of an assay device of the
present invention.
[0092] FIG. 39 is a schematic depiction of an assay device of the
present invention.
[0093] FIG. 40 is a schematic depiction of an assay device of the
present invention.
[0094] FIG. 41 is a schematic depiction of an assay device of the
present invention in use.
[0095] FIG. 42 is a schematic depiction of an assay device of the
present invention.
[0096] FIG. 43 is a schematic depiction of a plate top of the
present invention.
[0097] FIG. 44 is a schematic depiction of liquid orientation by
the plate top of FIG. 43.
[0098] FIG. 45 is a schematic depiction of a plate cover for
orienting cells in the center of a well in a multiwell plate.
[0099] FIG. 46 is a graph depicting results of quantification of an
analyte using microfluidic channels and liquid crystals.
[0100] FIG. 47 is a graph depicting results of an experiment to
determine cell number with a liquid crystal assay.
[0101] FIG. 48 is a schematic depiction of a substrate holder of
the present invention.
[0102] FIG. 49 is graph of the results of a zymography
experiment.
DEFINITIONS
[0103] As used herein, the term "substrate" refers to material
capable of supporting associated assay components (e.g., assay
regions, mesogens that constitute the functional units of liquid
crystals, cells, test compounds, etc.). For example, in some
embodiments, the substrate comprises a planar (i.e., 2 dimensional)
glass, metal, composite, plastic, silica, or other biocompatible or
biologically unreactive (or biologically reactive) composition. In
some other embodiments, the substrate comprises a porous (e.g.,
microporous) or structured (i.e., 3 dimensional) composition (e.g.,
sol-gel matrices).
[0104] As used herein, the term "mesogen" refers to compounds that
form liquid crystals, and in particular rigid, rodlike or disclike
molecules that are components of liquid crystalline materials.
[0105] As used herein, "assay region" refers to a position on a
substrate configured for the collection of data. In some
embodiments, assay regions are configured to order mesogens. In
other embodiments, assay regions are configured specifically to not
order mesogens. In still further embodiments, assay regions are
configured to provide two or more distinct regions (e.g., optically
opaque regions and optically transparent regions, regions that are
capable of ordering mesogens of liquid crystal (mesogens) and
regions specifically lacking the ability to order mesogens placed
on their surface, and combinations thereof).
[0106] As used herein, "array" refers to a substrate with a
plurality of molecules (e.g., mesogens, recognition moieties)
and/or structures (e.g., wells, reservoirs, channels, and the like)
associated with its surface in an orderly arrangement (e.g., a
plurality of rows and columns). In another sense, the term "array"
refers to the orderly arrangement (e.g., rows and columns) of two
or more assay regions on a substrate.
[0107] The term "cell seeding region" as used herein, refers to a
portion of an assay region or a substrate that is configured to
provide an initial attachment site for one or more cell(s) of
interest. In certain preferred embodiments, the cell seeding region
comprises a depression in an assay region of the substrate.
[0108] As used herein, "taxis" refers to a response in which the
direction of movement is affected by an environmental cue. Clearly
distinguished from a kinesis.
[0109] As used herein, "kinesis" refers to alteration in the
movement of a cell, without any directional bias. Thus speed may
increase or decrease (orthokinesis) or there may be an alteration
in turning behavior (klinokinesis).
[0110] As used herein, "orthokinesis" refers to kinesis in which
the speed or frequency of movement is increased (positive
orthokinesis) or decreased (negative orthokinesis).
[0111] As used herein, the term "chemokinesis" refers to a response
by a motile cell to a soluble chemical that involves an increase or
decrease in speed (positive or negative orthokinesis) or of
frequency of movement or a change in the frequency or magnitude of
turning behavior (klinokinesis).
[0112] As used herein, the term "chemotaxis" refers to a response
of motile cells or organisms in which the direction of movement is
affected by the gradient of a diffusible substance. Differs from
chemokinesis in that the gradient alters probability of motion in
one direction only, rather than rate or frequency of random
motion.
[0113] As used herein, the term "neoplasia" refers to abnormal new
growth and thus means the same as tumor, which may be benign or
malignant. This is now a general term used interchangeably with the
term cancer, for more than 100 diseases that are characterized by
uncontrolled, abnormal growth of cells. Neoplastic or cancerous
cells can spread locally or through the bloodstream and lymphatic
systems to other parts of the body.
[0114] As used herein, the term "migration" refers to the passing
from one location to another. Used to describe the change in
position of cells, microorganisms, particles or molecules.
[0115] As used herein, "cell movement" refers to any movement or
change in shape of a cell including, but not limited to locomotion
and cytoplasmic streaming, etc. As used herein, the term
"proliferation" refers to the reproduction or multiplication of
similar forms, especially of cells.
[0116] As used herein, "contraction" refers to a shortening or
reduction in size of a cell. Typically associated with transduction
of forces onto or into a substrate to which the cell is
associated.
[0117] As used herein, the term "invasion" refers to the movement
of cell(s) into a territory of differing composition. In particular
it refers to the use of in vitro assay systems where cells are
seeded on one substrate and they subsequently move into a 3
dimensional matrix. Ability to "invade" the 3 dimensional matrix is
sometimes used as an indicator of malignant potential.
[0118] As used herein, the term "phototaxis" refers to movement of
a cell or organism towards (positive phototaxis) or away from a
source of light (negative phototaxis).
[0119] As used herein, the term "aerotaxis" refers to an organism's
movement toward or away from oxygen as a reaction to its presence.
The term is most often used when discussing aerobes (oxygen-using)
versus anaerobes (which don't use oxygen).
[0120] As used herein, the term "osmotaxis" refers to movement of a
cell or organism towards (positive osmotaxis) or away from
(negative osmotaxis) a source of increased osmotic concentration of
solutes.
[0121] As used herein, the term "immobilization" refers to the
attachment or entrapment, either chemically or otherwise, of a
material to another entity (e.g., a solid support) in a manner that
restricts the movement of the material.
[0122] As used herein, the term "surface configured to orient
mesogens" refers to surfaces that intrinsically orient mesogens
(e.g., through anisotropic surface features such as obliquely
deposited gold or rubbed proteins) and surfaces that are modified
to orient liquid crystals by application of extrinsic structure or
forces, including, but not limited to particles, electric fields,
magnetic fields, or combinations thereof.
[0123] As used herein, the term "matrix" refers to any three
dimensional network of materials, including, but not limited to,
extracellular matrices, synthetic or biological polysaccharide
matrices, collagen matrices, matrigel, polymer networks, soft
microfabricated structures (e.g., from PDMS), gels of lyotropic
liquid crystals, and matrices prepared from bacterial cell
secretions. The materials of the matrices may be chemically
crosslinked or physically crosslinked.
[0124] As used herein, the terms "material" and "materials" refer
to, in their broadest sense, any composition of matter.
[0125] As used herein the term "polypeptide" is used in its
broadest sense to refer to all molecules or molecular assemblies
containing two or more amino acids. Such molecules include, but are
not limited to, proteins, peptides, enzymes, antibodies, receptors,
lipoproteins, and glycoproteins.
[0126] As used herein the term "antigen binding protein" refers to
a response evoked in an animal by an immunogen (antigen), or to
proteins selected in a phage display system, and to proteins
derived from such proteins or glycoproteins (e.g., single chain
antibodies and F(ab')2, Fab' and Fab fragments). An antibody
demonstrates binding to the immunogen, or, more specifically, to
one or more epitopes contained in the immunogen. Native antibody
comprises at least two light polypeptide chains and at least two
heavy polypeptide chains. Each of the heavy and light polypeptide
chains contains at the amino terminal portion of the polypeptide
chain a variable region (i.e., VH and VL respectively), which
contains a binding domain that interacts with antigen. Each of the
heavy and light polypeptide chains also comprises a constant region
of the polypeptide chains (generally the carboxy terminal portion)
which may mediate the binding of the immunoglobulin to host tissues
or factors influencing various cells of the immune system, some
phagocytic cells and the first component (C1q) of the classical
complement system. The constant region of the light chains is
referred to as the "CL region," and the constant region of the
heavy chain is referred to as the "CH region." The constant region
of the heavy chain comprises a CH1 region, a CH2 region, and a CH3
region. A portion of the heavy chain between the CH1 and CH2
regions is referred to as the hinge region (i.e., the "H region").
The constant region of the heavy chain of the cell surface form of
an antibody further comprises a spacer-transmembranal region (M1)
and a cytoplasmic region (M2) of the membrane carboxy terminus. The
secreted form of an antibody generally lacks the M1 and M2 regions.
The recognition sequence may be derived from the circulating plasma
of an animal or from specific in vitro culture systems (e.g.,
monoclonal antibodies, recombinant antibodies, and Fabs harvested
from eukaryotic and prokaryotic culture systems or phage display
systems).
[0127] As used herein, the term "non-specific binding" refers to
the positioning (immobilization) of an analyte (target molecule,
cell, parasite, virus, bacteria, particle etc) of interest on the
surface, wherein the analyte that is not bound by a recognition
moiety.
[0128] As used herein, the term "analytes" refers to any material
that is to be analyzed. Such materials can include, but are not
limited to, ions, molecules, amino acids, polypeptides, nucleic
acids, antigens, bacteria, fungi, compounds, viruses, cells,
prokaryotic and eukaryotic organisms, multicellular organisms,
antibodies, cell parts, and particulate matter in suspension.
[0129] As used herein, the term "selective binding" refers to the
binding of one material to another in a manner dependent upon the
presence of a particular molecular structure (i.e., specific
binding). For example, a receptor will selectively bind ligands
that contain the chemical structures complementary to the ligand
binding site(s). This is in contrast to "non-selective binding,"
whereby interactions are arbitrary and not based on structural
compatibilities of the molecules.
[0130] As used herein, the term "conformational change" refers to
the alteration of the molecular structure of a substance. It is
intended that the term encompass the alteration of the structure of
a single molecule or molecular aggregate (e.g., the change in
structure of a receptor upon binding a ligand).
[0131] As used herein, the term "pathogen" refers to disease
causing organisms, microorganisms, or agents including, but not
limited to, viruses, bacteria, parasites (including, but not
limited to, organisms within the phyla Protozoa, Platyhelminthes,
Aschelminithes, Acanthocephala, and Arthropoda), fungi, and
prions.
[0132] As used herein, the term "bacteria" and "bacterium" refer to
all prokaryotic organisms, including those within all of the phyla
in the Kingdom Procaryotae. It is intended that the term encompass
all microorganisms considered to be bacteria including Mycoplasma,
Chlamydia, Actinomyces, Streptomyces, and Rickettsia. All forms of
bacteria are included within this definition including cocci,
bacilli, spirochetes, spheroplasts, protoplasts, etc. "Gram
negative" and "Gram positive" refer to staining patterns obtained
with the Gram-staining process that is well known in the art (See
e.g., Finegold and Martin, Diagnostic Microbiology, 6th Ed. (1982),
CV Mosby St. Louis, pp 13-15).
[0133] As used herein, the term "polymerization" encompasses any
process that results in the conversion of small molecular monomers
into larger molecules consisting of repeated units. Typically,
polymerization involves chemical crosslinking of monomers to one
another.
[0134] As used herein, the term "membrane receptors" refers to
constituents of membranes that are capable of interacting with
other molecules or materials. Such constituents can include, but
are not limited to, proteins, lipids, carbohydrates, and
combinations thereof.
[0135] As used herein, the term "volatile organic compound" or
"VOC" refers to organic compounds that are reactive (i.e.,
evaporate quickly, explosive, corrosive, etc.), and typically are
hazardous to human health or the environment above certain
concentrations. Examples of VOCs include, but are not limited to,
alcohols, benzenes, toluenes, chloroforms, and cyclohexanes.
[0136] As used herein, the term "enzyme" refers to molecules or
molecule aggregates that are responsible for catalyzing chemical
and biological reactions. Such molecules are typically proteins,
but can also comprise short peptides, RNAs, DNAs, ribozymes,
antibodies, and other molecules, metals and ions.
[0137] As used herein, the term "drug" refers to a substance or
substances that are used to diagnose, treat, or prevent diseases or
conditions. Drugs act by altering the physiology of a living
organism, tissue, cell, or in vitro system that they are exposed
to. It is intended that the term encompass antimicrobials,
including, but not limited to, antibacterial, antifungal, and
antiviral compounds. It is also intended that the term encompass
antibiotics, including naturally occurring, synthetic, and
compounds produced by recombinant DNA technology.
[0138] As used herein, the term "carbohydrate" refers to a class of
molecules including, but not limited to, sugars, starches,
cellulose, chitin, glycogen, and similar structures. Carbohydrates
can also exist as components of glycolipids and glycoproteins.
[0139] As used herein, the term "antigen" refers to any molecule or
molecular group that is recognized by at least one antibody. By
definition, an antigen must contain at least one epitope (i.e., the
specific biochemical unit capable of being recognized by the
antibody). The term "immunogen" refers to any molecule, compound,
or aggregate that induces the production of antibodies. By
definition, an immunogen must contain at least one epitope (i.e.,
the specific biochemical unit capable of causing an immune
response).
[0140] As used herein, the term "chelating compound" refers to any
compound composed of or containing coordinate links that complete a
closed ring structure. The compounds can combine with metal ions,
attached by coordinate bonds to at least two of the nonmetal
ions.
[0141] As used herein, the term "recognition moiety" refers to any
molecule, molecular group, or molecular complex that is capable of
recognizing (i.e., specifically interacting with) a molecule. For
example, the ligand binding site of a receptor would be considered
a molecular recognition complex. The term "recognition moiety" also
encompasses binding sequences known to bind with a specific target
molecule (e.g., the binding sequence of Raf 1 that specifically
binds Ras) and molecules that bind metals.
[0142] As used herein, the term "cellular binding moiety" refers to
any molecule, molecular group, or molecular complex that binds
cells. Examples of cellular binding moieties include, but are not
limited to, integrin binding sequences such as RGD sequences and
other binding sequences found in extracellular matrix proteins.
[0143] As used herein, the terms "home testing" and "point of care
testing" refer to testing that occurs outside of a laboratory
environment. Such testing can occur indoors or outdoors at, for
example, a private residence, a place of business, public or
private land, in a vehicle, as well as at the patient's
bedside.
[0144] As used herein, the term "virus" refers to minute infectious
agents, which with certain exceptions, are not observable by light
microscopy, lack independent metabolism, and are able to replicate
only within a living host cell. The individual particles (i.e.,
virions) consist of nucleic acid and a protein shell or coat; some
virions also have a lipid containing membrane. The term "virus"
encompasses all types of viruses, including animal, plant, phage,
and other viruses, including those incapable of replication without
the presence of other viruses.
[0145] As used herein, the term "nanostructures" refers to
microscopic structures, typically measured on a nanometer scale.
Such structures include various three-dimensional assemblies,
including, but not limited to, liposomes, films, multilayers,
braided, lamellar, helical, tubular, pillar like and fiber-like
shapes, and combinations thereof. Such structures can, in some
embodiments, exist as solvated polymers in aggregate forms such as
rods and coils. Such structures can also be formed from inorganic
materials, such as prepared by the physical deposition of a gold
film onto the surface of a solid, proteins immobilized on surfaces
that have been mechanically rubbed, polymeric materials that have
been mechanically rubbed, polymeric or metallic surfaces into which
order has been introduced onto its surface by the use of micro and
nanoabrasive materials (nanoblasting), high pressure water etching,
and polymeric materials that have been molded or imprinted with
topography by using a silicon template prepared by electron beam or
other lithographic processes. Extrinsically structured anisotropic
surfaces can also be formed by the placement of submicron to 10
.mu.m sized particles (anisometric and/or isometric depending on
the method used) and aligning or partially aligning the particles
through the use of external fields (including, but not limited to,
electric fields, magnetic fields, shear fields and/or fluid flow).
It is also possible to create an aligned surface using mechanical
transfer of organized or aligned particles (e.g., fabrication with
a hydrophobic stamp containing the desired topography). The
particles, when deposited onto the surface are organized or aligned
such that mesogens contained within an overlying liquid crystal are
aligned. These particles are displaced or reoriented when cells
grow on the surface. Alternatively, the stamp can be made from
friable materials that are transferred to the substrate upon
contact with the substrate. Examples of such transferable materials
include, but are not limited to, charcoal, chalk, soapstone,
graphite, pumice, other easily fragmented and transferred materials
and synthetic laminated material, prepared such that fracturing
layers are designed into the material. Nanostructured substrates
can also be fabricated using scanning probe methods, including
atomic force microscopy and scanning tunneling microscopy, as well
as x-ray lithography, micro/nanoabrasive methods, interferometric
optical lithographic methods, and imprinting and embossing
(including hot and cold embossing). Similarly, order can be
introduced into a particle covered surface whereby particles are
initially randomly positioned across a surface and an ordered
pattern introduced by the selective removal of particles.
[0146] As used the term "multilayer" refers to structures comprised
of two or more monolayers. The individual monolayers may chemically
interact with one another (e.g., through covalent bonding, ionic
interactions, van der Waals' interactions, dipole bonding, hydrogen
bonding, hydrophobic or hydrophilic assembly, and steric hindrance)
to produce a film with novel properties (i.e., properties that are
different from those of the monolayers alone).
[0147] As used herein, the terms "self-assembling monomers" and
"lipid monomers" refer to molecules that spontaneously associate to
form molecular assemblies. In one sense, this can refer to
surfactant molecules that associate to form surfactant molecular
assemblies. The term "self-assembling monomers" includes single
molecules (e.g., a single lipid molecule) and small molecular
assemblies (e.g., polymerized lipids), whereby the individual small
molecular assemblies can be further aggregated (e.g., assembled and
polymerized) into larger molecular assemblies.
[0148] As used herein, the term "ligands" refers to any ion,
molecule, molecular group, or other substance that binds to another
entity to form a larger complex. Examples of ligands include, but
are not limited to, peptides, carbohydrates, nucleic acids,
antibodies, or any molecules that bind to receptors.
[0149] As used herein, the terms "organic matrix" and "biological
matrix" refer to collections of organic molecules that are
assembled into a larger multi-molecular structure. Such structures
can include, but are not limited to, films, monolayers, and
bilayers. As used herein, the term "organic monolayer" refers to a
thin film comprised of a single layer of carbon-based molecules. In
one embodiment, such monolayers can be comprised of polar molecules
whereby the hydrophobic ends all line up at one side of the
monolayer. The term "monolayer assemblies" refers to structures
comprised of monolayers. The term "organic polymetric matrix"
refers to organic matrices whereby some or all of the molecular
constituents of the matrix are polymerized.
[0150] As used herein, the term "linker" or "spacer molecule"
refers to material that links one entity to another. In one sense,
a molecule or molecular group can be a linker that is covalently
attached to two or more other molecules (e.g., linking a ligand to
a self-assembling monomer).
[0151] As used herein, the term "bond" refers to the linkage
between atoms in molecules and between ions and molecules in
crystals. The term "single bond" refers to a bond with two
electrons occupying the bonding orbital. Single bonds between atoms
in molecular notations are represented by a single line drawn
between two atoms (e.g., C--C). The term "double bond" refers to a
bond that shares two electron pairs. Double bonds are stronger than
single bonds and are more reactive. The term "triple bond" refers
to the sharing of three electron pairs. As used herein, the term
"ene-yne" refers to alternating double and triple bonds. As used
herein the terms "amine bond," "thiol bond," and "aldehyde bond"
refer to any bond formed between an amine group (i.e., a chemical
group derived from ammonia by replacement of one or more of its
hydrogen atoms by hydrocarbon groups), a thiol group (i.e., sulfur
analogs of alcohols), and an aldehyde group (i.e., the chemical
group --CHO joined directly onto another carbon atom),
respectively, and another atom or molecule.
[0152] As used herein, the term "covalent bond" refers to the
linkage of two atoms by the sharing of two electrons, one
contributed by each of the atoms.
[0153] As used herein, the term "spectrum" refers to the
distribution of light energies arranged in order of wavelength.
[0154] As used the term "visible spectrum" refers to light
radiation that contains wavelengths from approximately 360 nm to
approximately 800 nm.
[0155] As used herein, the term "ultraviolet irradiation" refers to
exposure to radiation with wavelengths less than that of visible
light (i.e., less than approximately 360 nm) but greater than that
of X-rays (i.e., greater than approximately 0.1 nm). Ultraviolet
radiation possesses greater energy than visible light and is
therefore, more effective at inducing photochemical reactions.
[0156] As used herein, the term "badge" refers to any device that
is portable and can be carried or worn by an individual working in
an analyte detecting environment.
[0157] As used herein, the term "biological organisms" refers to
any carbon-based life forms.
[0158] As used herein, the term "in situ" refers to processes,
events, objects, or information that are present or take place
within the context of their natural environment.
[0159] As used herein, the term "sample" is used in its broadest
sense. In one sense it can refer to a biopolymeric material. In
another sense, it is meant to include a specimen or culture
obtained from any source, as well as biological and environmental
samples. Biological samples may be obtained from animals (including
humans) and encompass fluids (including lacrimal and salivary
secretions as well as urinary samples), solids, tissues, cells, and
gases. Biological samples include blood products, such as plasma,
serum and the like. Biological samples also include specimens
obtained in the course of laboratory investigations and include
cells in media, bacteria, fungi, parasites and/or virus in media
and particulate matter in suspension. Environmental samples include
environmental material such as surface matter, soil, water,
crystals and industrial samples. These examples are not to be
construed as limiting the sample types applicable to the present
invention.
[0160] As used herein, the term "liquid crystal" refers to a
thermodynamic stable phase characterized by anisotropy of
properties without the existence of a three-dimensional crystal
lattice, generally lying in the temperature range between the solid
and isotropic liquid phase.
[0161] As used herein, "thermotropic liquid crystal" refers to
liquid crystals that result from the melting of mesogenic solids
due to an increase in temperature. Both pure substances and
mixtures form thermotropic liquid crystals.
[0162] "Lyotropic," as used herein, refers to molecules that form
phases with orientational and/or positional order in a solvent.
Lyotropic liquid crystals can be formed using amphiphilic molecules
(e.g., sodium laurate, phosphatidylethanolamine, lecithin). The
solvent can be water.
[0163] As used herein, the term "heterogeneous surface" refers to a
surface that orients liquid crystals in at least two separate
planes or directions, such as across a gradient.
[0164] As used herein, "nematic" refers to liquid crystals in which
the long axes of the molecules remain substantially parallel, but
the positions of the centers of mass are randomly distributed.
Nematic liquid crystals can be substantially oriented by a nearby
surface.
[0165] "Chiral nematic," as used herein refers to liquid crystals
in which the mesogens are optically active. Instead of the director
being held locally constant as is the case for nematics, the
director rotates in a helical fashion throughout the sample. Chiral
nematic crystals show a strong optical activity that is much higher
than can be explained on the bases of the rotatory power of the
individual mesogens. When light equal in wavelength to the pitch of
the director impinges on the liquid crystal, the director acts like
a diffraction grating, reflecting most and sometimes all light
incident on it. If white light is incident on such a material, only
one color of light is reflected and it is circularly polarized.
This phenomenon is known as selective reflection and is responsible
for the iridescent colors produced by chiral nematic crystals.
[0166] "Smectic," as used herein refers to liquid crystals which
are distinguished from "nematics" by the presence of a greater
degree of positional order in addition to orientational order; the
molecules spend more time in planes and layers than they do between
these planes and layers. "Polar smectic" layers occur when the
mesogens have permanent dipole moments. In the smectic A2 phase,
for example, successive layers show anti-ferroelectric order, with
the direction of the permanent dipole alternating from layer to
layer. If the molecule contains a permanent dipole moment
transverse to the long molecular axis, then the chiral smectic
phase is ferroelectric. A device utilizing this phase can be
intrinsically bistable.
[0167] "Frustrated phases," as used herein, refers to another class
of phases formed by chiral molecules. These phases are not chiral,
however, twist is introduced into the phase by an array of grain
boundaries. A cubic lattice of defects (where the director is not
defined) exists in a complicated, orientationally ordered twisted
structure. The distance between these defects is hundreds of
nanometers, so these phases reflect light just as crystals reflect
x-rays.
[0168] "Discotic phases" are formed from molecules that are disc
shaped rather than elongated. Usually these molecules have aromatic
cores and six lateral substituents. If the molecules are chiral or
a chiral dopant is added to a discotic liquid crystal, a chiral
nematic discotic phase can form.
GENERAL DESCRIPTION OF THE INVENTION
[0169] The present invention relates to the fields of molecular
biology, cellular biology, immunology, oncology, developmental
biology, stem cell growth and differentiation, general laboratory
science, and microbiology, and in particular to methods and
compositions based on liquid crystal assays and other biophotonic
assays for detecting and quantifying the presence of cells, cell
secretory products including polypeptides and enzymes,
microorganisms (including but not limited to viruses, bacteria,
fungi and parasites) and particulate matter on a substrate. The
ability to correlate an output signal with cell number makes the
devices of the present invention widely useful for assays of cell
adhesion as well as cell proliferation, cell death and cellular
differentiation. Additionally, methods are described that allow
quantification of movement of cells in response to cytoactive
agents as well as under control conditions. Compounds that promote
cell migration may be chemotactic (e.g., compounds that stimulate
directed cell migration in response to a gradient) or chemokinetic
(e.g., compounds that stimulate cell migration that is not gradient
or directionally dependent) agents. Additionally, inhibition of
cell migration may be quantified. It is contemplated that adhesion
is indicative of a change in functionality of the cell. Indeed,
adhesion represents a first essential step in cell migration.
Adhesion is also a requirement for survival and subsequent
proliferation of anchorage dependent cell types such as fibroblasts
and epithelial cells. For example, adhesion documents an essential
change in leukocytes that participate subsequently in diapedesis
and is an essential component of wound healing.
[0170] It is contemplated that proliferation is indicative of
normal growth and/or replacement of effete cells in the maintenance
of homeostasis. Proliferation is also a fundamental aspect of
neoplasia and an essential component of wound healing, ontogeny,
inflammation and the immune response. Adhesion, migration,
differentiation and proliferation are fundamental cell behaviors
that are modulated by soluble factors (e.g., cytokines, chemokines,
neuropeptides, neurotrophins, polypeptide growth factors) as well
as by the extracellular matrix constituents (e.g., collagens,
laminin, vitronectin, fibronectin) and influenced by other cells
and their products in the environment. Examining how these
processes are modulated in vitro provides insights into normal
physiologic processes, assists in elucidating the impact of factors
in isolation and in combination with each other and allows
dissection of disease processes such as neoplasia.
[0171] The present invention provides devices and methods for the
determination of cell number in combination with cell proliferation
and cell adhesion assays. As such, the present invention provides a
single platform to multiple cell assays, including, but not limited
to, adhesion, migration, proliferation, invasion, death,
differentiation and contraction assays. Therefore, the devices and
methods of the present invention provide distinct advantages over
and complement methods including direct cell counting using
microscopy and a hemocytometer or automated cell counting devices
(e.g., a Coulter counter); colorimetric assays that utilize
substrate conversion by intracellular enzymes (e.g., MTT assays);
direct colorimetric assays based on extraction of dyes (and
subsequent quantification) after initial vital staining of cells;
fluorometric assays based on enzymatic conversion (e.g., Calcein
AM-molecular probes that provides a fluorometrically converted
substrate for intracellular esterases; fluorometric assays based on
DNA binding (e.g. Hoechst dyes); colorimetric or fluorometric
assays based on identification of intracellular correlative
indicators of cell proliferation such as detection of Proliferating
Cell Nuclear Antigen (PCNA); BRDU labeling of DNA and examining by
microscopy; radiometric assays based on incorporation of tritiated
thymidine; and flow cytometry with propidium iodide labeling.
[0172] Accordingly, in some embodiments the invention contemplates
the placement of any analyte (particles, virus, bacteria, fungi,
parasites, cells, proteins including enzymes) onto an ordered
surface such that liquid crystals placed on top are prevented from
accessing the ordering influence of the underlying substrate. Thus,
the presence of the analyte is revealed in a non-specific manner.
In other embodiments, the presence of an analyte will interfere
with (disrupt) the ordering influence of an electrical and/or
magnetic field. In still other embodiments of the invention, the
presence of the analyte changes the structure of the surface such
that the ordering influence of the surface on the liquid crystals
is changed. In other embodiments, the spatial and orientational
order of the bound analytes is of a type such that the presence of
the analyte introduces order into the liquid crystal.
[0173] The present invention further contemplates the use of liquid
crystal films to report and amplify changes in the order of an
underlying substrate. While not limited to any particular
mechanism, it is believed that this phenomenon is a result of the
introduction of order into a mesogenic layer deposited onto a
disordered substrate, or conversely, the introduction of disorder
into a mesogenic layer deposited on an ordered substrate. It is
contemplated that the order (or disorder) in a substrate is
generated by the regular (or irregular) occurrence of
nanostructures, microstructures or molecules on the substrate.
[0174] An aligned (ordered) surface can be created using a wide
variety of techniques including oblique deposition of gold, simple
rubbing of polymeric surfaces or by the rubbing of proteins
covalently bound to a variety of surfaces, micromolding of
polymers, micro/nanoabrasive processing of surfaces, lithographic
methods of fabrication, including optical lithography, electron
beam lithography and x-ray lithography. Additionally, LCs can be
ordered on isotropic surfaces that support particles that have been
oriented or organized in an anisotropic fashion. Any biologic event
that imparts order to a disordered surface or disorder to an
ordered surface (including isotropic surfaces that support
particles that have been oriented or organized in an anisotropic
fashion) is readily detected by the use of liquid crystals. In
certain embodiments, the nanostructures are chemical moieties,
including but not limited to, polypeptides and proteins, nucleic
acids, lipids, phospholipids, carbohydrates, ions, organic
molecules and inorganic molecules, and the like. In certain other
embodiments, the nanostructures are physical features in the
substrate surface produced by photolithography, electron beam
lithography, micromolding, scanning probe methods including atomic
force microscopy and scanning tunneling microscopy, photoetching,
chemical etching, microcontact printing, chemical spotting,
mechanical abrasives, high pressure water etching and the like.
[0175] In preferred embodiments, the surface order is created by
rubbing a polymeric surface or a surface that has had one or more
proteins and/or other biological moieties (e.g., sugars, specific
receptors or cell receptor recognition sequences [e.g., RGD])
covalently bound to it. In other embodiments, the surface is doped
with submicron to 10 .mu.m sized particles (particles can be
anisometric and/or Isometric depending on the method used) and
aligning or partially aligning them through the use of external
fields (including but not limited to electric fields, magnetic
fields, shear fields and/or fluid flow). The particles can also be
delivered to the surface by microcontact printing the particles
from a topographically textured stamp. The topography of the stamp
can align and order the particles prior to their transfer to the
surface.
[0176] Accordingly, the present invention contemplates that the
orientation of magnetic micro-nanoparticles can be manipulated
(e.g., ordered) by controlled application of a magnetic field or
electrical current. In some embodiments, the nanostructures on a
substrate surface are produced by a combination of the physical
methods.
[0177] The present invention contemplates that the changes in the
local order (or disorder) of the mesogenic layer result from
physically perturbing the layer. The change in order of the surface
is readily observed with placement of a thin layer of liquid
crystal and the use of polarizers or specific wavelengths of light
and photodiode or a charge coupled device (CCD). The change in
order of the surface could be either localized and discreet in
nature or generalized.
[0178] In some embodiments, the perturbations are caused by the
migration of cells across the surface. In other embodiments, the
perturbations are caused by the adhesion, proliferation,
morphological changes, loss and/or contraction of cells on the
surface. In some of these embodiments, the cell membrane is intact,
while in other embodiments the cell membrane is solubilized. In
some embodiments, where cellular functions (e.g., cellular
motility, adhesion, proliferation, apoptosis) are being assayed,
the secretion of cellular factors that alter (e.g., adhere to) the
surface may change local surface order. In some embodiments, liquid
crystalline membranes are used to nonspecifically report
biomechanical transduction events associated with cell adhesions,
migration and contraction. It is contemplated that these assays
function by a change of order in the crystalline membrane itself.
For example, one such contemplated assay material is a film of
liquid crystal that spontaneously adsorbs phospholipids at its
surface. In another embodiment, an elastomeric liquid crystalline
material is used. In yet another embodiment, a polymer-stabilized
or polymer-dispersed liquid crystal is used.
[0179] Preferred embodiments of the present invention are directed
to assays for quantitating the effects of chemotactic and
chemokinetic agents as well as inhibitors of cell migration on
cells (e.g., cancer cells). The present invention is not limited
however to providing assays for quantitating the effects of agents
suspected of being involved in cancer formation and metastasis on
cellular functions and motility.
[0180] Many motility factors for cancer cells and non-malignant
cells were described first as being growth factors. A motility
factor converts a static, adherent cell to a motile status, a
transition that is characterized by the appearance of membrane
ruffling, lamellae, filopodia and pseudopodia. Several motility
factors have been described for cancer cells including: (1)
autocrine motility factor (AMF) which stimulates chemokinesis and
chemotaxis of metastatic melanoma cells in an autocrine fashion;
(2) autotaxin; (3) scatter factor/hepatocyte growth factor (e.g.,
ligands for the c-met oncogene product, a tyrosine kinase receptor
family member); (4) TGF-.alpha. and EGF; (5) insulin like growth
factors; and (6) constituents of the extracellular matrix such as
fibronectin; 7) PDGF; 8) LPA; 9) amphiregulin; and 10) chemokines.
These factors stimulate chemokinesis and chemotaxis. The present
invention specifically contemplates assays for detecting and
quantifying the effects of one or more of these motility factors on
cancer cell (and non-cancer cell) motility.
[0181] While metastatic cancer cells are thought to rely upon the
processes of cell adhesion, deformability, motility, and receptor
recognition for creating metastases, none of these processes are
unique to metastatic cancer cells. These processes have been
observed in numerous non-cancerous cell types and cellular
processes (e.g., trophoblast implantation, mammary gland
involution, embryonic morphogenesis, hematopoietic stem cells, and
tissue remodeling).
[0182] Thus, certain embodiments of the present invention are
directed to assays for quantifying the effects of potential
cytoactive agents (e.g., mitogenic, growth inhibiting, chemotactic,
and chemokinetic agents, inhibitors of cell migration, as well as
agents that promote or inhibit cell adhesion, death, or
differentiation) on cell types involved in fertility and
conception, stem cell differentiation and proliferation, gene
therapy and cell targeting, immunology, and diseases characterized
by abnormal cell motility or migration. Certain other embodiments
provide assays for quantitating the effects of cytoactive agents on
bacteria, archaea, and eukarya. In certain embodiments the
cytoactive agent being assayed is an attractant (e.g., positive
chemotactic agent) of one or more cell types. In certain other
embodiments the agent is a stimulant to cell migration but is
non-directional in its effects (e.g., a chemokinetic agent). In
certain other embodiments the cytoactive agent is an inhibitor or
repellent of one or more cell types. In some embodiments, and in
particular those embodiments directed to assays employing bacteria
and archaea cells, potential tactic agents include, but are not
limited to, phototaxis, aerotaxis, or osmotaxis agents, and the
like.
[0183] The present invention also provides devices and methods for
using liquid crystals to determine the metabolic states of cells,
for detecting secretory products of cells, for analyzing the
structure of cell cytoskeletons, and for analyzing and measuring
cell invasion into matrices. In particularly preferred embodiments,
the present invention provides matrices that comprise a liquid
crystal component and matrices that orient liquid crystals. In
other preferred embodiments, the substrate itself is a liquid
crystal. Each of these embodiments is described in more detail
below. It will be recognized that many of the exemplary assay
devices are not limited to use with liquid crystal display
methodology. In particular, many of the devices and methods are
useful with detection methodologies, including but not limited to
fluorimetry, densitometry, colorimetry, and radiometry.
DETAILED DESCRIPTION OF THE INVENTION
[0184] The present invention relates to the fields of molecular
biology, cellular biology, immunology, oncolocy, cellular
differentiation, general laboratory science and microbiology, and
in particular to methods and compositions based on liquid crystal
assays and other biophotonic assays for detecting and quantifying
the presence of cells on a substrate, for the detection and
quantification of cell secretory products including enzymes and the
quantification of fundamental cell behaviors such as adhesion,
differentiation, death, proliferation, and migration. The cell
assays can be performed under control conditions as well as for
evaluation of cell responsiveness to cytoactive agents. Liquid
crystal-based assay systems (LC assays) are described in WO
99/63329, which is herein incorporated by reference, and Gupta et
al., Science 279:2077-2080 (1998). See also Seung-Ryeol Kim, Rahul
R. Shah, and Nicholas L. Abbott; Orientations of Liquid Crystals on
Mechanically Rubbed Films of Bovine Serum Albumin: A Possible
Substrate for Biomolecular Assays Based on Liquid Crystals,
Analytical Chemistry; 2000; 72(19); 4646-4653; Justin J. Skaife and
Nicholas L. Abbott; Quantitative Interpretation of the Optical
Textures of Liquid Crystals Caused by Specific Binding of
Immunoglobulins to Surface-Bound Antigens, Langmuir; 2000;
16(7);3529-3536; Vinay K. Gupta and Nicholas L. Abbott; Using
Droplets of Nematic Liquid Crystal To Probe the Microscopic and
Mesoscopic Structure of Organic Surfaces, Langmuir; 1999;15(21);
7213-7223. R. R. Shah and N. L. Abbott, Principles for measurement
of chemical exposure based on recognition-driven anchoring
transitions in liquid crystals, Science; 2001;
293(5533):1296-99.
[0185] The LC assays of the present invention are useful for
detecting the presence, spatial distribution, and states of cells,
and also for detecting and quantitating a wide variety of molecules
(e.g., chemical and biological materials, such as ions, proteins
and polypeptides, lipids, polysaccharides, nucleic acids, low
molecular weight compounds, and the like) that act as chemotactic
or cellular adhesion and proliferation inducing agents or are
secreted by cells in response to environmental stimuli. The LC
assays may also be used to investigate regional differences on
individual cell surfaces as to the expression of surface receptors
or secretion of molecules such as growth factors, chemokines,
cytokines, enzymes and constituents of the extracellular matrix.
The LC assays of the present inventions are also useful for
detecting and quantitating cells attached to a substrate (directly
applicable to assays of cell adhesion, cell differentiation and
cell proliferation) as well as assaying migration in a variety of
cell types (e.g., cancer cells, lymphocytes, bacteria, archaea,
etc.). This allows the quantitative analysis of the impact of a
wide array of cytoactive compounds that may promote, have no effect
or inhibit the fundamental cellular processes.
[0186] The assays can also be used to discern subtle changes in the
motility of a cell (or particular type of cell) upon contact with a
suspected cytoactive agent. Indeed, the assays can be used to
detect and quantify a variety of biological and non-biological
entities including, but not limited to, eukaryotic cells,
prokaryotic cells, viruses bacteria, fungi, beads, and particles in
suspension. LC assays of the present invention are used to directly
detect interruption of their surfaces and, in preferred
embodiments, the assayed materials do not require labels,
fluorescent dyes, colored substrates, or secondary antibodies.
[0187] Furthermore, the LC assays of the present invention are
readily adaptable to multi-array formats that permit simultaneous
quantitation of the effects of one or more cytoactive agents upon
one or more types of target cells and appropriate controls.
Adaptability to multi-array formats also makes the LC assays of the
present invention useful in high-throughput screening applications
such as drug discovery. The LC assays of the present invention are
also fast because the liquid crystals reorient in response to
alterations in a surface in seconds.
[0188] In some embodiments of the present invention, the LC assays
comprise a substrate to which recognition moieties are attached,
preferably via an organic layer on the substrate (See, e.g., U.S.
Pat. No. 6,284,197, which is incorporated herein by reference). In
preferred embodiments, the substrate or organic layer serves to
uniformly orient the liquid crystal. In some preferred embodiments,
the substrate surface is prepared by rubbing, micro/nanoblasting
(i.e., abrasion of a surface with submicron particles to create
roughness), high pressure water etching or oblique deposition of a
metal. In some embodiments the substrate consists of a protein
coated surface. In some embodiments, the substrate provides a
uniform, homogenous or planar surface, while in other embodiments,
the surface is heterogeneous and/or contains topographic features.
In some particularly preferred embodiments, the substrate is
patterned to allow quantification.
[0189] Ordered nanostructured anisotropic surfaces introduce order
into (e.g., align) liquid crystal films that are placed onto their
surfaces. This ordering influence of the substrate can be
eliminated by specific binding of target molecules to receptors
immobilized upon the surface in which the dimensions of the
topographic features of the substrate are matched to that of the
target molecule. Another method contemplated herein for the
detection and quantification of cells, microorganisms (e.g.,
bacteria, viruses, fungi, parasites) and particulate matter, is to
simply block access to the ordering influence of the underlying
nanostructured substrate by placement of cells, microorganisms,
particulate matter or non-specifically or specifically secreted or
deposited proteins or other matrices on its surface.
[0190] Accordingly, in some embodiments, assay substrates are
provided that facilitate detection and quantification of cells,
microorganisms and particulate matter in a nonspecific manner.
These assay substrates preferably include at least one assay region
that orients liquid crystals. In preferred embodiments, the assay
region that orients liquid crystals comprises a surface. As
described above, the surface may have intrinsic features (e.g.,
anisotropic structures) that orient liquid crystals, or the surface
may have associated therewith particles or other materials that
orient liquid crystals (i.e., extrinsic ordering materials). These
extrinsic ordering materials may align liquid crystals directly or
may be a aligned by application of an extrinsic force such as a
magnetic field, electric field, or polarized light. As such, the
present invention is not limited to any particular method of
providing a surface or other structure that orients liquid
crystals. For example, in some embodiments, nanorods are deposited
on the surface and aligned using a motive force exemplified by but
not limited to electric fields, magnetic fields, and fluid flow
across surface.
[0191] In some preferred embodiments, the assays of the present
invention may be used to quantify the amount of particulate matter
is a sample, for example, the amount of viral particles in a
sample. Currently, viruses are usually quantified by biological
assays (e.g., LD50, TCID 50 or plaque titrations). Particle counts
aren't often performed because they require electron microscopy.
The assays of the present invention may be used to quantify viral
particles in a sample by applying the viral particles to a
substrate surface via diffusion of an electric field, and
overlaying the substrate with a liquid crystal. The disorder of the
liquid crystal is related to the number of particles on the ordered
surface.
[0192] In some preferred embodiments, it is contemplated that when
a particular cell type of interest is deposited upon, adheres to
and/or migrates across the surface of the LC substrate, the
topographic features in contact with the liquid crystal film is
altered thus altering the alignment of the overlying LC film. In
the case of a migrating cell, local order may be disrupted by its
passage over an anisotropically ordered surface or may locally
introduce order into a randomly ordered surface.
[0193] In preferred embodiments, the concentration of chemotactic
agents and the number of cells contacted to a LC assay surface are
controlled such that distinct cellular migration paths are
observable. According to the present invention, the disruption of
orientation can be detected by a variety of methods, including
viewing with polarized light, measuring the threshold electrical
field required to change the orientation of the liquid crystal, and
viewing in the presence of dichroic agents.
[0194] In other preferred embodiments, one or more chemical agents
and cell types are contacted (e.g., arrayed) over the surface of a
disordered surface such that subsequent cellular adhesion and
migration causes the uniform orientation of the previously
disordered liquid crystal along the discrete path of motility. The
ordered liquid crystals can be viewed using polarizing filters
and/or using a specific wavelength or combination of wavelengths of
light. In some embodiments, the change in order of the surface is
localized and discreet in nature. In other embodiments, the change
in the order of the surface is generalized.
[0195] Accordingly, the present invention provides improved
substrates and devices for LC assays, including quantitative LC
assays. For convenience, the description of the present invention
is divided into the following sections: I. Substrates; II. Organic
Layers; III. Recognition Moieties; IV. Mesogenic Layers; V.
Patterned Liquid Crystals; VI. Analytical Devices; VII. Cell Assays
and VIII. Zymography Assays.
I. Substrates
[0196] Substrates that are useful in practicing the present
invention can be made of practically any physicochemically stable
material. In a preferred embodiment, the substrate material is
non-reactive towards the constituents of the mesogenic layer. The
substrates can be either rigid or flexible and can be either
optically transparent or optically opaque. The substrates can be
electrical insulators, conductors or semiconductors. Further, the
substrates can be substantially impermeable to liquids, vapors
and/or gases or, alternatively, the substrates can be permeable to
one or more of these classes of materials. Exemplary substrate
materials include, but are not limited to, inorganic crystals,
inorganic glasses, inorganic oxides, metals, organic polymers and
combinations thereof.
[0197] A. Inorganic Crystal and Glasses
[0198] In some embodiments of the present invention, inorganic
crystals and inorganic glasses are utilized as substrate materials
(e.g., LiF, NaF, NaCl, KBr, KI, CaF.sub.2, MgF.sub.2, HgF.sub.2,
BN, AsS.sub.3, ZnS, Si.sub.3N.sub.4 and the like). The crystals and
glasses can be prepared by art standard techniques (See, e.g.,
Goodman, C. H. L., Crystal Growth Theory and Techniques, Plenum
Press, New York 1974). Alternatively, the crystals can be purchased
commercially (e.g., Fischer Scientific). The crystals can be the
sole component of the substrate or they can be coated with one or
more additional substrate components. Thus, it is within the scope
of the present invention to utilize crystals coated with, for
example one or more metal films or a metal film and an organic
polymer. Additionally, a crystal can constitute a portion of a
substrate which contacts another portion of the substrate made of a
different material, or a different physical form (e.g., a glass) of
the same material. Other useful substrate configurations utilizing
inorganic crystals and/or glasses will be apparent to those of
skill in the art.
[0199] B. Inorganic Oxides
[0200] In other embodiments of the present invention, inorganic
oxides are utilized as the substrate. Inorganic oxides of use in
the present invention include, for example, Cs.sub.2O,
Mg(OH).sub.2, TiO.sub.2, ZrO.sub.2, CeO.sub.2, Y.sub.2O.sub.3,
Cr.sub.2O.sub.3, Fe.sub.2O.sub.3, NiO, ZnO, Al.sub.2O.sub.3,
SiO.sub.2 (glass), quartz, In.sub.2O.sub.3, SnO.sub.2, PbO.sub.2
and the like. The inorganic oxides can be utilized in a variety of
physical forms such as films, supported powders, glasses, crystals
and the like. A substrate can consist of a single inorganic oxide
or a composite of more than one inorganic oxide. For example, a
composite of inorganic oxides can have a layered structure (i.e., a
second oxide deposited on a first oxide) or two or more oxides can
be arranged in a contiguous non-layered structure. In addition, one
or more oxides can be admixed as particles of various sizes and
deposited on a support such as a glass or metal sheet. Further, a
layer of one or more inorganic oxides can be intercalated between
two other substrate layers (e.g., metal-oxide-metal,
metal-oxide-crystal).
[0201] In a presently preferred embodiment, the substrate is a
rigid structure that is impermeable to liquids and gases. In this
embodiment, the substrate consists of a glass plate onto which a
metal, such as gold is layered by evaporative deposition. In a
still further preferred embodiment, the substrate is a glass plate
(SiO.sub.2) onto which a first metal layer such as titanium has
been layered. A layer of a second metal such as gold is then
layered on top of the first metal layer.
[0202] C. Metals
[0203] In still further embodiments of the present invention,
metals are utilized as substrates. The metal can be used as a
crystal, a sheet or a powder. The metal can be deposited onto a
backing by any method known to those of skill in the art including,
but not limited to, evaporative deposition, sputtering, electroless
deposition, electrolytic deposition and adsorption or deposition of
preformed particles of the metal including metallic
nanoparticles.
[0204] Any metal that is chemically inert towards the mesogenic
layer will be useful as a substrate in the present invention.
Metals that are reactive or interactive towards the mesogenic layer
will also be useful in the present invention. Metals that are
presently preferred as substrates include, but are not limited to,
gold, silver, platinum, palladium, nickel and copper. In one
embodiment, more than one metal is used. The more than one metal
can be present as an alloy or they can be formed into a layered
"sandwich" structure, or they can be laterally adjacent to one
another. In a preferred embodiment, the metal used for the
substrate is gold. In a particularly preferred embodiment the metal
used is gold layered on titanium.
[0205] The metal layers can be either permeable or impermeable to
materials such as liquids, solutions, vapors and gases.
[0206] D. Organic Polymers
[0207] In still other embodiments of the present invention, organic
polymers are utilized as substrate materials. Organic polymers
useful as substrates in the present invention include polymers that
are permeable to gases, liquids and molecules in solution. Other
useful polymers are those that are impermeable to one or more of
these same classes of compounds.
[0208] Organic polymers that form useful substrates include, for
example, polyalkenes (e.g., polyethylene, polyisobutene,
polybutadiene), polyacrylics (e.g., polyacrylate, polymethyl
methacrylate, polycyanoacrylate), polyvinyls (e.g., polyvinyl
alcohol, polyvinyl acetate, polyvinyl butyral, polyvinyl chloride),
polystyrenes, polycarbonates, polyesters, polyurethanes,
polyamides, polyimides, polysulfone, polysiloxanes,
polyheterocycles, cellulose derivative (e.g., methyl cellulose,
cellulose acetate, nitrocellulose), polysilanes, fluorinated
polymers, epoxies, polyethers and phenolic resins (See, Cognard, J.
ALIGNMENT OF NEMATIC LIQUID CRYSTALS AND THEIR MIXTURES, in Mol.
Cryst. Liq. Cryst. 1:1-74 (1982)). Presently preferred organic
polymers include polydimethylsiloxane, polyethylene,
polyacrylonitrile, cellulosic materials, polycarbonates and
polyvinyl pyridinium.
[0209] In a presently preferred embodiment, the substrate is
permeable and it consists of a layer of gold, or gold over
titanium, which is deposited on a polymeric membrane, or other
material, that is permeable to liquids, vapors and/or gases. The
liquids and gases can be pure compounds (e.g., chloroform, carbon
monoxide) or they can be compounds that are dispersed in other
molecules (e.g., aqueous protein solutions, herbicides in air,
alcoholic solutions of small organic molecules). Useful permeable
membranes include, but are not limited to, flexible cellulosic
materials (e.g., regenerated cellulose dialysis membranes), rigid
cellulosic materials (e.g., cellulose ester dialysis membranes),
rigid polyvinylidene fluoride membranes, polydimethylsiloxane and
track etched polycarbonate membranes.
[0210] In a further preferred embodiment, the layer of gold on the
permeable membrane is itself permeable. In a still further
preferred embodiment, the permeable gold layer has a thickness of
about 70 Angstroms or less.
[0211] In those embodiments wherein the permeability of the
substrate is not a concern and a layer of a metal film is used, the
film can be as thick as is necessary for a particular application.
For example, if the film is used as an electrode, the film can be
thicker than in an embodiment in which it is necessary for the film
to be transparent or semi-transparent to light.
[0212] Thus, in a preferred embodiment, the film is of a thickness
of from about 0.01 nanometer to about 1 micrometer. In a further
preferred embodiment, the film is of a thickness of from about 5
nanometers to about 100 nanometers. In yet a further preferred
embodiment, the film is of a thickness of from about 10 nanometers
to about 50 nanometers.
[0213] E. Substrate Surfaces
[0214] It is contemplated that the nature of the surface of the
substrate has a profound effect on the anchoring of the mesogenic
layer that is associated with the surface. The surface can be
engineered by the use of mechanical and/or chemical techniques. The
surface of each of the above enumerated substrates can be
substantially smooth (planar). Alternatively, the surface can be
roughened or patterned by rubbing, etching, grooving, stretching,
stressing, impacting, nanoblasting, oblique deposition or other
similar techniques known to those with skill in the art.
Additionally, an ordered surface can be created by the deposition
(decoration) of nano-micro sized particles that are deposited onto
a planar surface. These particles may be placed onto the surface in
an ordered array using a nanostamper or "negative" nanostamper (see
FIGS. 1A and 1B) or may be placed on in a random array and
subsequently ordered using motive forces exemplified by but not
limited to electric fields, magnetic fields and fluid flow. Of
particular relevance is the texture of the surface that is in
contact with the mesogenic compounds.
[0215] Thus, in one preferred embodiment, the substrate is glass or
an organic polymer and the surface has been prepared by rubbing.
Rubbing can be accomplished using virtually any material including
tissues, paper, fabrics, brushes, polishing paste, etc. In a
preferred embodiment, the rubbing is accomplished by use of a
diamond rubbing paste. In another preferred embodiment, the face of
the substrate that contacts the mesogenic compounds is a metal
layer that has been obliquely deposited by evaporation. In a
further preferred embodiment, the metal layer is a gold layer.
[0216] In other embodiments of the present invention, anisotropic
surfaces are prepared by nanoblasting a substrate with nanometer
scale beads (e.g., 1-200 nm, preferably 50-100 nm) at a defined
angle of incidence (e.g., from about 5-85 degrees, preferably about
45 degrees). The nanoblasted surface can be utilized as is or can
be further modified, such as by obliquely depositing gold on the
surface.
[0217] In still further embodiments, the ansiotropic surfaces of
the devices of the present invention are prepared by stretching an
appropriate substrate. For example, polymers substrates such as
polystyrene can be stretched by heating to a temperature above the
glass transition temperature of the substrate, applying a tensile
force, and cooling to a temperature below the glass transition
temperature before removing the force.
[0218] In some embodiments, the present invention provides
substrates with heterogenous features for use in the various
devices and methods. In some embodiments, the heterogenity is a
uniform or non-uniform gradient in topography across the surface.
For example, gold can be deposited onto a substrate at varying
angles of incidence. Regions containing gold deposited at a
near-normal angle of incidence will cause non-uniform anchoring of
the liquid crystal, while areas in which the angle of incidence was
greater than 10 degrees will uniformly orient crystals.
Alternatively, the heterogeneity may be the presence of two or more
distinct scales of topography distributed uniformly across the
substrate. It is contemplated that such substrates are useful for
increasing the dynamic range of detection of analytes or for
detecting the presence of analytes of a different size within a
sample.
[0219] The substrate can also be patterned using techniques such as
photolithography (Kleinfield et al., J. Neurosci. 8:4098-120
(1998)), photoetching, chemical etching, microcontact printing
(Kumar et al., Langmuir 10:1498-511 (1994)), and chemical
spotting.
[0220] The size and complexity of the pattern on the substrate is
limited only by the resolution of the technique utilized and the
purpose for which the pattern is intended. For example, using
microcontact printing, features as small as 200 nm have been
layered onto a substrate (See, Xia, Y.; Whitesides, G., J. Am.
Chem. Soc. 117:3274-75 (1995)). Similarly, using photolithography,
patterns with features as small as 1 .mu.m have been produced (See,
Hickman et al., J. Vac. Sci. Technol. 12:607-16 (1994)). Patterns
which are useful in the present invention include those which
comprise features such as wells, enclosures, partitions, recesses,
inlets, outlets, channels, troughs, diffraction gratings and the
like.
[0221] In a presently preferred embodiment, the patterning is used
to produce a substrate having a plurality of adjacent wells,
wherein each of the wells is isolated from the other wells by a
raised wall or partition and the wells do not fluidically
communicate. Thus, an analyte (e.g., a potential chemotactic
agent), or other substance, placed in a particular well remains
substantially confined to that well. In another preferred
embodiment, the patterning allows the creation of channels through
the device whereby an agent can enter and/or exit the device.
[0222] The pattern can be printed directly onto the substrate or,
alternatively, a "lift off" technique can be utilized. In the lift
off technique, a patterned resist is laid onto the substrate, an
organic layer is laid down in those areas not covered by the resist
and the resist is subsequently removed. Resists appropriate for use
with the substrates of the present invention are known to those of
skill in the art (See, e.g., Kleinfield et al., J. Neurosci.
8:4098-120 (1998)). Following removal of the photoresist, a second
organic layer, having a structure different from the first organic
layer, can be bonded to the substrate on those areas initially
covered by the resist. Using this technique, substrates with
patterns having regions of different chemical characteristics can
be produced. Thus, for example, a pattern having an array of
adjacent wells can be created by varying the
hydrophobicity/hydrophilicity, charge and other chemical
characteristics of the pattern constituents. In one embodiment,
hydrophilic compounds can be confined to individual wells by
patterning walls using hydrophobic materials. Similarly, positively
or negatively charged compounds can be confined to wells having
walls made of compounds with charges similar to those of the
confined compounds. Similar substrate configurations are accessible
through microprinting a layer with the desired characteristics
directly onto the substrate (See, Mrkish, M.; Whitesides, G. M.,
Ann. Rev. Biophys. Biomol. Struct. 25:55-78 (1996)).
[0223] In yet another preferred embodiment, the patterned substrate
controls the anchoring alignment of the liquid crystal. In a
particularly preferred embodiment, the substrate is patterned with
an organic compound that forms a self-assembled monolayer. In this
embodiment, the organic layer controls the azimuthal orientation
and/or polar orientation of a supported mesogenic layer.
[0224] In still further preferred embodiments, the present
invention provides surfaces that have particles (preferably nano-
to micro-sized particles distributed thereon). It is contemplated
that such particles find use both in orienting liquid crystals and
in masking underlying orienting features associated with the
surface, depending on the configuration. In some embodiments, a
stamping device is utilized that deposits micro- to nano-sized
particles on a surface (See, e.g., FIG. 1A). It is possible to make
a stamp from relatively friable materials that are transferred to
the substrate upon mechanical contact with the substrate. Examples
of such transferable materials include but are not limited to
charcoal, chalk, soapstone, graphite, pumice and other easily
fragmented and transferred materials. This can include a synthetic
laminated material, prepared such that fracturing layers are
designed into the material.
[0225] It is also possible to create an aligned surface using
mechanical transfer of organized or aligned particles ("positive
transfer stamp"). Such a device would have a design similar to FIG.
1A but instead of the arrayed ridges being composed of a friable
material, they are composed of a non-consumable material
appropriate for picking up particles and depositing them on a test
surface in an ordered array. For example, a hydrophobic stamp
containing topography may be fabricated. The particles, when
deposited onto the topography are either organized or aligned such
that when transferred to a substrate on which the cells are grown,
the liquid crystal is aligned. These particles can be hidden,
displaced or reoriented when cells are deposited onto, attach to,
grow or migrate on the surface. In some preferred embodiments of a
transfer stamp, electric or magnetic fields are applied across the
stamp to collect particles. In further preferred embodiments, the
applied field is changed so as to affect the transfer of particles
to the test substrate in an ordered array. The ordered array of
particles would subsequently align mesogens in a LC film placed on
the test substrate's surface. In some embodiments of the invention,
the positions of the particles once transferred to the substrates
are made tolerant to handling and unintended disruption of ordering
by chemical or physical attachment to the substrate.
[0226] FIG. 2A depicts the use of a negative nanostamping device.
In this embodiment, nano to micro-sized particulate matter is
randomly distributed across the test surface of a substrate and
anisotropic order created by using a "negative stamping" method
that removes material in an ordered fashion leaving an
anisotropically patterned surface that aligns the mesogens in an LC
film.
[0227] In some embodiments, the substrate surface further comprises
a plurality of magnetic particles (e.g., metallic nanorods) evenly
distributed across the substrate surface. In certain of these
embodiments, the magnetic particles are salted onto the surface of
the substrate. The present invention contemplates that the
orientation of magnetic nanoparticles can be manipulated (e.g.,
ordered) by controlled application of a magnetic field or
electrical current.
[0228] In some embodiments, the cells, microorganisms, or particles
on a planar surface are visualized by introducing order into the
liquid crystal film by methods exemplified by, but not limited to,
the use of electric fields, magnetic fields and/or the placement of
nano- and/or microparticles deposited on the surface that are
ordered on initial deposition (using a nano or microstamper device)
or ordered subsequent to deposition by use of electric fields,
magnetic fields or the use of fluid flow. In the case of ordering
the LC film with electric or magnetic fields or by fluid flow
without the use of an intrinsic anisotropic nanostructured
substrate or the use of anisotropically ordered nano and/or
microparticles decorating the surface, the order introduced in the
LC film by these methods is disrupted locally by the presence of
cells, microorganisms and/or particulate matter as well as
specifically immobilized target molecules. The degree of disruption
is quantifiable by the magnitude of the ordering motive force (e.g.
electric field) required to maintain a uniformly ordered LC film
despite the presence of a disruptive element represented by the
presence of material (e.g., cells, microorganisms, particulate
matter) on the surface.
[0229] Additionally, it is contemplated that upon cessation of
application of said motive force the cells, microorganisms, and/or
particulate matter present on the surface introduce disorder into
the LC layer proportional to their size and density. In some
embodiments, the analytes (e.g., particulate matter, cells, or
microorganisms) are passively placed onto the surface and
nonspecifically associated with the surface; while in other
embodiments, the analytes are specifically immobilized onto (e.g.,
target molecules immobilized by specific binding to receptors) the
planar surface. This principle is illustrated in FIGS. 2A, 2B, and
3. In FIG. 2A it can be seen that the mesogens are randomly
arranged around the binding sequence immobilized on the planar
surface (100) with its target analyte (300). The element to be
detected on the planar surface could also be a particle, a cell or
a microorganism (bacteria, fungi, virus, parasite). These elements
to be detected may be specifically bound to the surface as depicted
or could simply be resting on the surface or non-specifically (i.e.
no specific binding sequence present) associated to the surface. On
a planar surface with or without elements to be detected the
mesogens have a random distribution (200).
[0230] Referring to FIG. 2B, an electric field (400) is used as an
example of the motive force that could be used to align the
mesogens in the liquid crystal, though other motive forces that
align liquid crystal mesogens (exemplified by, but not limited to
magnetic fields and fluid flow) could also be used. It can be
appreciated that the motive force is sufficient to overcome the
introduction of disorder into the mesogenic layer by the presence
of elements on the planar surface. While the force is applied, all
mesogenic elements are aligned (200). Referring to FIG. 3, the
effect of greatly reducing or discontinuing application of an
aligning motive force is illustrated. The mesogenic elements away
from the target analyte, cell, microorganism or particle on the
surface stay aligned. The mesogenic elements in association with
the target analyte, cell, microorganism or particle have disorder
introduced into them. This disorder is communicated many molecular
lengths away and allows detection using polarized light or specific
wavelengths or combinations of wavelengths of light. It will be
appreciated that the orientation of the liquid crystal on the
substrate, in the absence of the applied field and bound analyte,
has a degenerate degree of orientational freedom. This means that
the liquid crystal can be irreversibly changed by the application
of the field. An example of such an interface is a liquid-liquid
interface (e.g., degenerate azimuthal orientations), but the
invention is not confined to operation at this interface. Examples
of degenerate anchoring of liquid crystals on solid surfaces are
well known to those skilled in the art (see Physics of Liquid
Crystals, Prost and de Gennes).
[0231] Additionally, in other embodiments, the present invention
contemplates methods in which a planar surface is seeded with
cells, microorganisms or particulate matter. A liquid crystal film
is placed onto the surface and alignment is introduced using a
motive force (e.g., electric fields, magnetic fields or fluid
flow). The present invention is not limited to any particular
mechanism of action. Indeed, an understanding of the mechanism of
action is not necessary to practice the present invention.
Nevertheless, the magnitude of the force required to maintain
alignment of the liquid crystal is proportional to the degree of
disruptive force possessed by an element on the surface. A major
contributor to the disruptive force (i.e., the ability to introduce
disorder into the mesogenic layer) is related to its size.
Collecting information (e.g., a curve) of the change in light
transmission as a function of motive force applied necessary to
maintain a uniformly aligned LC film provides quantitative data on
the relative amount of different sized particles. FIG. 4
demonstrates that the force/light transmission curves differ
significantly between two populations of elements placed on a
planar surface.
[0232] In FIG. 4, the solid line depicts the force curve associated
with a population of analytes having heterogeneously sized
particles with a few predominant sizes and the dashed line is
consistent with the presence of a homogenous population of
relatively large particles. The positions of these curves also
depend on the number of particles on the surface. For a given
applied force (e.g., electric field), the transmission of light is
greater if more particles are present on the surface. That is, the
particles prevent the uniform alignment promoted by the applied
field.
[0233] Additionally, rather than using a nanostructured or
microstructured substrate, it is possible to use an electric field
or magnetic field to order the LC or enhance the optical contrast
between regions of the substrate occupied or not occupied by cells
or other particulate matter, microorganisms (bacteria, fungi,
viruses, parasites) as well as specific or non-specific analytes.
These embodiments are described in more detail below.
[0234] F. Liquid Crystal Substrates and Matrices
[0235] Additionally, in some embodiments, liquid crystalline
substrates are employed to report biomechanical forces imparted to
the substrate by the adhesion, movement and contraction of cells.
In some embodiments, the LC substrate is functionalized by the
adhesion of matrix proteins, glass or other biocompatible polymeric
substrates to support cell function. In other embodiments, the LC
substrate comprises a low molecular weight LC film spread over a
solid substrate, a LC gel that is formed by particles or gelator
molecules dispersed in the liquid crystal, a polymeric liquid
crystal, a polymer-stabilized liquid crystalline film that is
prepared by the polymerization of a network of polymer in a liquid
crystal (similar to that used in polymer-dispersed liquid crystal
displays), or polymer stabilized liquid crystals (e.g., lyotropic
liquid crystals). The surfaces of the liquid crystal films can be
functionalized by immobilization of receptors that are anchored to
the surface by one of the various methods of immobilization known
to those skilled in the art, including but not limited to covalent
attachment, physisorption for example by using a receptor coupled
to a surface-active molecule, or by use of polymers adsorbed to the
surface of the liquid crystalline substrate.
[0236] In some preferred embodiments, a hybrid liquid crystalline
film is prepared from a combination of a liquid crystal and
extracellular matrix (ECM) constituents or a combination of liquid
crystals and cell adhesion molecules (e.g. ICAM, selecting,
syndeeans). In another preferred embodiment of the invention, the
extracellular matrix constituents or synthetic mimics of ECM
exhibits liquid crystalline order that is altered by the present of
cells attached to the matrix. The degree of disorder or order of
the liquid crystal film can be assessed and quantified using white
light or using a specific wavelength or combination of wavelengths
of light.
[0237] In yet other embodiments, the use of a liquid crystalline
matrix is employed that reports the transduction of biomechanical
forces from cells placed on the surface into the matrix that alters
the passage of light. Additionally, in some embodiments, thin films
of extracellular matrices (e.g., collagen or fibronectin), cell
surface adhesion molecules, thin polymeric films that support cell
function and may have been functionalized by the immobilization of
extracellular matrix constituents or specific binding sequences
(e.g., RGD) that promote cell function, and hybrid
extracellular-liquid crystalline matrices are used to report
biomechanical forces imparted into these films by cellular
processes such as adhesion, migration or contraction.
[0238] In still further embodiments, matrices (e.g., ECMs) are
provided that have been modified to orient liquid crystals. Such
matrices also find use in adhesion, migration, and invasion
assays.
II. Organic Layers
[0239] In addition to the ability of a substrate to anchor a
mesogenic layer, an organic layer attached to the substrate is
similarly able to provide such anchoring. A wide range of organic
layers can be used in conjunction with the present invention. These
include, but are not limited to, organic layers formed from
organosulfur compounds (including thiols and disulfides),
organosilanes, amphiphilic molecules, cyclodextrins, polyols (e.g.,
poly(ethyleneglycol), poly(propyleneglycol), fullerenes, and
biomolecules (e.g., proteins, lipids, nucleic acids,
polysaccharides, phospholipids and the like). In preferred
embodiments that employ organic layers, the layer is selected after
considering the affects the layer will have on the assay. For
example, assays where the migration of cells are being considered,
one skilled in the art would select an organic layer that is not
expected to interfere with reactions' conditions and cellular
migration, alternatively, one skilled in the art could select an
organic layer expected to either promote or retard cellular
migration.
[0240] A. Anchoring
[0241] An organic layer that is bound to, supported on or adsorbed
onto, the surface of the substrate can anchor a mesogenic layer. As
used herein, the term "anchoring" refers to the set of orientations
adopted by the molecules in the mesogenic phase. The mesogenic
layer will adopt particular orientations while minimizing the free
energy of the interface between the organic layer and the mesogenic
layer. The orientation of the mesogenic layer is referred to as an
"anchoring direction." A number of anchoring directions are
possible.
[0242] It is contemplated that the particular anchoring direction
adopted will depend upon the nature of the mesogenic layer, the
organic layer and the substrate. Anchoring directions of use in the
present invention include, for example, conical anchoring,
degenerate anchoring, homeotropic anchoring, multistable anchoring,
planar anchoring and tilted anchoring. Planar anchoring and
homeotropic anchoring are preferred with planar anchoring being
most preferred.
[0243] The anchoring of mesogenic compounds by surfaces has been
extensively studied for a large number of systems (See, for
example, Jerome, Rep. Prog. Phys. 54:391-451 (1991)). The anchoring
of a mesogenic substance by a surface is specified, in general, by
the orientation of the director of the bulk phase of the mesogenic
layer. The orientation of the director, relative to the surface, is
described by a polar angle (measured from the normal of the
surface) and an azimuthal angle (measured in the plane of the
surface).
[0244] Control of the anchoring of mesogens has been largely based
on the use of organic surfaces prepared by coating surface-active
molecules or polymer films on inorganic (e.g., silicon oxide)
substrates followed by surface treatments such as rubbing. Other
systems which have been found useful include surfaces prepared
through the reactions of organosilanes with various substrates
(See, for example, Yang et al., In MICROCHEMISTRY: SPECTROSCOPY AND
CHEMISTRY IN SMALL DOMAINS; Masuhara et al., Eds.; North-Holland,
Amsterdam, 1994; p. 441).
[0245] Molecularly designed surfaces formed by organic layers on a
substrate can be used to control both the azimuthal and polar
orientations of a supported mesogenic layer. Self-assembled
monolayers (SAMs) can be patterned on a surface. For example,
patterned organic layers made from CH.sub.3(CH.sub.2).sub.14SH and
CH.sub.3(CH.sub.2).sub.15SH on obliquely deposited gold produce a
supported mesogenic layer which is twisted 90.degree.. Other
anchoring modes are readily accessible by varying the chain length
and the number of species of the organic layer constituents (See,
Gupta and Abbott, Science 276:1533-1536 (1997)).
[0246] Transitions between anchoring modes have been obtained on a
series of organic layers by varying the structure of the organic
layer. Structural features that have been found to affect the
anchoring of mesogenic compounds include, for example, the density
of molecules within the organic layer, the size and shape of the
molecules constituting the organic layer and the number of
individual layers making up the bulk organic layer.
[0247] The density of the organic layer on the substrate has been
shown to have an effect on the mode of mesogen anchoring. For
example, transitions between homeotropic and degenerate anchorings
have been obtained on surfactant monolayers by varying the density
of the monolayers (See, Proust et al., Solid State Commun.
11:1227-30 (1972)). Thus, it is within the scope of the present
invention to tailor the anchoring mode of a mesogen by controlling
the density of the organic layer on the substrate.
[0248] The molecular structure, size and shape of the individual
molecules making up the organic layer also effects the anchoring
mode. For example, it has been demonstrated that varying the length
of the aliphatic chains of surfactants on a substrate can also
induce anchoring transitions; with long chains, a homeotropic
anchoring is obtained while with short chains, a conical anchoring
is obtained with the tilt angle .theta. increasing as the chain
becomes shorter (See, e.g., Porte, J. Physique 37:1245-52 (1976)).
Additionally, recent reports have demonstrated that the polar angle
of the mesogenic phase can be controlled by the choice of the
constituents of the organic layer. See, Gupta and Abbott, Langmuir
12:2587-2593 (1996). Thus, it is within the scope of the present
invention to engineer the magnitude of the anchoring shift as well
as the type of shift by the judicious choice of organic layer
constituents.
[0249] Biomolecules can also be used as organic layers. (see
Seung-Ryeol Kim, Rahul R. Shah, and Nicholas L. Abbott;
Orientations of Liquid Crystals on Mechanically Rubbed Films of
Bovine Serum Albumin: A Possible Substrate for Biomolecular Assays
Based on Liquid Crystals, Analytical Chemistry; 2000; 72(19);
4646-4653.). A preferred embodiment when using biomolecules as
organic layers is based on the mechanical rubbing of the organic
layer with a fabric cloth following chemical immobilization of the
organic layer on the surface of a substrate.
[0250] A wide variety of organic layers are useful in practicing
the present invention. These organic layers can comprise
monolayers, bilayers and multilayers. Furthermore, the organic
layers can be attached by covalent bonds, ionic bonds,
physisorption, chemisorption and the like, including, but not
limited to, hydrophobic interactions, hydrophilic interactions, van
der Waals interactions and the like.
[0251] In a presently preferred embodiment, organic layers which
form self-assembled monolayers are used. The use of self-assembled
monolayers (SAMs) formed from alkanethiols on thin, semitransparent
films of gold in studies on the anchoring of liquid crystals on
surfaces has been reported (See, Drawhorn and Abbott, J. Phys.
Chem. 45:16511 (1995)). The principal result of that work was the
demonstration that SAMs formed from n-alkanethiols with long
(CH.sub.3(CH.sub.2).sub.15SH) and short (CH.sub.3(CH.sub.2).sub.4SH
or CH.sub.3(CH.sub.2).sub.9SH) aliphatic chains can homeotropically
anchor mesogens. In contrast, single-component SAMs caused
non-uniform, planar, or tilted anchoring at room temperature.
[0252] In the discussion that follows, self-assembled monolayers
are utilized as an exemplary organic layer. This use is not
intended to be limiting. It will be understood that the various
configurations of the self-assembled monolayers and their methods
of synthesis, binding properties and other characteristics are
equally applicable to each of the organic layers of use in the
present invention.
[0253] B. Self-Assembled Monolayers
[0254] Self-assembled monolayers are generally depicted as an
assembly of organized, closely packed linear molecules. There are
two widely-used methods to deposit molecular monolayers on solid
substrates: Langmuir-Blodgett transfer and self-assembly.
Additional methods include techniques such as depositing a vapor of
the monolayer precursor onto a substrate surface and the
layer-by-layer deposition of polymers and polyelectrolytes from
solution (Guy Ladam, Pierre Schaaf, Frederic J. G. Cuisinier, Gero
Decher, and Jean-Claude Voegel; Protein Adsorption onto
Auto-Assembled Polyelectrolyte Films, Langmuir; 2001; 17(3);
878-882).
[0255] The composition of a layer of a SAM useful in the present
invention can be varied over a wide range of compound structures
and molar ratios. In one embodiment, the SAM is formed from only
one compound. In a presently preferred embodiment, the SAM is
formed from two or more components. In another preferred
embodiment, when two or more components are used, one component is
a long-chain hydrocarbon having a chain length of between 10 and 25
carbons and a second component is a short-chain hydrocarbon having
a chain length of between 1 and 9 carbon atoms. In particularly
preferred embodiments, the SAM is formed from
CH.sub.3(CH.sub.2).sub.15SH and CH.sub.3(CH.sub.2).sub.4SH or
CH.sub.3(CH.sub.2).sub.15SH and CH.sub.3(CH.sub.2).sub.9SH. In any
of the above described embodiments, the carbon chains can be
functionalized at the .omega.-terminus (e.g., NH.sub.2, COOH, OH,
CN), at internal positions of the chain (e.g., aza, oxa, thia) or
at both the .omega.-terminus and internal positions of the
chain.
[0256] The mesogenic layer can be layered on top of one SAM layer
or it can be sandwiched between two SAM layers. In those
embodiments in which the mesogenic layer is sandwiched between two
SAMs, a second substrate, optionally substantially identical in
composition to that bearing the SAM can be layered on top of the
mesogenic layer. Alternatively a compositionally different
substrate can be layered on top of the mesogenic layer. In a
preferred embodiment, the second substrate is permeable. In yet
another preferred embodiment two substrates are used, but only one
of the substrates has an attached organic layer.
[0257] When the mesogenic layer is sandwiched between two layers of
SAMs several compositional permutations of the layers of SAMs are
available. For example, in one embodiment, the first organic layer
and the second organic layer have substantially identical
compositions and both of the organic layers bear an attached
recognition moiety. A variation on this embodiment utilizes first
and second organic layers with substantially similar compositions,
wherein only one of the layers bears a recognition moiety.
[0258] In another embodiment, the first and second organic layers
have substantially different compositions and only one of the
organic layers has an attached recognition moiety. In a further
embodiment, the first organic layer and said second organic layer
have substantially different compositions and both of the organic
layers have an attached recognition moiety.
[0259] In a presently preferred embodiment, the organic layers have
substantially identical compositions and one or both of the organic
layers has attached thereto a recognition moiety.
[0260] A recognition moiety can be attached to the surface of a SAM
by any of a large number of art-known attachment methods. In one
preferred embodiment, a reactive SAM component is attached to the
substrate and the recognition moiety is subsequently bound to the
SAM component via the reactive group on the component and a group
of complementary reactivity on the recognition moiety (See, e.g.,
Hegner et al. Biophys. J. 70:2052-2066 (1996)). In another
preferred embodiment, the recognition moiety is attached to the SAM
component prior to immobilizing the SAM component on the substrate
surface: the recognition moiety-SAM component cassette is then
attached to the substrate. In a still further preferred embodiment,
the recognition moiety is attached to the substrate via a
displacement reaction. In this embodiment, the SAM is preformed and
then a fraction of the SAM components are displaced by a
recognition moiety or a SAM component bearing a recognition
moiety.
[0261] C. Functionalized SAMs
[0262] The discussion that follows focuses on the attachment of a
reactive SAM component to the substrate surface. This focus is for
convenience only and one of skill in the art will understand that
the discussion is equally applicable to embodiments in which the
SAM component-recognition moiety is preformed prior to its
attachment to the substrate. As used herein, "reactive SAM
components" refers to components that have a functional group
available for reaction with a recognition moiety or other species
following the attachment of the component to the substrate.
[0263] Currently favored classes of reactions available with
reactive SAM components are those that proceed under relatively
mild conditions. These include, but are not limited to nucleophilic
substitutions (e.g., reactions of amines and alcohols with acyl
halides), electrophilic substitutions (e.g., enamine reactions) and
additions to carbon-carbon and carbon-heteroatom multiple bonds
(e.g., Michael reaction, Diels-Alder addition). These and other
useful reactions are discussed in March, ADVANCED ORGANIC
CHEMISTRY, Third Ed., John Wiley & Sons, New York, 1985.
[0264] According to the present invention, a substrate's surface is
functionalized with SAM, components and other species by covalently
binding a reactive SAM component to the substrate surface in such a
way as to derivatize the substrate surface with a plurality of
available reactive functional groups. Reactive groups which can be
used in practicing the present invention include, for example,
amines, hydroxyl groups, carboxylic acids, carboxylic acid
derivatives, alkenes, sulfhydryls, siloxanes, etc.
[0265] A wide variety of reaction types are available for the
functionalization of a substrate surface. For example, substrates
constructed of a plastic such as polypropylene, can be surface
derivatized by chromic acid oxidation, and subsequently converted
to hydroxylated or aminomethylated surfaces. Substrates made from
highly crosslinked divinylbenzene can be surface derivatized by
chloromethylation and subsequent functional group manipulation.
Additionally, functionalized substrates can be made from etched,
reduced polytetrafluoroethylene.
[0266] When the substrates are constructed of a siliaceous material
such as glass, the surface can be derivatized by reacting the
surface Si--OH, SiO--H, and/or Si--Si groups with a functionalizing
reagent. When the substrate is made of a metal film, the surface
can be derivatized with a material displaying avidity for that
metal.
[0267] In a preferred embodiment, wherein the substrates are made
from glass, the covalent bonding of the reactive group to the glass
surface is achieved by conversion of groups on the substrate's
surface by a silicon modifying reagent such as:
(RO).sub.3--Si--R.sup.1--X.sup.1 (1) where R is an alkyl group,
such as methyl or ethyl, R.sup.1 is a linking group between silicon
and X and X is a reactive group or a protected reactive group. The
reactive group can also be a recognition moiety as discussed below.
Silane derivatives having halogens or other leaving groups beside
the displayed alkoxy groups are also useful in the present
invention.
[0268] A number of siloxane functionalizing reagents can be used,
for example: [0269] 1. Hydroxyalkyl siloxanes (Silylate surface,
functionalize with diborane, and H.sub.20.sub.2 to oxidize the
alcohol) [0270] a. allyl
trichlorosilane.fwdarw..fwdarw.3-hydroxypropyl [0271] b.
7-oct-1-enyl trichlorosilane.fwdarw..fwdarw.8-hydroxyoctyl [0272]
2. Diol (dihydroxyalkyl) siloxanes (silylate surface and hydrolyze
to diol) [0273] a. (glycidyl
trimethoxysilane.fwdarw..fwdarw.(2,3-dihydroxypropyloxy)propyl
[0274] 3. Aminoalkyl siloxanes (amines requiring no intermediate
functionalizing step). [0275] a. 3-aminopropyl
trimethoxysilane.fwdarw.aminopropyl [0276] 4. Dimeric secondary
aminoalkyl siloxanes [0277] a. bis (3-trimethoxysilylpropyl)
amine.fwdarw.bis(silyloxylpropyl)amine.
[0278] It will be apparent to those of skill in the art that an
array of similarly useful functionalizing chemistries are available
when SAM components other than siloxanes are used. Thus, for
example, similarly functionalized alkyl thiols can be attached to
metal films and subsequently reacted to produce the functional
groups such as those exemplified above.
[0279] In another preferred embodiment, the substrate is at least
partially a metal film, such as a gold film, and the reactive group
is tethered to the metal surface by an agent displaying avidity for
that surface. In a presently preferred embodiment, the substrate is
at least partially a gold film and the group which reacts with the
metal surface comprises a thiol, sulfide or disulfide such as:
Y--S--R.sup.2--X.sup.2 (2) R.sup.2 is a linking group between
sulfur and X.sup.2 and X.sup.2 is a reactive group or a protected
reactive group. X.sup.2 can also be a recognition moiety as
discussed below. Y is a member selected from the group consisting
of H, R.sup.3 and R.sup.3--S--, wherein R.sup.2 and R.sup.3 are
independently selected. When R.sup.2 and R.sup.3 are the same,
symmetrical sulfides and disulfides result, and when they are
different, asymmetrical sulfides and disulfides result.
[0280] A large number of functionalized thiols, sulfides and
disulfides are commercially available (Aldrich Chemical Co., St.
Louis). Additionally, those of skill in the art have available to
them a manifold of synthetic routes with which to produce
additional such molecules. For example, amine-functionalized thiols
can be produced from the corresponding halo-amines, halo-carboxylic
acids, etc. by reaction of these halo precursors with sodium
sulfhydride. See, e.g., Reid, ORGANIC CHEMISTRY of BIVALENT SULFUR,
VOL 1, pp. 21-29, 32-35, vol. 5, pp. 27-34, Chemical Publishing
Co., New York, 1.958, 1963. Additionally, functionalized sulfides
can be prepared via alkylthio-de-halogenation with a mercaptan salt
(See, Reid, ORGANIC CHEMISTRY OF BIVALENT SULFUR, vol. 2, pp.
16-21, 24-29, vol. 3, pp. 11-14, Chemical Publishing Co., New York,
1960). Other methods for producing compounds useful in practicing
the present invention will be apparent to those of skill in the
art.
[0281] In another preferred embodiment, the functionalizing reagent
provides for more than one reactive group per each reagent
molecule. Using reagents such as Compound 3, below, each reactive
site on the substrate surface is, in essence, "amplified" to two or
more functional groups: (RO).sub.3--Si--R.sup.2--(X.sup.2).sub.n
(3) where R is an alkyl group, such as methyl, R.sup.2 is a linking
group between silicon and X.sup.2, X.sup.2 is a reactive group or a
protected reactive group and n is an integer between 2 and 50, and
more preferably between 2 and 20.
[0282] Similar amplifying molecules are also of use in those
embodiments wherein the substrate is at least partially a metal
film. In these embodiments the group which reacts with the metal
surface comprises a thiol, sulfide or disulfide such as in Formula
(4): Y--S--R.sup.2--(X.sup.2).sub.n (4) As discussed above, R.sup.2
is a linking group between sulfur and X.sup.2 and X.sup.2 is a
reactive group or a protected reactive group. X can also be a
recognition moiety. Y is a member selected from the group
consisting of H, R.sup.3 and R.sup.3--S--, wherein R.sup.2 and
R.sup.3 are independently selected.
[0283] R groups of use for R.sup.1, R.sup.2 and R.sup.3 in the
above described embodiments of the present invention include, but
are not limited to, alkyl, substituted alkyl, aryl, arylalkyl,
substituted aryl, substituted arylalkyl, acyl, halogen, hydroxy,
amino, alkylamino, acylamino, alkoxy, acyloxy, aryloxy,
aryloxyalkyl, mercapto, saturated cyclic hydrocarbon, unsaturated
cyclic hydrocarbon, heteroaryl, heteroarylalkyl, substituted
heteroaryl, substituted heteroarylalkyl, heterocyclic, substituted
heterocyclic and heterocyclicalkyl groups.
[0284] In each of Formulae 1-4, above, each of R.sup.1, R.sup.2 and
R.sup.3 are either stable or they can be cleaved by chemical or
photochemical reactions. For example, R groups comprising ester or
disulfide bonds can be cleaved by hydrolysis and reduction,
respectively. Also within the scope of the present invention is the
use of R groups that are cleaved by light such as, for example,
nitrobenzyl derivatives, phenacyl groups, benzoin esters, etc.
Other such cleaveable groups are well-known to those of skill in
the art.
[0285] In another preferred embodiment, the organosulfur compound
is partially or entirely halogenated. An example of compounds
useful in this embodiment include:
X.sup.1Q.sub.2C(CQ.sup.1.sub.2).sub.mZ.sup.1(CQ.sup.2.sub.2).sub.nSH
(5) wherein, X.sup.1 is a member selected from the group consisting
of H, halogen reactive groups and protected reactive groups.
Reactive groups can also be recognition moieties as discussed
below. Q, Q.sup.1 and Q.sup.2 are independently members selected
from the group consisting of H and halogen. Z.sup.1 is a member
selected from the group consisting of --CQ.sub.2--,
--CQ.sup.1.sub.2--, --CQ.sup.2.sub.2--, --O--, --S--, NR.sup.4--,
--C(O)NR.sup.4 and R.sup.4NC(O0-, in which R.sup.4 is a member
selected from the group consisting of H, alkyl, substituted alkyl,
aryl, substituted aryl, heteroaryl and heterocyclic groups and m
and n are independently a number between 0 and 40.
[0286] In yet another preferred embodiment, the organic layer
comprises a compound according to Formula 5 above, in which Q,
Q.sup.1 and Q.sup.2 are independently members selected from the
group consisting of H and fluorine. In a still further preferred
embodiment, the organic layer comprises compounds having a
structure according to Formulae (6) and (7):
CF.sub.3(CF.sub.2).sub.mZ.sup.1(CH.sub.2).sub.nSH (6)
CF.sub.3(CF.sub.2).sub.oZ.sup.2(CH.sub.2).sub.PSH (7) wherein,
Z.sup.1 and Z.sup.2 are members independently selected from the
group consisting of --CH.sub.2--, --O--, --S--, NR.sup.4,
--C(O)NR.sup.4 and R.sup.4NC(O)-- in which R.sup.4 is a member
selected from the group consisting of H, alkyl, substituted alkyl,
aryl, substituted aryl, heteroaryl and heterocyclic groups. In a
presently preferred embodiment, the Z groups of adjacent molecules
participate in either an attractive (e.g., hydrogen bonding) or
repulsive (e.g., van der Waals) interaction.
[0287] In Formulae 6 and 7, m is a number between 0 and 40, n is a
number between 0 and 40, o is a number between 0 and 40 and p is a
number between 0 and 40.
[0288] In a further preferred embodiment, the compounds of Formulae
6 and 7 are used in conjunction with an organosulfur compound,
either halogenated or unhalogenated, that bears a recognition
moiety.
[0289] When the organic layer is formed from a halogenated
organosulfur compound, the organic layer can comprise a single
halogenated compound or more than one halogenated compound having
different structures. Additionally, these layers can comprise a
non-halogenated organosulfur compound.
[0290] The reactive functional groups (X.sup.1 and X.sup.2) are,
for example:
[0291] (a) carboxyl groups and various derivatives thereof
including, but not limited to, N-hydroxysuccinimide esters,
N-hydroxybenztriazole esters, acid halides, acyl imidazoles,
thioesters, p-nitrophenyl esters, alkyl, alkenyl, alkynyl and
aromatic esters;
[0292] (b) hydroxyl groups which can be converted to esters,
ethers, aldehydes, etc.
[0293] (c) haloalkyl groups wherein the halide can be later
displaced with a nucleophilic group such as, for example, an amine,
a carboxylate anion, thiol anion, carbanion, or an alkoxide ion,
thereby resulting in the covalent attachment of a new group at the
site of the halogen atom;
[0294] (d) dienophile groups which are capable of participating in
Diels-Alder reactions such as, for example, maleimido groups;
[0295] (e) aldehyde or ketone groups such that subsequent
derivatization is possible via formation of carbonyl derivatives
such as, for example, imines, hydrazones, semicarbazones or oximes,
or via such mechanisms as Grignard addition or alkyllithium
addition;
[0296] (f) sulfonyl halide groups for subsequent reaction with
amines, for example, to form sulfonamides;
[0297] (g) thiol groups which can be converted to disulfides or
reacted with acyl halides;
[0298] (h) amine or sulfhydryl groups which can be, for example,
acylated or alkylated;
[0299] (i) alkenes which can undergo, for example, cycloadditions,
acylation, Michael addition, etc; and
[0300] (j) epoxides which can react with, for example, amines and
hydroxyl compounds.
The reactive moieties can also be recognition moieties. The nature
of these groups is discussed in greater detail below.
[0301] The reactive functional groups can be chosen such that they
do not participate in, or interfere with, the reaction controlling
the attachment of the functionalized SAM component onto the
substrate's surface. Alternatively, the reactive functional group
can be protected from participating in the reaction by the presence
of a protecting group.
[0302] Those of skill in the art will understand how to protect a
particular functional group from interfering with a chosen set of
reaction conditions. For examples of useful protecting groups, see
Greene et al., PROTECTIVE GROUPS IN ORGANIC SYNTHESIS, John Wiley
& Sons, New York, 1991.
[0303] In a preferred embodiment, the SAM component bearing the
recognition moiety is attached directly and essentially
irreversibly via a "stable bond" to the surface of the substrate. A
"stable bond", as used herein, is a bond that maintains its
chemical integrity over a wide range of conditions (e.g., amide,
carbamate, carbon-carbon, ether, etc.). In another preferred
embodiment, the SAM component bearing the recognition moiety is
attached to the substrate surface by a "cleaveable bond". A
"cleaveable bond", as used herein, is a bond that is designed to
undergo scission under conditions which do not degrade other bonds
in the recognition moiety-analyte complex. Cleaveable bonds
include, but are not limited to, disulfide, imine, carbonate and
ester bonds.
[0304] In certain embodiments, it is advantageous to have the
recognition moiety attached to a SAM component having a structure
that is different than that of the constituents of the bulk SAM. In
this embodiment, the group to which the recognition moiety is bound
is referred to as a "spacer arm" or "spacer." Using such spacer
arms, the properties of the SAM adjacent to the recognition moiety
can be controlled. Properties that are usefully controlled include,
for example, hydrophobicity, hydrophilicity, surface-activity and
the distance of the recognition moiety from the plane of the
substrate and/or the SAM. For example, in a SAM composed of
alkanethiols, the recognition moiety can be attached to the
substrate or the surface of the SAM via an amine terminated
poly(ethyleneglycol). Numerous other combinations of spacer arms
and SAMs are accessible to those of skill in the art.
[0305] The hydrophilicity of the substrate surface can be enhanced
by reaction with polar molecules such as amine-, hydroxyl- and
polyhydroxyl containing molecules. Representative examples include,
but are not limited to, polylysine, polyethyleneimine,
poly(ethyleneglycol) and poly(propyleneglycol). Suitable
functionalization chemistries and strategies for these compounds
are known in the art (See, for example, Dunn, R. L., et al., Eds.
POLYMERIC DRUGS AND DRUG DELIVERY SYSTEMS, ACS Symposium Series
Vol. 469, American Chemical Society, Washington, D.C. 1991).
[0306] The hydrophobicity of the substrate surface can be modulated
by using a hydrophobic spacer arm such as, for example, long chain
diamines, long chain thiols, .alpha., .omega.-amino acids, etc.
Representative hydrophobic spacers include, but are not limited to,
1,6-hexanediamine, 1,8-octanediamine, 6-aminohexanoic acid and
8-aminooctanoic acid.
[0307] The substrate surface can also be made surface-active by
attaching to the substrate surface a spacer that has surfactant
properties. Compounds useful for this purpose include, for example,
aminated or hydroxylated detergent molecules such as, for example,
1-aminododecanoic acid.
[0308] In another embodiment, the spacer serves to distance the
recognition moiety from the substrate or SAM. Spacers with this
characteristic have several uses. For example, a recognition moiety
held too closely to the substrate or SAM surface may not react with
incoming analyte, or it may react unacceptably slowly. When an
analyte is itself sterically demanding, the reaction leading to
recognition moiety-analyte complex formation can be undesirably
slowed, or not occur at all, due to the monolithic substrate
hindering the approach of the two components.
[0309] In another embodiment, the physicochemical characteristics
(e.g., hydrophobicity, hydrophilicity, surface activity,
conformation) of the substrate surface and/or SAM are altered by
attaching a monovalent moiety which is different in composition
than the constituents of the bulk SAM and which does not bear a
recognition moiety. As used herein, "monovalent moiety" refers to
organic molecules with only one reactive functional group. This
functional group attaches the molecule to the substrate.
"Monovalent moieties" are to be contrasted with the bifunctional
"spacer" groups described above. Such monovalent groups are used to
modify the hydrophilicity, hydrophobicity, binding characteristics,
etc. of the substrate surface. Examples of groups useful for this
purpose include long chain alcohols, amines, fatty acids, fatty
acid derivatives, poly(ethyleneglycol) monomethyl ethers, etc.
[0310] When two or more structurally distinct moieties are used as
components of the SAMs, the components can be contacted with the
substrate as a mixture of SAM components or, alternatively, the
components can be added individually. In those embodiments in which
the SAM components are added as a mixture, the mole ratio of a
mixture of the components in solution results in the same ratio in
the mixed SAM. Depending on the manner in which the SAM is
assembled, the two components do not phase segregate into islands
(See, Bain and Whitesides, J. Am. Chem. Soc. 111:7164 (1989)). This
feature of SAMs can be used to immobilize recognition moieties or
bulky modifying groups in such a manner that certain interactions,
such as steric hindrance, between these molecules is minimized.
[0311] The individual components of the SAMs can also be bound to
the substrate in a sequential manner. Thus, in one embodiment, a
first SAM component is attached to the substrate's surface by
"underlabeling" the surface functional groups with less than a
stoichiometric equivalent of the first component. The first
component can be a SAM component liked to a terminal reactive group
or recognition group, a spacer arm or a monovalent moiety.
Subsequently, the second component is contacted with the substrate.
This second component can either be added in stoichiometric
equivalence, stoichiometric excess or can again be used to
underlabel to leave sites open for a third component.
III. Recognition Moieties
[0312] In some embodiments of the present invention, a "recognition
moiety" attached to or associated with the substrate is utilized to
bind to or otherwise interact with another molecule or molecules
(e.g., analytes) or a cell. For example, in some embodiments,
recognition moieties are attached to either .omega.-functionalized
spacer arms or .omega.-functionalized SAM components that are in
turn attached to or associated with the substrate. Furthermore, a
recognition moiety can be presented by a polymer surface (e.g., a
rubbed polymer surface).
[0313] In some preferred embodiments, the recognition moiety
comprises an organic functional group. In presently preferred
embodiments, the organic functional group is a member selected from
the group consisting of amines, carboxylic acids, drugs, chelating
agents, crown ethers, cyclodextrins or a combination thereof.
[0314] In another preferred embodiment, the recognition moiety is a
biomolecule. In still further preferred embodiments, the
biomolecule is a polypeptide or protein (e.g., specific receptors
or cell receptor recognition sequences [e.g., RGD]), antigen
binding protein, peptide, nucleic acid (e.g., single nucleotides or
nucleosides, oligonucleotides, polynucleotides and single- and
higher-stranded nucleic acids), lipids, phospholipids, or a
combination thereof. In a presently preferred embodiment, the
recognition moiety is biotin. In some embodiments of the present
invention, the recognition moiety is an antigen binding protein.
Such antigen binding proteins include, but are not limited to
polyclonal, monoclonal, chimeric, single chain, Fab fragments, and
Fab expression libraries. In particularly preferred embodiments,
the protein and polypeptide recognition moieties comprise proteins
and peptide sequences normally found in the extracellular matrix
that support cell attachment and function (e.g., collagens
including types I, II, III and IV, laminins, fibronectin,
vitronectin). In some embodiments, peptide sequences are attached
as short functional sequences (e.g., RGD) or the functional
sequences may be contained within longer peptide sequences (e.g.,
x-RGD-x). Examples of peptide sequences include, but are not
limited to, all of the known integrin binding sequences, including
RGD, EILDV, LDV, LDVP, IDAP, PHSRN, SLDVP, and IDSP.
[0315] Various procedures known in the art may be used for the
production of polyclonal antibodies. For the production of
antibody, various host animals, including but not limited to
rabbits, mice, rats, sheep, goats, etc., can be immunized by
injection with the peptide corresponding to an epitope. In a
preferred embodiment, the peptide is conjugated to an immunogenic
carrier (e.g., diphtheria toxoid, bovine serum albumin (BSA), or
keyhole limpet hemocyanin (KLH)). Various adjuvants may be used to
increase the immunological response, depending on the host species,
including but not limited to Freund's (complete and incomplete),
mineral gels (e.g., aluminum hydroxide), surface active substances
(e.g., lysolecithin, pluronic polyols, polyanions, peptides, oil
emulsions, keyhole limpet hemocyanins, dinitrophenol, and
potentially useful human adjuvants such as BCG (Bacille
Calmette-Guerin) and Corynebacterium parvum).
[0316] For preparation of monoclonal antibodies, it is contemplated
that any technique that provides for the production of antibody
molecules by continuous cell lines in culture will find use with
the present invention (See e.g., Harlow and Lane, Antibodies: A
Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring
Harbor, N.Y.). These include but are not limited to the hybridoma
technique originally developed by Kohler and Milstein (Kohler and
Milstein, Nature 256:495-497 [1975]), as well as the trioma
technique, the human B-cell hybridoma technique (See e.g., Kozbor
et al., Immunol. Tod., 4:72 [1983]), and the EBV-hybridoma
technique to produce human monoclonal antibodies (Cole et al., in
Monoclonal Antibodies and Cancer Therapy, Alan R. Liss, Inc., pp.
77-96 [1985]).
[0317] In addition, it is contemplated that techniques described
for the production of single chain antibodies (U.S. Pat. No.
4,946,778; herein incorporated by reference) will find use in
producing specific single chain antibodies that serve as
recognition moieties. Furthermore, it is contemplated that any
technique suitable for producing antibody fragments will find use
in generating antibody fragments that are useful recognition
moieties. For example, such fragments include but are not limited
to: F(ab')2 fragment that can be produced by pepsin digestion of
the antibody molecule; Fab' fragments that can be generated by
reducing the disulfide bridges of the F(ab')2 fragment, and Fab
fragments that can be generated by treating the antibody molecule
with papain and a reducing agent. In still further embodiments, the
recognition moiety comprises a phage displaying an antigen binding
protein.
[0318] In some embodiments where the recognition moiety is a
polynucleotide or polypeptide, a plurality of recognition moieties
are arrayed on the substrates using photo activated chemistry,
microcontact printing, and ink-jet printing. In particularly
preferred embodiments, photolithography is utilized (See e.g., U.S.
Pat. Nos. 6,045,996; 5,925,525; and 5,858,659; each of which is
herein incorporated by reference). Using a series of
photolithographic masks to define substrate exposure sites,
followed by specific chemical synthesis steps, the process
constructs high-density arrays of oligonucleotides, with each probe
in a predefined position in the array. Multiple probe arrays are
synthesized simultaneously on, for example, a large glass wafer.
The wafers are then diced, and individual probe arrays are packaged
in injection-molded plastic cartridges, which protect them from the
environment and serve as chambers for hybridization.
[0319] In other embodiments, nucleic acid recognition moieties are
electronically captured on a suitable substrate (See e.g., U.S.
Pat. Nos. 6,017,696; 6,068,818; and 6,051,380; each of which are
herein incorporated by reference). Through the use of
microelectronics, this technology enables the active movement and
concentration of charged molecules to and from designated test
sites on its semiconductor microchip. DNA capture probes unique to
a given target are electronically placed at, or "addressed" to,
specific sites on the microchip. Since DNA has a strong negative
charge, it can be electronically moved to an area of positive
charge.
[0320] In still further embodiments, recognition moieties are
arrayed on a suitable substrate by utilizing differences in surface
tension (See e.g., U.S. Pat. Nos. 6,001,311; 5,985,551; and
5,474,796; each of which is herein incorporated by reference). This
technology is based on the fact that fluids can be segregated on a
flat surface by differences in surface tension that have been
imparted by chemical coatings. Once so segregated, oligonucleotide
probes are synthesized directly on the chip by ink-jet printing of
reagents. The array with its reaction sites defined by surface
tension is mounted on a X/Y translation stage under a set of four
piezoelectric nozzles, one for each of the four standard DNA bases.
The translation stage moves along each of the rows of the array and
the appropriate reagent is delivered to each of the reaction site.
For example, the A amidite is delivered only to the sites where
amidite A is to be coupled during that synthesis step and so on.
Common reagents and washes are delivered by flooding the entire
surface and then removing them by spinning.
[0321] In still further embodiments, recognition moieties are
spotted onto a suitable substrate. Such spotting can be done by
hand with a capillary tube or micropipette, or by an automated
spotting apparatus such as those available from Affymetrix and
Gilson (See e.g., U.S. Pat. Nos. 5,601,980; 6,242,266; 6,040,193;
and 5,700,637; each of which is incorporated herein by
reference).
[0322] When the recognition moiety is an amine, in preferred
embodiments, the recognition moiety will interact with a structure
on the analyte that reacts by binding to the amine (e.g., carbonyl
groups, alkylhalo groups). In another preferred embodiment, the
amine is protonated by an acidic moiety on the analyte of interest
(e.g., carboxylic acid, sulfonic acid).
[0323] In certain preferred embodiments, when the recognition
moiety is a carboxylic acid, the recognition moiety will interact
with the analyte by complexation (e.g. metal ions). In still other
preferred embodiments, the carboxylic acid will protonate a basic
group on the analyte (e.g. amine).
[0324] In another preferred embodiment, the recognition moiety is a
drug moiety. The drug moieties can be agents already accepted for
clinical use or they can be drugs whose use is experimental, or
whose activity or mechanism of action is under investigation. The
drug moieties can have a proven action in a given disease state or
can be only hypothesized to show desirable action in a given
disease state. In a preferred embodiment, the drug moieties are
compounds that are being screened for their ability to interact
with an analyte of choice. As such, drug moieties that are useful
in practicing the instant invention include drugs from a broad
range of drug classes having a variety of pharmacological
activities.
[0325] Classes of useful agents include, for example, non-steroidal
anti-inflammatory drugs (NSAIDS). The NSAIDS can, for example, be
selected from the following categories: (e.g., propionic acid
derivatives, acetic acid derivatives, fenamic acid derivatives,
biphenylcarboxylic acid derivatives and oxicams); steroidal
anti-inflammatory drugs including hydrocortisone and the like;
antihistaminic drugs (e.g., chlorpheniranune, triprolidine);
antitussive drugs (e.g., dextromethorphan, codeine, carmiphen and
carbetapentane); antipruritic drugs (e.g., methidilizine and
trimeprizine); anticholinergic drugs (e.g., scopolamine, atropine,
homatropine, levodopa); anti-emetic and antinauseant drugs (e.g.,
cyclizine, meclizine, chlorpromazine, buclizine); anorexic drugs
(e.g., benzphetamine, phentermine, chlorphentermine, fenfluramine);
central stimulant drugs (e.g., amphetamine, methamphetamine,
dextroamphetamine and methylphenidate); antiarrhythmic drugs (e.g.,
propanolol, procainamide, disopyraminde, quinidine, encainide);
P-adrenergic blocker drugs (e.g., metoprolol, acebutolol,
betaxolol, labetalol and timolol); cardiotonic drugs (e.g.,
milrinone, amrinone and dobutamine); antihypertensive drugs (e.g.,
enalapril, clonidine, hydralazine, minoxidil, guanadrel,
guanethidine); diuretic drugs (e.g., amiloride and
hydrochlorothiazide); vasodilator drugs (e.g., diltazem,
amiodarone, isosuprine, nylidrin, tolazoline and verapamil);
vasoconstrictor drugs (e.g., dihydroergotamine, ergotamine and
methylsergide); antiulcer drugs (e.g., ranitidine and cimetidine);
anesthetic drugs (e.g., lidocaine, bupivacaine, chlorprocaine,
dibucaine); antidepressant drugs (e.g., imipramine, desipramine,
amitryptiline, nortryptiline); tranquilizer and sedative drugs
(e.g., chlordiazepoxide, benacytyzine, benzquinamide, flurazapam,
hydroxyzine, loxapine and promazine); antipsychotic drugs (e.g.,
chlorprothixene, fluphenazine, haloperidol, molindone, thioridazine
and trifluoperazine); antimicrobial drugs (antibacterial,
antifungal, antiprotozoal and antiviral drugs).
[0326] Antimicrobial drugs which are preferred for incorporation
into the present composition include, for example, pharmaceutically
acceptable salts of .beta.-lactam drugs, quinolone drugs,
ciprofloxacin, norfloxacin, tetracycline, erythromycin, amikacin,
triclosan, doxycycline, capreomycin, chlorhexidine,
chlortetracycline, oxytetracycline, clindamycin, ethambutol,
hexamidine isothionate, metronidazole; pentamidine, gentamycin,
kanamycin, lineomycin, methacycline, methenamine, minocycline,
neomycin, netilmycin, paromomycin, streptomycin, tobramycin,
miconazole, and amanfadine, anti-microbial peptides including but
not limited to alpha and beta defensins, magainins, cecropins,
bactenecins and indolicidin.
[0327] Other drug moieties of use in practicing the present
invention include antineoplastic drugs (e.g., antiandrogens (e.g.,
leuprolide or flutamide), cytocidal agents (e.g., adrianycin,
doxorubicin, taxol, cyclophosphamide, busulfan, cisplatin,
a-2-interferon) anti-estrogens (e.g., tamoxifen), antimetabolites
(e.g., fluorouracil, methotrexate, mercaptopurine,
thioguanine).
[0328] The recognition moiety can also comprise hormones (e.g.,
medroxyprogesterone, estradiol, leuprolide, megestrol, octreotide
or somatostatin, thyrotropin releasing hormone, angiotensin II,
other small peptide hormones, as well as phospholipic hormones such
as Lysophosphatidic acid, platelet activating factor and
eicosanoids); muscle relaxant drugs (e.g, cinnamedrine,
cyclobenzaprine, flavoxate, orphenadrine, papaverine, mebeverine,
idaverine, ritodrine, dephenoxylate, dantrolene and azumolen);
antispasmodic drugs; bone-active drugs (e.g., diphosphonate and
phosphonoalkylphosphinate drug compounds); endocrine modulating
drugs (e.g., contraceptives (e.g., ethinodiol, ethinyl estradiol,
norethindrone, mestranol, desogestrel, medroxyprogesterone),
modulators of diabetes (e.g., glyburide or chlorpropamide),
anabolics, such as testolactone or stanozolol, androgens (e.g.,
methyltestosterone, testosterone or fluoxymesterone), antidiuretics
(e.g., desmopressin) and calcitonins).
[0329] Also of use in the present invention are estrogens (e.g.,
diethylstilbesterol), glucocorticoids (e.g., triamcinolone,
betamethasone, etc.) and progenstogens, such as norethindrone,
ethynodiol, norethindrone, levonorgestrel; thyroid agents (e.g.,
liothyronine or levothyroxine) or anti-thyroid agents (e.g.,
methimazole); antihyperprolactinemic drugs (e.g., cabergoline);
hormone suppressors (e.g., danazol or goserelin), oxytocics (e.g.,
methylergonovine or oxytocin) and prostaglandins, such as
mioprostol, alprostadil or dinoprostone, can also be employed.
[0330] Other useful recognition moieties include immunomodulating
drugs (e.g., antihistamines, mast cell stabilizers, such as
Iodoxamide and/or cromolyn, steroids (e.g., triamcinolone,
beclomethazone, cortisone, dexamethasone, prednisolone,
methylprednisolone, beclomethasone, or clobetasol), histamine
H.sub.2 antagonists (e.g., famotidine, cimetidine, ranitidine),
immunosuppressants (e.g., azathioprine, cyclosporin), etc. Groups
with anti-inflammatory activity, such as sulindac, etodolac,
ketoprofen and ketorolac, are also of use. Other drugs of use in
conjunction with the present invention will be apparent to those of
skill in the art.
[0331] When the recognition moiety is a chelating agent, crown
ether or cyclodextrin, host-guest chemistry will dominate the
interaction between the recognition moiety and the analyte. The use
of host-guest chemistry allows a great degree of
recognition-moiety-analyte specificity to be engineered into a
device of the invention. The use of these compounds to bind to
specific compounds is well known to those of skill in the art. See,
for example, Pitt et al. "The Design of Chelating Agents for the
Treatment of Iron Overload," In, INORGANIC CHEMISTRY IN BIOLOGY AND
MEDICINE; Martell, A. E., Ed.; American Chemical Society,
Washington, D.C., 1980, pp. 279-312; Lindoy, L. F., THE CHEMISTRY
OF MACROCYCLIC LIGAND COMPLEXES; Cambridge University Press,
Cambridge, 1989; Dugas, H., BIOORGANIC CHEMISTRY; Springer-Verlag,
New York, 1989, and references contained therein.
[0332] Additionally, a manifold of routes allowing the attachment
of chelating agents, crown ethers and cyclodextrins to other
molecules is available to those of skill in the art. See, for
example, Meares et al., "Properties of In Vivo Chelate-Tagged
Proteins and Polypeptides." In, MODIFICATION OF PROTEINS: FOOD,
NUTRITIONAL, AND PHARMACOLOGICAL ASPECTS;" Feeney, R. E., Whitaker,
1.R., Eds., American Chemical Society, Washington, D.C., 1982, pp.
370-387; Kasina et al. Bioconjugate Chem. 9:108-117 (1998); Song et
al., Bioconjugate Chem. 8:249-255 (1997).
[0333] In a presently preferred embodiment, the recognition moiety
is a polyaminocarboxylate chelating agent such as
ethylenediaminetetraacetic acid (EDTA) or
diethylenetriaminepentaacetic acid (DTPA). These recognition
moieties can be attached to any amine-terminated component of a SAM
or a spacer arm, for example, by utilizing the commercially
available dianhydride (Aldrich Chemical Co., Milwaukee, Wis.).
[0334] In still further preferred embodiments, the recognition
moiety is a biomolecule such as a protein, nucleic acid,
phospholipid fatty acid derivative, peptide or an antibody.
Biomolecules useful in practicing the present invention can be
derived from any source. The biomolecules can be isolated from
natural sources or can be produced by synthetic methods. Proteins
can be natural proteins or mutated proteins. Mutations can be
effected by chemical mutagenesis, site-directed mutagenesis or
other means of inducing mutations known to those of skill in the
art. Proteins useful in practicing the instant invention include,
for example, enzymes, antigens, antibodies, structural proteins,
transcription factors and receptors. Antibodies can be either
polyclonal or monoclonal. Peptides, lipids, carbohydrates and
nucleic acids can be isolated from natural sources or can be wholly
or partially synthetic in origin.
[0335] In those embodiments wherein the recognition moiety is a
protein or antibody, the protein can be tethered to a SAM component
or a spacer arm by any reactive peptide residue available on the
surface of the protein. In preferred embodiments, the reactive
groups are amines or carboxylates. In particularly preferred
embodiments, the reactive groups are the e-amine groups of lysine
residues. Furthermore, these molecules can be adsorbed onto the
surface of the substrate or SAM by non-specific interactions (e.g.,
chemisorption, physisorption).
[0336] Recognition moieties that are antibodies can be used to
recognize analytes that are proteins, peptides, nucleic acids,
lipids, phoshpolipids, lipopolysaccharides, saccharides or small
molecules such as drugs, herbicides, pesticides, infectious agents,
industrial chemicals and agents of war. Methods of raising
antibodies for specific molecules are well-known to those of skill
in the art. See, U.S. Pat. Nos. 5,147,786; 5,334,528; 5,686,237;
5,573,922; each of which is incorporated herein by reference.
Methods for attaching antibodies to surfaces are also art-known
(See, Delamarche et al. Langmuir 12:1944-1946 (1996)).
[0337] Peptides and nucleic acids can be attached to a SAM
component or spacer arm. Both naturally-derived and synthetic
peptides and nucleic acids are of use in conjunction with the
present invention. These molecules can be attached to a SAM
component or spacer arm by any available reactive group. For
example, peptides can be attached through an amine, carboxyl,
sulfhydryl, or hydroxyl group. Such a group can reside at a peptide
terminus or at a site internal to the peptide chain. Nucleic acids
can be attached through a reactive group on a base (e.g., exocyclic
amine) or an available hydroxyl group on a sugar moiety (e.g., 3'-
or 5'-hydroxyl). Polysaccharides, phospholipids, fatty acid
derivatives and other lipids can be attached via hydroxyl groups on
the sugar moiety or the lipid portion as well as via free carboxyl
or amino groups. The peptide and nucleic acid chains can be further
derivatized at one or more sites to allow for the attachment of
appropriate reactive groups onto the chain (See, Chrisey et al.
Nucleic Acids Res. 24:3031-3039 (1996)).
[0338] When the peptide or nucleic acid is a fully or partially
synthetic molecule, a reactive group or masked reactive group can
be incorporated during the process of the synthesis. Many
derivatized monomers appropriate for reactive group incorporation
in both peptides and nucleic acids are know to those of skill in
the art (See, for example, THE PEPTIDES: ANALYSIS, SYNTHESIS,
BIOLOGY, Vol. 2: "Special Methods in Peptide Synthesis," Gross, E.
and Melenhofer, J., Eds., Academic Press, New York (1980)). Many
useful monomers are commercially available (Bachem, Sigma, etc.).
This masked group can then be unmasked following the synthesis, at
which time it becomes available for reaction with a SAM component
or a spacer arm.
[0339] In other preferred embodiments, the peptide is attached
directly to the substrate (See, Frey et al. Anal. Chem.
68:3187-3193 (1996)). In a particularly preferred embodiment, the
peptide is attached to a gold substrate through a sulfhydryl group
on a cysteine residue. In another preferred embodiment, the peptide
is attached through a thiol to a spacer arm that terminates in, for
example, an iodoacetamide, chloroacetamide, benzyl iodide, benzyl
bromide, alkyl iodide or alkyl bromide. Similar immobilization
techniques are known to those of skill in the art (See, for
example, Zull et al. J. Ind Microbiol. 13:137-143 (1994)).
[0340] In another preferred embodiment, the recognition moiety
forms an inclusion complex with the analyte of interest. In a
particularly preferred embodiment, the recognition moiety is a
cyclodextrin or modified cyclodextrin. Cyclodextrins are a group of
cyclic oligosaccharides produced by numerous microorganisms.
Cyclodextrins have a ring structure that has a basket-like shape.
This shape allows cyclodextrins to include many kinds of molecules
into their internal cavity (See, for example, Szejtli, J.,
CYCLODEXTRINS AND THEIR INCLUSION COMPLEXES; Akademiai Klado,
Budapest, 1982; and Bender et al., CYCLODEXTRIN CHEMISTRY,
Springer-Verlag, Berlin, 1978).
[0341] Cyclodextrins are able to form inclusion complexes with an
array of organic molecules including, for example, drugs,
pesticides, herbicides and agents of war (See, Tenjarla et al., J.
Pharm. Sci. 87:425-429 (1998); Zughul et al., Pharm. Dev. Technol.
3:43-53 (1998); and Albers et al., Crit. Rev. Ther. Drug Carrier
Syst. 12:311-337 (1995)). Importantly, cyclodextrins are able to
discriminate between enantiomers of compounds in their inclusion
complexes. Thus, in one preferred embodiment, the invention
provides for the detection of a particular enantiomer in a mixture
of enantiomers (See, Koppenhoefer et al. J. Chromatogr. A
793:153-164 (1998)).
[0342] The cyclodextrin recognition moiety can be attached to a SAM
component, through a spacer arm or directly to the substrate (See,
Yamamoto et al., J. Phys. Chem. B 101:6855-6860 (1997)). Methods to
attach cyclodextrins to other molecules are well known to those of
skill in the chromatographic and pharmaceutical arts (See,
Sreenivasan, Appl. Polym. Sci. 60:2245-2249 (1996)).
IV. Mesogenic Layer
[0343] Any compound or mixture of compounds that forms a mesogenic
layer can be used in conjunction with the present invention. The
mesogens can form thermotropic or lyotropic liquid crystals. The
mesogenic layer can be either continuous or it can be
patterned.
[0344] Both the thermotropic and lyotropic liquid crystals can
exist in a number of forms including nematic, chiral nematic,
smectic, polar smectic, chiral smectic, frustrated phases and
discotic phases. TABLE-US-00001 TABLE 1 Molecular structure of
mesogens suitable for use in Liquid Crystal Assay Devices Mesogen
Structure Anisaldazine ##STR1## NCB ##STR2## CBOOA ##STR3## Comp A
##STR4## Comp B ##STR5## DB.sub.7NO.sub.2 ##STR6## DOBAMBC ##STR7##
nOm n=1, m=4: MBBA n=2, m=4: EBBA ##STR8## nOBA n=8: OOBA n=9: NOBA
##STR9## nmOBC ##STR10## nOCB ##STR11## nOSI ##STR12## 98P
##STR13## PAA ##STR14## PYP906 ##STR15## {overscore (n)}Sm
##STR16##
[0345] Presently preferred mesogens are displayed in Table 1. In a
particularly preferred embodiment, the mesogen is a member selected
from the group consisting of 4-cyano-4'-pentylbiphenyl,
N-(4methoxybenzylidene)-4-butlyaniline and combinations
thereof.
[0346] The mesogenic layer can be a substantially pure compound, or
it can contain other compounds that enhance or alter
characteristics of the mesogen. Thus, in one preferred embodiment,
the mesogenic layer further comprises a second compound, for
example an alkane, which expands the temperature range over which
the nematic and isotropic phases exist. Use of devices having
mesogenic layers of this composition allows for detection of the
analyte recognition moiety interaction over a greater temperature
range.
[0347] In some preferred embodiments, the mesogenic layer further
comprises a dichroic dye or fluorescent compound. Examples of
dichroic dyes and fluorescent compounds useful in the present
invention include, but are not limited to, azobenzene, BTBP,
polyazocompounds, anthraquinone, perylene dyes, and the like. In
particularly preferred embodiments, a dichroic dye of fluorescent
compound is selected that complements the orientation dependence of
the liquid crystal so that polarized light is not required to read
the assay. In some preferred embodiments, if the absorbance of the
liquid crystal is in the visible range, then changes in orientation
can be observed using ambient light without crossed polars. In
other preferred embodiments, the dichroic dye or fluorescent
compound is used in combination with a fluorimeter and the changes
in fluorescence are used to detect changes in orientation of the
liquid crystal.
[0348] In another preferred embodiment, the analyte first interacts
with the recognition moiety and the mesogenic layer is introduced
in its isotropic phase. The mesogenic layer is subsequently cooled
to form the liquid crystalline phase. The presence of the analyte
within regions of the mesogenic layer will disturb the equilibrium
between the nematic and isotropic phases leading to different rates
and magnitudes of nucleation at those sites. The differences
between the nematic and isotropic regions are clearly
detectable.
V. Patterned (Ordered) Liquid Crystals
[0349] One approach to the patterning of the mesogenic layer on
flat and curved surfaces is based on the use of patterned SAMs of
molecules to direct both the polar (away from the surface) and
azimuthal (in the plane of the surface) orientations of the
mesogenic layer. This method is simple and flexible, and any of the
recently established procedures for patterning SAMs on surfaces
(for example, microcontact printing or photo-patterning) (Talov et
al., J. Am. Chem. Soc. 115: 5305 (1993); Kumar et al., Acc. Chem.
Res. 28: 219 (1995), and references therein; Xia et al., J. Am.
Chem. Soc. 117: 3274 (1995), and references therein can be used;
Jackman et al., Science 269: 664 (1995)). Using any of these
methods, SAMs which pattern liquid crystals can be easily extended
to sizes ranging from hundreds of nanometers (Xia et al., J. Am.
Chem. Soc. 117: 3274 (1995), and references therein) to millimeters
and permit both planar (parallel to the surface) and homeotropic
(perpendicular to the surface) orientation of mesogenic layers;
methods based on the rubbing of polymer films mainly provide
manipulation of the in-plane alignment of mesogenic layers and
cannot homeotropically align mesogenic layers. One class of useful
SAMs has surface energies (.about.19 mJ/m.sup.2) about half those
of films of polyimides used for alignment of liquid crystals;
low-energy surfaces are less prone to contamination by molecular
adsorbates and dust particles than are high-energy ones. Because
SAMs can also be patterned on non-planar surfaces (Jackman et al.,
Science 269: 664 (1995)), patterned mesogenic structures formed
with SAMs can be replicated on curved surfaces.
[0350] The capacity to pattern mesogenic layer orientations on
nonplanar surfaces provides procedures for the fabrication of
tunable hybrid diffractive-refractive devices. For example, devices
based on combinations of diffractive and refractive optical
processes permit aplanatic or chromatic correction in lenses,
spectral dispersion, imaging from a single optical element, and
other manipulations of light (Resler et al., Opt. Lett. 21, 689
(1996); S. M. Ebstein, ibid., p. 1454; M. B. Stem, Microelectron.
Eng. 32, 369 (1996): Goto et al., Jpn. J. Appl. Phys. 31, 1586
(1992); Magiera et al., Soc. Photo-Opt. Instrum. Eng., 2774, 204
(1996)). The capability to pattern mesogenic layers on curved
surfaces also provides routes for the fabrication of displays with
wide viewing angles.
[0351] In a presently preferred embodiment, the tunable hybrid
device permits the manipulation of light. In a further preferred
embodiment, the device is a refractive-diffractive device. In a
still further preferred embodiment, the device permits imaging from
a single optical element. In yet another preferred embodiment, the
device permits aplanatic or chromatic correction in lenses. In
still another preferred embodiment, the device allows for spectral
dispersion.
[0352] In another presently preferred embodiment, the SAM is
layered on a material suitable for use as an electrode. In a
preferred embodiment, the material is a metal film. In a further
preferred embodiment, the metal film is a gold film.
[0353] The patterned mesogenic layers of the present invention can
be tuned by the use of electric fields. In a preferred embodiment,
the electric field is used to reversibly orient the mesogenic
layer. In a still further preferred embodiment, the electric field
is applied either perpendicular to, or in the plane of, the surface
of the mesogenic layer. In another preferred embodiment, the
oriented mesogenic layer modulates the intensity of light
diffracted from the layer.
[0354] The discussion above, concerning SAM components, SAM
components with reactive groups and SAM components bearing
recognition moieties is equally applicable in the context of this
aspect of the invention. Thus, the constituents of the SAM can be
chosen from any of a wide variety of appropriate molecules. In a
presently preferred embodiment, the SAM comprises mixtures of
R.sup.21CH.sub.2(CH.sub.2).sub.14SH and
R.sup.31CH.sub.2(CH.sub.2).sub.15SH, where R.sup.21 and R.sup.31
are independently members elected from the group consisting of
hydrogen, reactive groups and recognition groups, as discussed
above.
VI. Analytical Devices
[0355] The device of the present invention can be of any
configuration that allows for the contact of a mesogenic layer with
an organic layer or inorganic layer (e.g., metal, metal salt or
metal oxide). The only limitations on size and shape are those that
arise from the situation in which the device is used or the purpose
for which it is intended. The device can be planar or non-planar.
Thus, it is within the scope of the present invention to use any
number of polarizers, lenses, filters, lights, and the like to
practice the present invention.
[0356] Although many changes in the mesogenic layer can be detected
by visual observation under ambient light, any means for detecting
the change in the mesogenic layer can be incorporated into, or used
in conjunction with, the device. Thus, it is within the scope of
the present invention to use lights of various sources,
microscopes, spectrometry, electrical techniques and the like to
aid in the detection of a change in the mesogenic layer.
[0357] In those embodiments utilizing light in the visible region
of the spectrum, the light can be used to simply illuminate details
of the mesogenic layer. Alternatively, the light can be passed
through the mesogenic layer and the amount of light transmitted,
absorbed or reflected can be measured. The device can utilize a
backlighting device such as that described in U.S. Pat. No.
5,739,879, incorporated herein by reference. Light in the
ultraviolet and infrared regions is also of use in the present
invention.
[0358] Thus, in another aspect, the invention provides a method for
varying the optical texture of a mesogenic layer comprising a
haloorganosulfur. The optical texture of the mesogenic layer is
controlled by selecting the halogen content of the
haloorganosulfur. The following sections describe a number of novel
devices according to the present invention.
[0359] A. Coated Slides
[0360] In some embodiments, the assay devices of the present
invention are produced by coating the various assay formats herein
on a substrate through which light can pass (e.g., transparent and
opaque substrates). The present invention is not limited to the use
of any particular type of substrate. Indeed, the use of a variety
substrates is contemplated, including, but not limited to silica
and quartz substrates. In some embodiments, the substrates have the
same dimensions as commercially available slides (e.g., microscope
slides), while in other embodiments, the dimensions of the
substrates are varied to correspond to the end use or to the type
of machine used to analyze the substrate (e.g., a plate
reader).
[0361] In preferred embodiments, areas of anisotropic order (i.e.,
analytic zones) are created on the slide prior to or after coating
of the assay format on the slide. In either case, the area of
anisotropic order orients liquid crystals. In preferred
embodiments, the area of anisotropic order occupies substantially
all of the substrate surface, while in other embodiments, discreet
areas of anisotropy are formed. Methods of creating such areas,
which are described in more detail elsewhere herein, include, but
are not limited to, oblique deposition of metals such as gold,
rubbing the substrate surface with a soft material such a cloth or
an abrasive material, nano-abrasion with a gas stream containing
abrasive particles (e.g., silica), etching with liquid, and
immobilization of proteins on the substrate following by
rubbing.
[0362] The present invention is not limited to any particular
number of areas of anisotropic order. Indeed, the number of such
areas, or analytic zones, can vary from 1 to a plurality zones
(e.g., from 1 to 1534 zones). In some embodiments, the analytic
zones correspond to the dimensions and spatial distribution of
standard commercial multiwell plates. It is contemplated that this
distribution of analytic zones allows analysis with commercial
multiwell plate readers. In other embodiments, the analytic zones
can be smaller or larger than the dimensions of wells in standard
multiwell plates. In further embodiments, the analytic zones
correspond to dimensions at least equal to the field of view of a
microscope objective (e.g., a 5.times., 10.times., or 20.times.
objective). It is contemplated that this configuration facilitates
integration with automated microscopy systems.
[0363] In some preferred embodiments, substrates upon which areas
of anisotropy have been created are coated with a coating material.
In some embodiments, the coating is accomplished through use of
commercially known procedures such as silk screen printing,
flexographic printing, microcontact printing, seriagraphic
printing, ink-jet printing, intaligo printing, off-set printing,
Heidelberg press printing, and thermal laser printing. The present
invention is not limited to the use of any particular coating
material. Indeed, the use of a variety of coating materials is
contemplated, including hydrophobic coating materials, hydrophilic
coating materials, coating materials containing electroconductive
elements, and coating materials containing electroinsulating
materials. Specific examples of such materials include, but are not
limited to, polyurethane, polyethylene, GORTEX
(polytetrafluoroethylene), DACRON (polyethylene tetraphthalate),
TEFLON (polytetrafluoroethylene), PVDF (polyvinylidene difluoride),
proteins such as BSA, latex, polystyrene, silicone, cellulose, and
nitrocellulose. In preferred embodiments, the coating material is
applied to form the assay formats described in more detail
elsewhere herein. In still further embodiments, the coating
material is applied so as to create microfluidic channels (see,
e.g., U.S. Pat. No. 6,509,085, which is hereby incorporated by
reference). Where necessary, the coating material is cured (e.g.,
by UV irradiation or infrared radiation) following application to
the substrate.
[0364] The thickness of the coating material applied can vary. In
some preferred embodiments, the thickness is from about 1
micrometer to about 100 micrometers, in more preferred embodiments,
the thickness is from about 5 micrometer to about 35 micrometers,
and in most preferred embodiments, the thickness is from about 20
micrometers to about 25 micrometers.
[0365] In further preferred embodiments, a pigment is included in
the coating material so that non-coated areas transmit light while
coated areas substantially block the transmission of light. The
present invention is not limited to the use of any particular
pigment. Indeed, the use of a variety of pigments is contemplated,
including black, red and blue pigments.
[0366] In some embodiments, a second untreated or treated substrate
(e.g., a glass slide) is placed on the coated slide prior to
curing. Pressure is then applied to the substrates so that upon
curing, the two substrates adhere to one another. In some
embodiments, the pressure is applied by transporting the paired
substrates through a roller. The paired substrates are then cured
to produce an optical cell.
[0367] In still further embodiments, the coating material comprises
a pressure sensitive adhesive. In some embodiments, the coating
material comprising a pressure sensitive adhesive defines one to a
plurality of analytic zones. In some embodiments, the coating
material comprising a pressure sensitive adhesive further comprises
a pigment. In preferred embodiments, the pigment is black. In still
further embodiments, the coating material comprising a pressure
sensitive adhesive comprises a polymeric coating material (e.g.,
acrylic or TEFLON polymer) to provide a hybrid coating material. In
some preferred embodiments, the pressure sensitive adhesive is low
tack.
[0368] In other embodiments, the pressure sensitive adhesive is
printed onto the substrate after printing with another coating
material. The pattern of pressure sensitive adhesive printed onto
the substrate can have a variety of configurations. For example, in
some embodiments, the pressure sensitive adhesive is printed in a
rectangular outline around an analytic zone. In other embodiments,
the pressure sensitive adhesive is applied in a plurality of points
on the perimeter of the substrate. In still other embodiments, the
pressure sensitive adhesive is applied only to the second untreated
substrate that is used to cover the first substrate comprising the
analytic zone(s). In some embodiments, the pressure sensitive
adhesive is a double-sided tape comprises a removable backing that
can be removed prior to assembly of the optical cell. In other
embodiments, the double sided tape does not comprise a removable
backing.
[0369] As described above, in preferred embodiments the coating
material is applied to create microfluidic channels. In some
embodiments, the microfluidic channels allow the fluidic movement
of samples placed in an entry port on the substrate to an analytic
zone. In some preferred embodiments, the top substrate comprises
reservoirs for receiving samples, rinse solutions, or liquid
crystal solutions. The microfluidic channels are in fluid
communication with the reservoirs and terminate in outlet ports. In
preferred embodiments, the microfluidic channels are of a dimension
such that small variations in chamber pressure will not appreciably
effect flow rates.
[0370] Motive force for delivery of fluids (e.g., samples, wash
solution, or liquid crystals) via the microfluidic channels is
supplied in a variety of ways, including, but not limited to,
syringe pumps, disposable Medicell pumps, placement of wicking
materials at the outlet port, drop pumping (i.e., movement from
small drop to large drop), placement over a fluid column over an
inlet port, placement of positive atmospheric pressure at inlet
ports and/or placement of negative atmospheric pressure at outlet
ports. It is contemplated that positive pressure can be delivered
via use of a substantially sealed chamber in conjunction with an
air pump or bottled gas (e.g., nitrogen gas). Likewise, negative
pressure can be delivered via use of a substantially sealed chamber
in conjunction with a vacuum pump. A vacuum may be applied by a
variety of methods, including, but not limited to, use of running
water and a venturi valve, AC or DC pumps, spring loaded negative
syringe pump or deformable sphere with elasticity such as a bulb
syringe pipettor.
[0371] In some embodiments, assay devices comprising a substrate
having at least one microchannel therein are utilized to quantify
the amount of an analyte in a sample. It must be noted that these
embodiments are not limited to assay devices fabricated in any
particular manner. For example, in some embodiments, the assay
devices comprising microchannels are fabricated by printing, while
in other embodiments, the assay devices comprising microchannels
are fabricated by micromolding or lithography. In some embodiments,
the microchannel comprises at least one surface that orients a
liquid crystal. Such surfaces may be fabricated by a variety means,
including, but not limited to, nanoabrasion, rubbing, and oblique
deposition of metals. In further preferred embodiments, the
microchannel, including the surface that orients a liquid crystal,
is decorated with a recognition moiety. Methods for attaching
recognition moieties are describes in detail above. As needed, the
substrate also preferably includes reservoirs and ports for
introducing samples, assay reagents (e.g., mesogens) and wash
solutions into the microchannel. In each case, the reservoir or
port is fluidically connected to the relevant microchannel.
[0372] In operation, a sample suspected of containing an analyte is
allowed to flow through the microchannel under conditions where
analytes present in the sample can bind to the recognition moiety.
Mesogens are then applied to microchannel and the substrate is
analyzed for the presece or absence of liquid crystal ordering.
Analysis of the liquid crystal can be be conducted by any of the
means described in more detail herein, including, but not limited
to, a microscope equipped with polarizing lenses and a plate
reader. It is contemplated that areas where there is recognition
moiety-substrate binding will be identified by a lack of order in
the liquid crystal, while areas in which there is no binding will
be identifiable by the presence of an ordered liquid crystal.
Moreover, because the sample is allowed to flow along the length of
the microfluidic channel, binding is greater at the point entry
into the channel as opposed to the distal end of the channel. In
other words, the amount of analyte in the sample is depleted as the
sample flows along the channel. This effect may be used to quantify
the amount of analyte in the sample, which is proportional the to
length of the microchannel over which liquid crystal order is
disrupted.
[0373] In some embodiments, the substrate comprises a plurality of
microchannels so that serial dilutions of the sample may be applied
in parallel to provide accurate quantitation of the amount of
analyte in a sample. In other embodiments, test samples are
compared to control samples by running the samples in parallel in
separate microfluidic channels. The difference in areas of the
microchannels over which liquid crystal disorder is disrupted is
proportional to the amount of analyte in the test sample. Example 5
provides an example of this method.
[0374] B. Plate Readers
[0375] The present invention contemplates the use of plate readers
to detect changes in the orientation of mesogens upon binding of an
analyte. The plate readers may be used in conjunction with the LC
assay devices described herein and also with the lyotropic LC
assays described in U.S. Pat. No. 6,171,802, incorporated herein by
reference. In particular, the present invention includes methods
and processes for the quantification of light transmission through
films of liquid crystals based on quantification of transmitted or
reflected light.
[0376] The present invention is not limited to any particular
mechanism of action. Indeed, an understanding of the mechanism of
action is not required to practice the present invention.
Nevertheless, it is contemplated that ordered nanostructured
substrates impart order to thin films of liquid crystal placed onto
their surface. These ordered films of liquid crystal preserve the
plane of polarized light passed through them. If the liquid crystal
possesses a well-defined distortion--such as a 90 degree twist
distortion--then the liquid crystal will change the polarization of
the transmitted light in a well-defined and predictable manner. It
is further contemplated that ordered films of liquid crystal
differentially absorb (relative to randomly ordered films of liquid
crystal) specific wavelengths of light.
[0377] In some embodiments of the present invention, the amount of
target molecule or molecules bound to a sensing surface of an LC
assay device (i.e., a surface decorated with a recognition moiety)
increases with the concentration/amount of target molecule present
in a sample in contact with a sensing surface. In preferred
embodiments, the amount of bound target molecule changes the degree
of disorder introduced into a thin film of liquid crystal that is
ordered by nature of the underlying nanostructured sensing
substrate. In some embodiments, the degree of order present in a
thin film of liquid crystal determines the amount of light
transmitted through the film when viewed through crossed polars. In
other embodiments, the degree of order present in a thin film of
liquid crystal determines the amount of light transmitted through
the film when viewed using specific wavelengths of light. In still
other embodiments, the reflectivity of an interface to a liquid
crystal can change with the orientation of the liquid crystal.
Therefore, in some embodiments, oblique illumination of the LC
assay device is utilized with collection and analysis of reflected
light being performed.
[0378] Accordingly, the present invention contemplates the use of
plate readers to detect light transmission through an LC assay
device when viewed through cross or parallel polars, the
transmission of light through an LC assay device illuminated with a
suitable wavelength of light, or reflection of light (i.e.,
polarized light or non-polarized light of specific wavelengths)
from the surface of an LC assay device. In particularly preferred
embodiments, plate readers are provided that are designed to be
used in conjunction with LC assays. Other embodiments of the
present invention provide modified commercially available readers
such as ELISA readers and fluorometric readers adapted to read LC
assays.
[0379] Non-limiting examples of the plate readers adapted for use
in the present invention may be found in WO 03/019,191, which is
herein incorporated by reference. In preferred embodiments, two
polarizing filters are placed in the optical pathway of the plate
reader in a crossed or parallel polar configuration. One filter is
placed on the emission side of the light path prior to passing
through the sample while a second polarizing filter is placed on
the analyzing side of the light path after light has passed through
the sample but before it is collected by a sensing devise such as a
photodiode, a photomultiplier or a CCD. An ordered liquid crystal
in the LC assay device preserves the plane of polarization and the
amount of light reaching the light gathering and sensing device is
markedly attenuated when viewed through cross polars or markedly
accentuated when viewed through parallel polars. Random
organization of the liquid crystal of the LC assay device does not
preserve the plane of polarization and the amount of light, passing
through crossed polars, reaching the light collecting and sensing
device is relatively unaffected. Accordingly, in preferred
embodiments, the binding of target molecules by the recognition
moieties in an LC assay device introduces disorder into the
overlying thin film of LC that increases with the amount of bound
target molecule. In other preferred embodiments, the presence of a
cell on an ordered region introduces disorder into the overlying
LC. In other embodiments, specific bandpass filters are placed on
the excitation side of the light path before light encounters the
sample as well as on the emission side of the light path (after
light has passed through or is reflected by the sample but before
reaching the light collecting and sensing device (e.g., photodiode,
photomultipier or CCD). This configuration is useful for
quantifying both reflected and transmitted light.
[0380] The present invention also provides LC assay devices
configured for use in the plate reader. In preferred embodiments,
the LC assay device is formatted or arrayed according to the
dimensions of standard commercially available plates (e.g., 24, 96,
384 and 1536 well plates). In some embodiments, the LC assay device
comprises a surface (e.g., a substrate with recognition moieties
attached) that is of proper external dimensions to be accurately
fit into a given commercial reader. In some embodiments, the
substrate contains uniform topography across its surface, in other
embodiments, the substrate contains a gradient of topographies
across its surface whereas in yet other embodiments regions of
topography are limited to discrete regions that correspond to areas
read out by commercial plate readers. The recognition moieties may
be arrayed on the substrate surface in any appropriate
configuration. For example, in some embodiments, a single binding
antibody, polypeptide or protein, phospholipid, polynucleotide, or
carbohydrate is evenly distributed across the surface. In other
embodiments, a single binding antibody, polypeptide or protein,
phospholipid, polynucleotide, or carbohydrate is distributed across
the surface in a gradient. In still other embodiments, a single
binding antibody, polypeptide or protein, phospholipid,
polynucleotide, or carbohydrate is arrayed in discrete spots that
are in proper alignment to be read by the commercial reader. In
still further embodiments, a variety of different single binding
antibodies, polypeptides or proteins, phospholipids,
polynucleotides, or carbohydrates are arrayed in spots that are in
proper alignment to read by the commercial reader. In still other
embodiments, a variety of different single binding antibodies,
polypeptides or proteins, phospholipids, polynucleotides, or
carbohydrates are arrayed in zones along the surface. Each zone
contains a different polypeptide or protein, cell receptor or
binding sequence. The plate is read at predetermined points (e.g.,
spots corresponding to the location of the wells in a 96 well
plate). By designing the zones to the configuration of the plate
reader it will be known which "well" readings correspond to each
zone. In other embodiments, specifically designed well inserts (to
be used with commercially available 6, 12, 24, 96, 384 or 1536 well
plates) containing the nanostructured sensing surface will be used
in conjunction with commercially available multiwell plates for
performing the LC assays.
[0381] In some embodiments, plate readers are utilized to identify
a reaction front in a microfluidic channel. In these embodiments, a
substrate is provided in which the position of one or more
microfluidic channels in the substrate corresponds to the position
of a row of wells in a commercial multiwell plate. The plate reader
is then utilized to read discreet areas along the microfluidic
channel. It is contemplated that this method will allow detection
of how far along a microchannel that a given reaction (i.e.,
binding of an analyte to a recognition moiety) occurs. The distance
of the reaction can then be used to quantify the amount of analyte
present. It will be recognized that the spatial resolution of the
readout can be increased by reading more areas along the
microfluidic channel. This can be accomplished by utilizing plate
readers configured to read out 1534 well plates.
[0382] Additionally, some microplate readers have a scanning mode
wherein the reading element performs a scan of assigned diagnostic
regions corresponding to well locations in a multiwell plate. The
present invention contemplates the use of such readers to read out
multiple locations along a microfluidic channel so that a reaction
front is identified. Alternatively, the scanning reader is utilized
to scan the length of a microfluidic channel to identify a reaction
front. Likewise, a plate reader can be used to measure a linear
area of response on the surface of a substrate exposed to an
analyte. In this embodiment, the reaction is not confined to a
microfluidic channel, but instead is allowed to proceed across one
or more areas on a substrate surface. Multiple analytic zones
programmed into the plate reader are then read out to determine the
extent of the one or more areas over which a reaction (e.g.,
disruption of liquid crystal order by migration of cells) has
occurred. Software can be modified to optimize both the location
and movement of the sensing elements of the plate reader as well as
subsequent analysis of the biophotonic output. For example, the
sensing elements are programmed to obtain multiple discreet
readings or continuous linear scans from predetermined analytic
zones currently employed by commercial plate readers (e.g.,
corresponding to well locations of 24, 96, 384 or 1536 plates) or
could be programmed to obtain readings from novel locations that
correspond to novel plate designs for use with the assays described
in detail in this document. It will be recognized that these
devices and methods are not limited to use with liquid crystal
assays, but instead are broadly applicable to different assays such
a fluorescent, colorimetric, and densitometric assays.
[0383] It will also be recognized that the present invention
provides an assay system comprising a plate reading device and an
LC assay device, wherein the plate reading device and LC assay
device are configured so that light provided from the plate reading
device which is passed through or reflected from at least one
surface of the LC assay device is detected by a detection unit of
the plate reading device. Suitable detecting units include CCDs,
photodiodes and photomultiplier tubes.
[0384] Commercially available plate readers that may be modified
according to the present invention include, but are not limited, to
those available from Nalge Nunc International Corporation
(Rochester, N.Y.), Greiner America, Inc. (Lake Mary, Fla.), Akers
Laboratories Inc., (Thorofare, N.J.), Alpha Diagnostic
International, Inc. (San Antonio, Tex.), Biotek Instruments, Inc.,
(Winooski, Vt.), Tecan U.S. (Durham, N.C.), and Qiagen Inc.
(Valencia, Calif.).
[0385] 3. Substrate Holder for Use with Multiwell Plate Readers
[0386] In some embodiments, the present invention provides
substrate holders for use with multiwell plate readers. In
preferred embodiments, the dimensions of the slide holder
correspond to the dimensions of commercial multiwell plates so that
the substrate (e.g., a slide or optical cell made from slides) can
be placed in the holder and the holder placed in a multiwell plate
reader. In some embodiments, the substrate holder is configured to
accept a plurality of substrates (e.g., 2-4 substrates). Once the
substrate holder containing the substrate(s) is placed in plate
reader, the analytical zones can be read by the plate reader.
Accordingly, in preferred embodiments, the individual substrates
are held in such a position such that the analytic zones of the
substrates correspond to the spatial location of wells in
commercial multiwell plates. The substrate holder can be
constructed from a variety of materials, including, but not limited
to, stainless steel, titanium, aluminum, aluminum alloys, polymeric
materials such as plexiglass or polycarbonate, wood, and glass.
[0387] One embodiment of an assay substrate holder (100) of the
present invention is depicted in FIG. 48. The assay substrate
holder (100) comprises a support surface (200). In preferred
embodiments, the dimensions of the support surface (200) are
substantially similar to the dimensions of a commercial multiwell
plate. In other words, the footprint of the support surface (200)
is substantially similar to the footprint of a commercial multiwell
plate. In further preferred embodiments, the support surface (200)
has at least one cutout (300) therein into which an assay substrate
(400) can be inserted. In the embodiment shown, the assay substrate
holder accommodates 4 assay substrates, one of which is shown
inserted into the substrate holder. Preferably, the dimensions of
the cutout are such that an open area (500) is provided along the
side an inserted assay substrate (400) to facilitate easy insertion
and removal of the assay substrate from the assay substrate holder.
The assay substrate (400) shown in FIG. 48 is a printed liquid
crystal assay substrate comprising a plurality of assay regions
(600) that orient crystals which are defined by a coated surface
(700)
[0388] It will be recognized that the substrate holder of the
present invention is not limited to use with the liquid crystal
devices of the present invention. Indeed, the substrate holder
finds use in a variety of assay formats, including, but not limited
to, calorimetric, fluorimetric, and chemiluminescent assay formats.
Thus, analytic zones of the substrate can be configured for use
with each of these different assay formats.
[0389] 4. Handheld Viewer for Use with Liquid Crystal Assay
Devices
[0390] In some embodiments, the present invention provides a
handheld viewer for use in conjunction with the liquid crystal
assay devices of the present invention. In preferred embodiments,
the hand held viewer comprises an ocular loupe (e.g., an 8.times.
or 10.times. loupe) with a holder that allows placement of the
assay device at the focal point of the loupe. In some preferred
embodiments, the slide holder further comprises a white diffusing
screen that allows for uniform illumination of analytic zones on
the substrate. In still further embodiments, the loupe comprises a
reticule that allows the user to measure the distance of a reaction
(e.g., the distance a reaction occurs along a microfluidic
channel). In further preferred embodiments, the holder allows
movement of the substrate under the focal point of the loupe so
that different analytic zones can be viewed.
VII. Cell Assays
[0391] The following sections further describe various embodiments
of the present invention. The present invention is not intended to
be limited however to the following embodiments. Indeed, one
skilled in the art will be readily able to apply and adapt the
disclosed embodiments directed to detecting cell migration,
adhesion, proliferation, and cytological features for use in
applications in other fields and disciplines.
[0392] A. Cell Adhesion and Proliferation Assays
[0393] The present invention contemplates a number of embodiments
useful for employing liquid crystals for determining the number of
cells present on a substrate. It is contemplated that these
embodiments will allow performing cell adhesion and cell
proliferation assays. In preferred embodiments, the cell adhesion
and cell proliferation assays are performed on nanostructured
substrates or substrates onto which structure is introduced by the
seeding or decoration of the surface with nano- to micro-sized
particles that order the LC layers applied thereto.
[0394] While not being limited to any particular mechanism or
theory, the present invention contemplates that in these assays,
the area occupied by a cell is roughly equivalent to a planar
surface as it would not orient a LC placed over its surface.
Therefore, the number of cells present on a substrate will be
proportional to the surface area covered by the cells. It is
contemplated that the exact relationship between surface area
occupied by a given number of cells is dependent on the cell type
and line used and the culture conditions employed.
[0395] In some preferred embodiments of the present invention, the
area occupied by cells attached to an ordered substrate is
characterized by a non-aligned (i.e., disordered) area of the
liquid crystal. The area occupied by cells is thus quantifiable
using a variety of methods. In preferred embodiments, the assay
device is analyzed using cross polars in conjunction with a CCD,
photodiode or photomultiplier. With this system, the increased
amount of light transmitted through the disordered areas can be
analyzed. In further preferred embodiments, specific wavelengths of
light are used in conjunction with thin films of liquid crystals to
report the area occupied by cells.
[0396] In still other preferred embodiments of the invention, a
liquid crystalline substrate is prepared such that the presence of
a cell attached to the surface of the liquid crystalline substrate
leads to a change in the optical appearance of the substrate.
[0397] Substrates suitable for the cell adhesion, quantification,
proliferation and migration assays include, but are not limited to,
substrates having rubbed protein surfaces, rubbed polymeric
surfaces (e.g., tissue culture polystyrene), ordered polymeric
substrates formed by micromolding of lithographically created
masters, oblique deposition of gold films, and nano- to micro-sized
particles seeded onto the surface that are ordered upon initial
deposition using a nanostamper or negative nanostamper or
particulate matter that is randomly seeded onto a surface and
subsequently ordered by motive forces, exemplified by, but not
limited to electric fields, magnetic fields and fluid flow. An
additional substrate suitable for cell adhesion and proliferation
assays is a liquid crystalline substrate. The liquid crystalline
substrate is preferably prepared from a low molecular weight liquid
crystal, a polymeric liquid crystal, a lyotropic or thermotropic
liquid crystal, or a composite of liquid crystal and polymer,
including biological polymers such as those that comprise the
extracellular matrix.
[0398] In some particularly preferred embodiments, a biological
moiety is covalently or noncovalently associated with the surface
of the substrate. Suitable biological moieties include, but are not
limited to, sugars, proteins (e.g., extracellular matrix proteins
such as collagen, laminins, fibronectin, vitronectin, osteopontin,
thromospondin, Intercellular adhesion molecule-1 (ICAM-1), ICAM-2,
proteoglycans such as chondroitin sulfate, von Willebrand factor,
entactin, fibrinogen, tenascin, Mucosal adressin cell adhesion
molecule (MAdCAM-1), C3b, and MDC
(metalloprotease/disintegrin/cysteine-rich) proteins), nucleic
acids, specific receptors and cell receptor recognition sequences
(e.g., cadherein, immunoglobulin superfamily, selectin, mucin and
integrin binding sequences such as RGD, EILDV, LDV, LDVP, IDAP,
PHSRN, SLDVP, GRGDAC, and IDSP,)). In some embodiments, these
biological moieties are associated with a substrate or surface that
is ordered. In other embodiments, a surface or substrate with which
biological moieties are associated is ordered by a method such as
rubbing. It is contemplated that using rubbed protein/peptide
substrate surfaces in the cell adhesion, migration, contraction and
proliferation embodiments of the present invention allows
researchers to investigate the impact of these constituents and to
optimize assay conditions. For example, it is contemplated that the
use of rubbed protein substrates will promote the adhesion of
seeded cells and also promote cell function (e.g., such as
adhesion, contraction, proliferation and migration). However, in
some embodiments, it may be desirable to study cell function
independent of the interaction of the rubbed protein substrates,
thus, some embodiments employ polymeric substrates. Still other
embodiments of the present invention provide substrates that
combine attached protein/peptide moieties with non-biological forms
of substrate functionalization and fabrication such as oblique
deposition of gold and micromolded surfaces.
[0399] Some embodiments of the cell adhesion and proliferation
assays of the present invention provide a plurality of distinct
assay regions that allow for replicates of experimental conditions
and controls to be run simultaneously. In still other preferred
embodiments, the assay devices of the present invention are
designed to have a footprint that is compatible with standard
commercial plate readers (e.g., 24, 96, 384, 1536 etc., well
plates). In still some other embodiments, simple nanostructured
inserts are provided for use with commercial plates and plate
readers.
[0400] B. Cell Migration Assays
[0401] Certain embodiments of the present invention provide assays
for qualitatively and/or quantitatively determining the migration
(e.g., random movement as well as attraction or repulsion) of cells
on a substrate under control conditions and in response to one or
more compounds of interest. In particular, the present invention
contemplates, as described more fully below, a variety of assay
formats optimized for distinguishing the positive, neutral or
negative chemotactic and chemokinetic effects of one or more test
compounds on cells of interest.
[0402] In some embodiments, the present invention provides cell
invasion assays. It is contemplated that these assays are useful as
an indication of neoplastic transformation and relative
aggressiveness (invasiveness) of a tumor type. These in vitro
assays are used to establish the effectiveness of therapeutic
agents in preventing/minimizing invasion. Some preferred
embodiments employ the use of nanostructured substrates in
combination with extracellular matrices. FIG. 5 demonstrates a
design whereby invasion of the matrix (100) results in a loss of
cells from the adjacent nanopatterned region (200) that would
report the relative number of cells present. The decrease in cell
number on the patterned substrate is indicative of successful
invasion of the adjacent matrix.
[0403] In some preferred embodiments, the extent of invasion of the
ECM by placement of the liquid crystals on the ECM is read out. The
present invention is not limited to any particular mechanism of
action. Indeed, an understanding of the mechanism of action is not
necessary to practice the present invention. Nevertheless, the
process of invasion of the cells into the ECM leads to a change in
the structure of the ECM that is reflected in the orientations of
liquid crystals placed on to the surface. In a still further
preferred embodiment of the invention, the ECM is prepared with a
slightly anisotropic structure such that it uniformly orients the
LC in the absence of invasion of the ECM by cells. Changes to the
structure of the ECM caused by the invaded cells, leads to a
disruption of the uniform orientation of the LC. In other
embodiments of the invention, the process of invasion of the cells
into the ECM leads to the introduction of anisotropic structure
that is reflected in an increase in the order of LC placed onto the
surface.
[0404] In still other embodiments of the present invention,
extracellular matrices with nanopatterned surfaces that align
liquid crystal films are provided. Referring to FIG. 6, cells are
seeded onto the right hand surface only (100). Invasion of the ECM
(200) (that is rubbed, stamped, molded or decorated with aligned
nano- to micro-sized particles on its surface such that it aligns
LC placed on its surface (300)) by cells (400) results in a change
in light transmission through a LC film placed on its surface in
the test areas (e.g., where cells are initially seeded and in the
ECM). In FIG. 6 it can be appreciated that invasion of the ECM
(200) will cause changes in the alignment of LC mesogens in both
the initial seeding region (100) and in the ECM (100). Changes in
the initial seeding region (100) occur due to a decrease in cells
on its surface thus providing a greater surface area for aligning
LC mesogens. Changes in LC mesogen orientation in the ECM (200)
occur due to subtle changes in the matrix caused by cell invasion
that will be translated to the nanopatterned surface and
subsequently in the mesogens contained in the thin film of LC
placed on its surface.
[0405] It is contemplated that this embodiment may also be employed
in studies of cell biomechanics where subtle changes in surface
mechanics caused by processes exemplified by, but not limited to,
cell adhesion, migration and contraction are reported by
alterations in LC orientation that are observable by viewing with
polarized light and the appropriate use of filters and by the use
of certain wavelengths of light.
[0406] In another embodiment of the invention, hybrid
three-dimensional matrices composed of ordered LC and of
extracellular matrix (ECM) constituents are provided that would
support cell function upon or within the matrix. In preferred
embodiments, the hybrid matrix is formed by gelling an admixture of
constituents (singly or together) exemplified by, but not limited
to, mesogens, sugars, proteins (e.g., extracellular matrix proteins
such as collagen, laminin, fibronectin, vitronectin, osteopontin,
thromospondin, Intercellular adhesion molecule-1 (ICAM-1), ICAM-2,
proteoglycans such as chondroitin sulfate, von Willebrand factor,
entactin, fibrinogen, tenascin, Mucosal adressin cell adhesion
molecule (MAdCAM-1), C3b, and MDC
(metalloprotease/disintegrin/cysteine-rich) proteins), nucleic
acids, specific receptors or cell receptor recognition sequences
(e.g., cadherein, immunoglobulin superfamily, selectin, mucin and
integrin binding sequences such as RGD, EILDV, LDV, LDVP, IDAP,
PHSRN, SLDVP, GRGDAC, and IDSP). In preferred embodiments, the gel
process is conducted while applying an orienting electric field.
This results in a matrix with aligned mesogens that are stable
after gelling. It is contemplated that this gelling procedure also
orients the other matrix constituents (depending on their relative
charge and asymmetry of charge distribution).) The oriented hybrid
composite can be prepared by using electric fields, magnetic
fields, or by mechanical shearing of the composite. In some
embodiments, commercially available basement membrane-like
complexes (e.g., Matrigel.TM., which is harvested from a
transformed cell line (EHS)) are used as the ECM constituent
admixed with the liquid crystalline species. The liquid crystals
can be thermotropic or lyotropic liquid crystals. If lyotropic
liquid crystals, then preferred mesogens include non-membrane
disrupting surfactants, and discotic mesogens that are not membrane
disrupting.
[0407] In some preferred embodiments, cells are seeded adjacent to
the matrix as illustrated in FIG. 6 or cells are seeded on the
surface of the matrix and invasion of the matrix by the cells is
indicated by a change in LC orientation.
[0408] In a preferred embodiment of the invention, a matrix is
prepared such that it possesses an anisotropic structure. This
anisotropic structure is induced by one of a number of methods that
will be evident to those skilled in the art, including but not
limited to mechanical shear, and the use of electric and magnetic
fields. The presence of the anisotropic structure will lead to
anisotropic optical properties of the matrix. These anisotropic
optical properties can include birefringence and dichroism. The
presence of invaded cells is detected by a change in the
anisotropic optical properties of the matrix. These can be
determined by using polarized light and an analyzer or
monochromatic and/or polarized light.
[0409] Referring again to FIG. 7, in some embodiments cells are
seeded on the right initially. The loss of cells from this surface
as they invade the matrix would be evident as well as their
invasion causing a change in LC orientation in the hybrid (LC-ECM)
matrix on the left. This hybrid matrix could also be used in
conjunction with a planar (i.e., non-orienting) or opaque
substrate.
[0410] In the embodiment depicted in FIG. 7, the cells are seeded
on the substrate on the right and a change in the hybrid matrix on
the left will occur with invasion of cells that will manifest as a
change in mesogen orientation embedded within the matrix. It can be
seen that the region in which cells are initially seeded is a
nanostructured substrate that aligns mesogens in the LC film and
will therefore report the presence and relative number of cells. As
the cells invade the hybrid matrix on the left a decrease in cell
number on the right will be reported simultaneous with a change in
the hybrid matrix caused by the cellular invasion. In some
embodiments a chemotactic gradient will be supplied to the
cells.
[0411] In other embodiments (depicted in FIG. 8) the cell seeding
region comprises a substrate that is opaque to light or is simply
not structured as to cause alignment of liquid crystal mesogens. In
this embodiment, the presence of cells and their subsequent
decrease in number on the initial seeding region (100) will not be
reported but their successful invasion of the hybrid matrix
will.
[0412] In some embodiments (depicted in FIG. 9), cells (100) are
seeded onto the surface of the hybrid ECM-LC matrix (200) and
invasion of the matrix occurs from the surface. Invasion is
detected as an alteration in mesogen orientation. The versatility
of this unique hybrid matrix is evident in its ability to be used
in assays investigating the dynamics of cell adhesion, cell
contraction and cell invasion. The present invention is not limited
to any particular mechanism of action. Indeed, an understanding of
the mechanism of action is not necessary to practice the present
invention. Nevertheless, it is contemplated that the alignment of
the mesogens is disrupted by minute forces exerted upon (cells
seeded on the surface) or into (cells invading the matrix) the
matrix. In preferred embodiments, the change in mesogen alignment
is reported by the alteration in the passage of polarized light or
other specific wavelengths or combinations of wavelengths of light.
In still further preferred embodiments, the present invention
provides mesogen-decorated matrices, preferably mesogen-decorated
ECMs. Mesogens are attached to the matrix (e.g., ECM) by using the
primary amines, carboxylic acids, and thiols that are available for
reaction on the components of the matrix (e.g., ECM).
[0413] In other embodiments, matrices incorporating mesogens are
prepared by embedding a pre-aligned LC matrix (100) within a larger
extracellular matrix (ECM:200) that is allowed to gel (see, e.g.,
FIG. 10). The present invention is not limited to any particular
mechanism of action. Indeed, an understanding of the mechanism of
action is not necessary to practice the present invention.
Nevertheless, it is contemplated that changes in the ECM are
translated to the LC matrix. In other embodiments, the ECM is
dissolved into the mesogens when they are in their isotropic state,
and then the mesogens are transformed into the liquid crystalline
state. The transformation of state can be achieved by change of
temperature and/or the evaporation of a solvent. This procedure
leads to the formation of a liquid crystal/ECM composite, which has
the properties of a liquid crystal gel. Liquid crystal gels are
known by those skilled in the art to be prepared by using low
molecular weight and high molecular weight gelators. In some
preferred embodiments, the ECM is the commercially available
MATRIGEL (See, e.g., Monvoisin A. Bisson C. Si-Tayeb K. Balabaud C.
Desmouliere A. Rosenbaum J.; Involvement of matrix
metalloproteinase type-3 in hepatocyte growth factor-induced
invasion of human hepatocellular carcinoma cells; International
Journal of Cancer 97(2):157-62, 2002).
[0414] In other preferred embodiments, the hybrid mesogen/matrices
comprise type I collagen and/or porcine submucosal matrix (See,
e.g., Rosenthal et al., The mucosal invasion model: a novel in
vitro model for evaluating the invasive behavior of mucocutaneous
malignancies. Archives of Otolaryngology--Head & Neck Surgery.
127(12):1467-70, 2001;. Galvez et al., Membrane type 1-matrix
metalloproteinase is activated during migration of human
endothelial cells and modulates endothelial motility and matrix
remodeling. Journal of Biological Chemistry. 276(40):37491-500,
2001.) While these matrices are the most widely used matrices for
invasion assays, the present invention is not limited to their use.
Indeed, the use of other matrices is contemplated, including, but
not limited to, Amgel-derived from human amniotic membranes (See,
e.g., Siegal et al. Development of a novel human extracellular
matrix for quantitation of invasiveness of human cells. Cancer
letters 69: 123-32. 1993).
[0415] It is contemplated that the hybrid LC-matrices have numerous
other uses in addition to invasion assays. The LC-matrices find use
in studies of cell biomechanics where subtle changes in the matrix
caused by processes (e.g., cell adhesion, cell migration and cell
contraction) are reported by alterations in LC orientation. In
preferred embodiments, such alterations are detected by viewing the
LC-matrix with filtered polarized light. Additionally, since the
orientation of LC is very sensitive to temperature shifts, the
LC-matrices are useful for reporting changes in metabolic activity
of individual and populations of cells. In preferred embodiments,
liquid crystalline substrates can also be used to report stresses
imparted to substrates by cells adhered to surfaces. In this
embodiment of the invention, the cells are supported on the surface
of the liquid crystalline substrate. The substrates can be
decorated with ECM.
[0416] Similarly, an ECM that has a patterned surface (FIG. 6) can
be used to report changes induced in the surface (adjacent to the
surface occupied by cells) caused by events exemplified by but not
limited to adhesion, migration and contraction. These changes are
then reported by a LC film placed on its surface and subsequently
viewed with polarized light or specific wavelengths of light.
[0417] In still further embodiments, the substrates and hybrid
matrices of the present also find use in contraction assays. The
most common form of contraction assays for which the substrates and
hybrid matrices are useful are gel contraction assays (See, e.g.,
Fireman et al., Morphological and biochemical properties of
alveolar fibroblasts in interstitial lung diseases. Lung.
179(2):105-17, 2001; Ballas et al., Delayed wound healing in aged
rats is associated with increased collagen gel remodeling and
contraction by skin fibroblasts, not with differences in apoptotic
or myofibroblast cell populations. Wound Repair Regeneration.
9(3):223-37, 2001; Roy et al., Exertion of tractional force
requires the coordinated up-regulation of cell contractility and
adhesion. Cell Motility & the Cytoskeleton. 43(1):23-34, 1999;
and Lee et al., Extracellular matrix and pulmonary hypertension:
control of vascular smooth muscle cell contractility. American
Journal of Physiology. 274(1 Pt 2):H76-82, 1998.
[0418] Single cell contraction is also sometimes evaluated by
measuring cross sectional area after contraction is maximally
stimulated in vitro. (See, e.g., Pang et al., Single-cell
contraction assay for human ciliary muscle cells. Effect of
carbachol. Investigative Ophthalmology & Visual Science.
34(5):1876-9, 1993. Another assay describes the forces exerted by
individual cells calculated from time-lapse videomicroscopic
recordings of the 2-D elastic distortion of the matrix. See, e.g.,
Roy et al. An in vitro force measurement assay to study the early
mechanical interaction between corneal fibroblasts and collagen
matrix. Experimental Cell Research. 232(1):106-17, 1997.
[0419] The present invention also provides methods and compositions
for reporting biomechanical transduction events in cells of
interest. For example, in certain embodiments, suitable liquid
crystal membranes are used to nonspecifically report biomechanical
transduction events associated with cell adhesion, migration and
contraction. While not being limited to any particular mechanism or
theory, the present invention contemplates that in these
embodiments, the detectable event is the change in the order of the
crystalline membrane itself. A number of non-limiting embodiments
of contemplated cell transduction assays are presented in the
following examples. In one example, a film of liquid crystal is
associated with a phospholipid which is subsequently spontaneously
adsorbed by the cell of interest. In another example, an
elastomeric liquid crystalline material is used and contacted to
the cells of interest. In yet another example, a polymer-stabilized
or polymer-dispersed liquid crystal is used and contacted to the
cells of interest. In another example, a liquid crystalline gel is
used and contacted with the cells of interest. In still another
example, a collagen gel that has been micromolded such that it
aligns liquid crystals is used and contacted to the cells of
interest. In this embodiment, the cells of interest are allowed to
attach to a collagen gel and then incubated for a period of time
which is dictated by experimental design, cell type and culture
conditions. Changes in stress imparted by cell contraction create
detectable changes in the liquid crystal layers. Yet other
embodiments described below utilize a novel hybrid extracellular
matrix-liquid crystalline composite for the reporting of
biomechanical transduction events.
[0420] FIG. 11 demonstrates an embodiment of the invention that
allows the evaluation of contractile forces by large populations of
cells as well as by individual cells. Cells (300) are seeded on a
nanostructured surface (100) of extracellular matrix (200) that
aligns liquid crystal mesogens placed on its surface. The
contraction of a cell (400) results in altering the regular array
of the nanostructured surface (500) which in turn is reported by
alterations in the alignment of LC mesogens. Cells may be imaged
simultaneously as interpretation of LC alignment changes by
staining the cells with vital or non-vital dyes (fluorometric and
non-fluorometric). Dual exposure (with and without polarized light)
allows localization of individual cells and correlating their
location and appearance with observed changes in LC alignment.
[0421] Additionally, the use of these matrix-LC interactions and
hybrid matrices allows for examining the forces of individual cells
seeded onto their surfaces, which provides insight into the
dynamics of cell adhesion, migration and contraction.
[0422] The present invention contemplates that cells migrating
across a substrate produce nanomechanical forces that either
disorder an ordered surface or order a disordered surface. In both
cases, the change in surface order created by the passage of cells
is detected and reported by liquid crystal films. Migrating cells
also sweep ordered surface particles out of their path during
migrations and introduce disorder in the LC film placed on top
subsequent to migration. Another variation is the use of a
nanostructured substrate with randomly distributed (seeded) and
randomly oriented (relative to the long axis) nano- to micro-sized
particles across its surface. This creates closely spaced regions
that introduce disorder into the LC film effectively partially
masking the ordering influence of the underlying nanostructured
substrate. The seeding densities are such that many particles are
present on the surface relative to the size of a single cell. The
migration of cells unmasks the underlying nanostructured substrate
and creates tracks of purely ordered mesogens. The particles can be
any nano- to micro-sized inert material including but not limited
to colloidal gold, other metals, pumice, graphite, silica, and
glass beads. It is contemplated that the particles decorating the
surface can be made more resistant to displacement during the flow
of LC over the surface (i.e., to prevent the particles from being
washed off) by the adjunctive use of stabilizing forces exemplified
by, but not limited to, the use of externally applied electric
fields (with charged particles), magnetic fields (with magnetic
particles), or chemical and physical treatment of the surfaces of
the particles to make them adherent to the substrates
[0423] The assay devices of the present invention are designed to
detect these changes in order or disorder. Accordingly, in some
embodiments, a substrate is provided that has at least one assay
region that either orients or does not orient a liquid crystal. In
some preferred embodiments, the assay region is associated with one
or more biological moieties as described in more detail below.
However, the assay regions need not be necessarily associated with
a biological moiety. In further preferred embodiments, the assay
regions are arranged in an array. In some particularly preferred
embodiments, the array is aligned with readout zones of a plate
reading device. In some embodiments of the present invention, the
assay devices are further provided with a number of topological
features. For example, in some embodiments, an assay region of the
device has a depression or well formed in the substrate for
containing cells, media, or test compounds. In other preferred
embodiments the assay devices further comprise a test compound
region or plurality of test compound regions separate from the
assay regions. These regions are useful for providing one or more
test compounds for use in the assays and causing delivery of the
one or more test compounds to the assay regions. In some
embodiments, the test compound regions are peripherally located on
the assay device as compared to the assay regions, while in other
embodiments, the test compound regions are centrally located as
compared to the assay regions, while in still further embodiments,
the test compound regions are interspersed with the assay regions.
Various combinations of these layouts are also contemplated by the
present invention. In some embodiments, the test compound regions
are arranged to provide a gradient (e.g., a concentration gradient)
of at least one test compound to the assay region. The gradients
for two or more test compounds can be in the same direction or in
different directions. In other embodiments, the test compound
regions are arranged to deliver a relatively constant amount of at
least one test compound to assay region(s). In some particularly
preferred embodiments, the test compound regions are designed to
provide an analysis of whether a cellular response to a particular
test compound placed in a reservoir is chemotactic or chemokinetic
in nature. In some preferred embodiments, the test compound regions
are channels, microchannels, or wells formed in the substrate. In
other preferred embodiments, the test compound regions are in the
form a porous or nonporous material that releases a given test
compound into the assay device. In still further embodiments, test
compound regions are provided by the differential movement of
materials (e.g., test compounds) by the manipulation of electrical
fields, thermal gradients, and capillary action on the substrate
surface. In other preferred embodiments of the invention,
chemotactic or chemokinetic agents are immobilized on the surfaces.
These agents can be presented in uniform concentration on a
surface, they can be patterned on a surface or they can be present
in a gradient in concentration across a surface. The agents
immobilized on the surface may be released from the surface to make
them available to the cells by using changes in the
microenvironment of the surfaces caused by the cells to trigger the
release of the agents, or externally controlled variables (such as
illumination or applied electrical potentials) can be used to
regulate the release of the agents from the surface. In other
preferred embodiments of the invention, the agents are not released
from the surface but interact with constituents of the membrane of
the cell and thereby influence cell behavior.
[0424] In some further preferred embodiments, the assay regions of
the devices are associated with a biological moiety. In some
embodiments, a disordered (e.g., randomly ordered) substrate or
assay region on a substrate appropriate for assays disclosed herein
is created by attaching (e.g., covalently or noncovalently) one or
more biologic moieties, (e.g., sugars, proteins (e.g.,
extracellular matrix proteins such as collagen, laminin,
fibronectin, vitronectin, osteopontin, thromospondin, Intercellular
adhesion molecule-1 (ICAM-1), ICAM-2, proteoglycans such as
chondroitin sulfate, von Willebrand factor, entactin, fibrinogen,
tenascin, Mucosal adressin cell adhesion molecule (MAdCAM-1), C3b,
and MDC (metalloprotease/disintegrin/cysteine-rich) proteins),
nucleic acids, specific receptors or cell receptor recognition
sequences (e.g., cadherein, immunoglobulin superfamily, selectin,
mucin and integrin binding sequences such as RGD, EILDV, LDV, LDVP,
IDAP, PHSRN, SLDVP, GRGDAC, and IDSP)) onto a suitable substrate
surface. In another embodiment, an ordered substrate or assay
region on a substrate is created by covalently or noncovalently
binding one or more or the previously described biological moieties
to a polymeric surface and subsequently rubbing the surface to
create order. The present invention is not intended to be limited
by the order of steps taken in creating a suitable substrate
surface. For example, in some embodiments, the substrate is ordered
prior to the attachment of biological moieties. In other
embodiments, the substrate is ordered after addition of biological
moieties. Indeed, a number of processing events and steps are
adaptable to producing suitable substrate compositions for use in
the assays disclosed herein given the specific guidance provided
and the skill of those in the art.
[0425] In other embodiments, an ordered substrate is created by
contacting a suitable surface with a plurality of evenly
distributed particles (e.g., magnetic nanoparticles) that when
aligned orient a mesogenic layer. As described in detail above, the
particles may be applied to the surface (positive nanostamp) or
removed from the surface (negative nanostamp) with nanostamping
devices (ref FIGS. 1A and 1B). In particularly preferred
embodiments, the particles are magnetic nanoparticles that are
aligned using a magnetic field. In another preferred embodiment,
the metallic nanorods are small enough to be readily displaced by
migrating cells.
[0426] In some embodiments of the present invention, the extent of
overall cell movement in the assay device is determined by
analyzing the proportion of the substrate on which surface order is
altered (e.g., a change from ordered to disordered and vice versa).
Preferred methods for analyzing the extent of areas of order and
disorder are described in detail above and include the use of
systems comprising two polarizers, CCDs, photomultipliers,
photodiodes, plate reading devices, and analysis of the
transmission of certain wavelengths of light. Other methods for
analyzing the results of the assays are described below.
[0427] A number of particularly preferred assay devices and systems
will now be described. It will be understood that the present
invention is not limited to these particular embodiments. One
embodiment of the present invention to distinguish
chemotactic/chemokinetic effects is illustrated in the model assay
depicted in FIG. 13. Element (100) represents a suitable substrate
(either ordered or disordered). A test compound reservoir (200) is
provided on the left edge of substrate (100). In some embodiments,
reservoir (200) and substrate (100) are engineered so that the test
compound is slowly transported or diffused across the substrate
(100) and the assay region to contact cells (300) on the surface of
the substrate. It is contemplated that convection can be minimized
by using very thin films of liquid, by making the culture medium
viscous through the addition of polymers, or by placing the whole
system into a gel that quenches convection but permits movement of
the cells. In other embodiments, these elements are engineered so
that the test compound is more quickly dispersed into the media
covering cells (300) via capillary action. In performance of the
assay, cells of interest (300) are seeded onto the assay region on
substrate (100). In one embodiment, the effects of a test compound
on cell motility can be determined as follows. The test compound is
placed in reservoir (200) and cells (300) are again seeded in the
assay region or randomly distributed across the entire
substrate.
[0428] In some embodiments, a specifically designed reservoir is
utilized to provide a gradient of test compound(s) delivered
through diffusion. FIG. 14 demonstrates one possible design whereby
a test compound(s) is placed into a reservoir (100) and is allowed
to diffuse along a thin tube (200) and exit from a small open port
(300) in close proximity to the test substrate. The actual
dimensions of the device are variable depending on the needs of the
specific assay and the test surface area (and accompanying volume
of media covering it) to which test compound is being delivered.
The composition of the reservoir and the delivery tube can be of a
variety of materials including but not limited to glass,
polypropylene, polystyrene, and silicone.
[0429] The reservoir device may be incorporated into the intrinsic
design of an assay device or may be provided as an insert for use
with commercially available or custom designed multiwell plates. It
will be recognized that this assay design is not limited to use
with liquid crystal assays, but also finds use with calorimetric,
fluorometric, densitometric, and other assay formats.
[0430] If the test compound is chemotactic, the cell pathways are
substantially linear with the net migration being towards the
reservoir port (300 in FIG. 14). Movement of cells within the assay
region 300 creates areas of disorder (on an ordered substrate) or
introduces order by mechanical movement of cells across the surface
of a randomly ordered substrate that can be assayed as described
above. In particularly preferred embodiments, image analysis
software is used to determine the relative linearity of migration
paths.
[0431] Is it also possible to formulate these test compounds into a
"slow release tablet" that is placed at some location of the test
surface. The gradual dissolution of the tablet generates a locally
high concentration of the text compound. Some slow release tablets
are placed under external control; for example; rates of
dissolution are controlled by illumination of electrical
potentials.
[0432] It will also be recognized that the device does not
necessarily need to comprise the reservoir (200). As a non-limiting
example of an assay not requiring the reservoir (200) the substrate
(100) is prepared by seeding cells (300) in the assay region and
providing the test compound in the accompanying cell media. A
compound that increases cellular activity will have a positive
effect on cell motility as compared to control compounds. In
preferred embodiments, the assay region is ordered to orient liquid
crystals. Movement of cells 300 within the assay region creates
areas of disorder that can be assayed as described above. In some
embodiments, the analysis of separate assays involving addition of
a test compound to the test compound region or generally into the
media can be used to differentiate the chemotactic and/or
chemokinetic effects of the test compound.
[0433] FIG. 15 shows yet another assay system for studying the
effects of a test compound on cell motility and migration. The
substrate (100) comprises a first region 200 and a second region
300 having distinct surface order. In some embodiments, the first
region (200) is ordered to orient liquid crystals while the second
region (300) does not orient liquid crystals. In a preferred
embodiment, substrate (100) also comprises a test compound
reservoir (400).
[0434] One contemplated protocol using the assay system shown in
FIG. 15 is as follows. The user seeds cells in a uniform fashion
onto the first and second regions (200 and 300). A test compound is
introduced to substrate (100) in the media accompanying the seeded
cells, provided via the test compound region (400). Quantification
of cell migration can be performed by measuring the number of cells
present in the first region (200) by measuring the number of cells
in the second region (300) or by comparing the cell numbers present
in the first region (200) and second region (300). If the test
compound is chemokinetic, there should not be a marked change
(increase or decrease) in the number of cells in the first region
(200) or in the second region (300). However, if the test compound
is chemotactic there will be a marked increase in the number of
cells in the first region (200) and a decrease in the cells present
in the second region (300). If a compound has a negative effect on
chemotaxis then there will be an increase in cell number in the
second region (300) with a concomitant decrease in cell number in
the first region (200).
[0435] In still another embodiment, as shown in FIG. 16, a
substrate (100) is provided having a reservoir (200) and two
separate regions (300 and 400) of distinct surface order.
Accordingly, in certain embodiments, substrate (100) further
provides a first region (300) of ordered substrate that aligns
liquid crystals, and a second region (400) of substrate that does
not align liquid crystals. In further embodiments, a cell seeding
region (500) (exemplified by but not limited to a depression or
well) is provided for seeding cells of interest on substrate (100).
In some embodiments of the present invention, methods are provided
wherein cells are seeded at the cell seeding region (500) on two
separate substrates. Each group of seeded cells is allowed to
attach and grow for a sufficient period of time (determined by cell
type and culture conditions) usually from 1-24 hr. The media is
then replaced on each substrate, and sufficient fresh media is
added to cover each substrate. The test compound is then placed
either in the media covering the substrate in a first instance, or
in the reservoir (200) in a second instance. The cells on both
substrates are allowed to incubate for a sufficient period of time
(according to the cell type and culture conditions) in the presence
of the test compound. The number of cells on the first region (300)
is then determined. The present invention contemplates that by
comparing results obtained from substrates having test compound
added to the media and substrates having test compound added only
to the reservoir (300), a determination can be made as to whether
the test compound is chemotactic or chemokinetic. Chemokinetic
activity will result in a net increase in cell number in both
regions 300 and 400 region while chemotaxis will cause a marked
increase (greater than in the case of chemokinesis) in cell number
in the region closest to the reservoir release point of the test
compound (300) and a negative chemotactic effect will cause an
increase in cell number in the test region further away from the
reservoir source (400) with a concomitant decrease in the patterned
region that aligns liquid crystals (300). In preferred embodiments,
appropriate controls of media only and media plus fetal bovine
serum (FBS) are also run.
[0436] In still further embodiments, the substrate described in
FIG. 16 is modified so that the entire substrate (100) is
configured to orient liquid crystal (See FIGS. 17, 18, and 19). In
these embodiments, cells are seeded on the cell seeding region
(500) and a test compound added to the reservoir (400). A test
compound is chemotactic if the cells (600) are stimulated to move
out of the cell seeding region and show a preferred orientation in
migration towards the gradient of the stimulus. (See, FIG. 17).
This effect can be determined by determining the cell number
present in the first test region (200) and/or the second test
region (300). The test regions do not have any differing physical
characteristics. They are simply the zones used for data
acquisition and may be configured to correspond to regions read out
by commercially available plate readers.
[0437] A test compound is chemokinetic if the ratio of cells in the
first region (100) to those in the second region (200) is close to
1, thus indicating the cells moved out of the cell seeding area but
showed no preferred orientation in migration despite the gradient
of the stimulus. (See, FIG. 18). A test compound that fails to
induce any, or only a very few, cells to enter either Field A (200)
or Field B (300) has little or no affect on cellular migration.
(See, FIG. 19).
[0438] If a cell seeding region (500) is not incorporated into the
design then cells uniformly distributed across the first (200) and
second (300) test regions will not show a significant difference in
cell number in the case of a compound that is purely chemokinetic
(that is, does not promote proliferation). The use of such a design
(i.e., cells evenly distributed rather than limited to a specific
cell seeding region) would allow the determination of positive and
negative chemotaxis but would not distinguish between no effect and
positive chemokinesis.
[0439] In still other embodiments, the present invention provides
assay materials and methods for determining the interactions of
multiple test compounds on cell motility and migration. FIGS. 20A-C
shows one contemplated assay configuration for determining the
effects and potential interactions of three test compounds on cell
migration. Briefly, FIGS. 20A-C provide a suitable substrate (100)
having a plurality of assay regions (200) each providing a
localized region of ordered substrate. In the embodiment depicted
in FIGS. 20A-C, a plurality of assay regions (200) are arranged in
a concentric circle around the perimeter of substrate (100), the
present invention is not intended to be limited however to this
configuration. A number of alternative arrangements are
contemplated where the effects of the multiple test compounds can
be determined (e.g., rows and columns of assay regions arrayed on
substrate (100), or bands of assay regions radiating from a center
point on substrate (100), etc.). In other embodiments, two or more
types (e.g., local regions of ordered substrate, and/or local
regions of disordered substrate) of assay regions are provided on a
substrate. In a preferred embodiment, each of the assay regions
(200) represent a zone of structured substrate surface that allows
for the alignment of liquid crystals except where cells are
located. In preferred embodiments, the various test compounds are
provided on substrate (100) in test compound positions (301-304) as
indicted in FIGS. 20A-C. In certain of these embodiments, each of
positions (301-304) is a separate reservoir. The present invention
is not intended to be limited however by the number or arrangement
of positions (301-304) as currently shown in FIGS. 20A-C. Indeed,
in some embodiments, greater or fewer than four positions are
provided, and/or the arrangement of the positions on substrate
(100) is altered (e.g., rows and, or positions radiating from a
center point on substrate (100), etc.). In the example provide in
FIGS. 20A-C, position 301 is contacted with test compound A,
position (302) is contacted with test compound B, position (303) is
again contacted with test compound A, and position (304) is
contacted with test compound C. In the embodiment depicted in FIGS.
20A-C, substrate (100) also provides a cell seeding region (e.g., a
depression) (400) for seeding cells. Additional embodiments provide
for alternative arrangements of one or more positions for seeding
cells (400). Additionally, it is possible to uniformly seed cells
across the test substrate (100) encompassing all test regions
(200). After incubation, (time dependent on cell type, cell line
and culture conditions) positive chemotactic effects will be
manifested by accumulation of cells in proximity to factors
(positions 301-304) having a positive effect.
[0440] One contemplated cell migration assay protocol using the
substrate shown in FIG. 20A is described below. Briefly, the cells
are seeded at position (400) and allowed to attach for a suitable
period of time (depending on cell type and culture conditions)
usually from 1-24 hrs. After this attachment period, cell media
containing test compounds are placed at positions (301-304). An
additional incubation period (determined by cell type and culture
conditions) is provided to allow for the seeded cells to be
contacted by the test compounds. The number of cells present in
each of the assay regions (200) is determined by using the methods
and compositions described herein. For example, if a test compound
acted alone and failed to display synergism with other compounds,
then the greatest number of cells would be present in the assay
region (200) directly aligned with the position (301-304) where
that compound was respectively contacted to the substrate (100). If
a positive interaction occurs between test compound A (positions
301 and 303) and either of test compounds B (position 302) or C
(position 304) then the greatest number of cells would be located
at positions intermediate between the respective positions
(301-304) where these test compounds were contacted to substrate
(100). FIG. 20B demonstrates a positive chemotactic effect for the
test compound located at position 302 (Compound B) that is
manifested by an increased number of cells being located in the
test region (200) in closest proximity to test compound reservoir
position 302. FIG. 20C demonstrates the anticipated results from a
synergistic interaction on cell migration being observed between
two different test compound (Factor A positions 301 and 303 and
Factor B position 302).
[0441] In other embodiments, substrates are engineered to provide
from one or more assay zones. In some of these embodiments, a
single substrate is fabricated to provide multiple distinct assay
zones to allow for running replicate determinations with multiple
controls. In preferred embodiments, each of these assay zones is
configured to correspond to the substrates depicted in FIGS. 11-20
(e.g., to comprise a plurality of the substrate formats described
above). In particularly preferred embodiments, these substrates are
configured for use with commercially available plate readers (e.g.,
assay substrates are engineered to provide distinct zones that
spatially correspond to test positions recognized by commercial
plate readers [e.g., 24, 96, 384, 1536 well plate formats]). In
further preferred embodiments, assay substrates are provided that
are configured to be inserted into wells of commercial plates and
plate readers.
[0442] FIG. 21 shows one embodiment where the disclosed assay
substrates are engineered for compatibility with commercially
available 24 well plate readers. FIG. 21 represents a substrate
comprising a standard 6.times.4 arrangement of 24 individual assay
surfaces.
[0443] Briefly, in each of the 24 assay surfaces represented, an
assay region (100) and a reservoir (200) for contacting a various
test compounds of interest. In preferred particularly embodiments,
the plate configuration depicted in FIG. 21 utilizes a reservoir
system, described in greater detail herein, that allows for
differentiating chemotactic and chemokinetic cell migration. In yet
another embodiment, FIG. 22 shows an adaptation of the assay plate
configuration shown in FIG. 21, wherein each of the individual
assay zones further provides a cell seeding region (400) (e.g.,
depression) for seeding cells.
[0444] Additional embodiments provide assay substrates designed to
be read by commercially available plate readers (e.g., 24, 96, 384,
1536 well formats) that employ a single substrate surface and
single reservoir. For example, FIG. 23 shows one contemplated
embodiment where a single substrate surface (100) is engineered to
provide an array of from between 24 to 1536 assay regions (200). In
some of these embodiments, the substrate (100) is further
configured to provide one or more test compound reservoirs
(300).
[0445] In some embodiments, the substrates shown in FIG. 23 are
utilized by seeding cells evenly across the across a first and a
second substrate. The user then allows the seeded cells a
sufficient amount of time (depending on cell type and culture
media), usually from 1-24 hours, to attach to the respective
substrates. The first substrate is contacted with a test compound
added to the cell media. The second substrate is contacted with a
test compound added to the reservoir (300). The respective
substrates are then incubated for an appropriate period of time
(depending on the cell line and culture conditions) to allow the
test compounds to act on the seeded cells. At the end of the
incubation period, the media covering the cells is removed and a
thin film of liquid crystal is placed on the surface of the
substrate with attached cells. The number of cells in each of the
assay regions of the respective substrates is then determined by
visual inspection or by using an automated plate reader. If a
compound is chemotactic, then the assay regions (200) closer to the
reservoir (300) would have increased number of cells and the assay
regions (200) further from the reservoir (300) would have decreased
number of cells when compared to control substrates (100) and
compared to assays in which the test factor(s) have been added to
the media covering the cells.
[0446] In still another embodiment, the present invention provides
assay materials for determining the effect on cell migration of
multiple test compounds on a single substrate. In preferred
embodiments, these substrates are engineered to have size and shape
(e.g., 24, 96, 384, 1536, well format) compatible with commercially
available plate readers. FIG. 24 shows one contemplated multiple
test compound assay substrate. The assay substrate (100) shown in
FIG. 21, provides 24 distinct assay regions (200). In the format
depicted in FIG. 24, the assay system allows for the testing of up
to 12 different compounds of interest at a time. The present
invention is not intended to be limited however to a 24 well
format. Indeed, other embodiments of the present invention provide
from 96, 384, and 1536 well formats, these formats are easily
adaptable to commercial plate readers and would provide,
respectively, for the simultaneous testing of from 48, 192, to 768
compounds of interest. Briefly, FIG. 24 represents a multiple assay
region formatted assay plate, wherein each of the 12 test zones
(100) comprises two suitable assay regions (200 and 210), an
optional cell seeding region (300) (e.g., a depression) for seeding
cells, and a reservoir (400) for contacting a test compound of
interest to the substrate (100). In certain embodiments, the assay
regions (200) provide a localized area of ordered substrate that
can anchor liquid crystals. In other embodiments, the entire plate
is engineered to provide a suitable assay substrate (e.g., the
entire surface can anchor liquid crystals. In some embodiments, the
assay regions (200 and 210) are discreet zones, while in other
embodiments, the assay regions (200 and 210) are simply the area
that will be read by the plate reader. A test zone can comprise
one, two, or more areas that are read by a plate reader. In FIG.
24, the test zone (100) comprises two regions (200 and 210) that
are read by a plate reader. The present invention contemplates that
the configuration shown in FIG. 24 is particularly well suited for
differentiating the effects on cellular migration of multiple test
compounds (e.g., chemotaxis versus chemokinesis).
[0447] FIG. 24 depicts use of a 24 well format that allows the
running of 12 distinct assays on a single plate. This design allows
for separation of chemotaxis from chemokinesis. In FIG. 24 it can
be seen that cells can be seeded in region 300 and allowed to
attach. Test compound or appropriate control media is placed into
the designated reservoir regions (400). If a compound is
chemokinetic, there will be a stimulation of cell migration but no
directional preference will be evidenced by the cells and both
regions 200 and 210 will evidence higher cell numbers compared to
appropriate controls. If a test compound is chemotactic the
increase in cell numbers will be greatest in the readout region
closest to the reservoir (200) surpassing that found in the region
further away from the reservoir (210).
[0448] In some embodiments, the substrate shown in FIG. 24 is
utilized by evenly seeding cells in each region (that in FIG. 24
are illustrated as being restricted to the cell seeding positions)
(300) across the assay plate (100) The uniformly distributed cells
are allowed a sufficient amount of time (depending on cell type and
culture conditions) to attach to the substrate (100). Test compound
or appropriate control media is then added to reservoirs (400).
After an appropriate incubation time (e.g., determined by cell type
and culture conditions) the plate is read. In operation, a test
compound is added to the reservoirs in the wells. If zone A
(position 200) consistently indicates a greater number of cells
than zone B (position 210), then a chemotactic effect of the test
compound is indicated. It will be recognized that these plate
formats find use with other biophotonic detection techniques,
including fluorimetric, colorimetric, and densitometric
techniques.
[0449] In still other embodiments of the present invention, the
substrates are engineered to include two or more microfluidic
channels for producing uniform gradients of one or more test
compounds over a plurality of assay regions. For example, FIG. 25,
shows one contemplated embodiment of present invention that employs
three microfluidic channels that allow for the simultaneous testing
of three different compounds of interest on a single assay plate
with a plurality of assay regions for each compound. Briefly, FIG.
25 shows a 48 well assay plate which has been divided into top,
middle, and bottom panels, A, B, and C respectively. Each of panels
A, B, and C presents 8 individual cell motility and migration test
regions on a single assay plate. Thus, in preferred embodiments,
the effects of each of three test compounds on cellular motility
and migration can be probed in octuplicate. The present invention
is not intended to be limited however to the assay configuration
presented in FIG. 25. Indeed, the present invention contemplates
embodiments of multiples of other commercially recognized well
formats. For example, the present invention specifically
contemplates embodiments using a 96 well assay plate format. Such
an assay format would allow for the simultaneous testing of 8 test
compounds in dodecatuplicate, or 12 test compounds in
octotuplicate, etc. In regard to panel A of FIG. 25, each test
region (100) comprises, two suitably ordered assay regions (200 and
210) and a cell seeding region (e.g., a depression) for seeding
cells (300), and a network of reservoirs and microfluidic channels
(400) configured to deliver a test compound to the test regions.
The network (400) comprises a main reservoir (410) in fluidic
contact with a plurality of test zone reservoirs (e.g. 420 and 440)
via communicating microfluidic channels (e.g. 430). In some
embodiments, the assay regions (200 and 210) are discreet zones,
while in other embodiments, the assay regions (200 and 210) are
simply the areas that will be read by the plate reader. A test
region can comprise one, two, or more areas that are read by a
plate reader. Referring to FIG. 25, the assay regions (200) are
aligned in vertical columns A and B for each replicate (100) shown.
In preferred embodiments, a reservoir and microfluidic channel
(400) horizontally bisect each panel and form the left edge of each
replicate. It can also be appreciated that the flexibility of this
design allows for the testing of a single compound or of multiple
compounds simultaneously if admixed in the initial reservoir (410)
or supplied in different reservoirs in separate plate designs
(e.g., see FIG. 26).
[0450] One contemplated cell migration and motility assay using the
assay plate and shown in FIG. 25 is described below. Briefly, cells
are seeded into each cell seeding region (300) for panels A, B, and
C. The cells are allowed a sufficient period of time (depending
upon the cell type and the culture conditions) to attach to
respective positions (300). A different (or identical) test
compound is added to each of the main reservoirs (410) in panels A,
B, and C, respectively, so that the test compound is delivered via
the network to each test region reservoir (e.g., 420 and 440). The
respective test compounds are allowed a sufficient period of time
(depending upon cell type and culture conditions) to act on the
cells in each test region. Each test region is analyzed (e.g.,
using a suitably modified commercial plate reader and appropriate
software or visually with a microscope) to determine ("read") the
number of cells in each replicate that migrated into assay zones
aligned in columns A and B, respectively. In preferred embodiments,
the "reading" step is performed by overlaying the substrate with
liquid crystals as described in detail above. In some embodiments
this plate design and principles are used in conjunction with
calorimetric and fluorimetric plate readers using standard staining
protocols for imaging of cells or of indirect indicators of cell
viability such as intrinsic enzyme activity.
[0451] In still other embodiments of the present invention, assays
are provided for determining inhibitory, additive, or synergistic
effects of test compounds on cellular motility and migration. For
example, in regard to the preferred embodiment shown in FIG. 26, a
suitably ordered assay plate (100) is configured with an array of
assay regions (400 and 500) arranged to be compatible with standard
commercial plate readers, and two or more separate reservoirs (200
and 300). Referring to FIG. 26, it can be seen that this embodiment
is designed to provide 3 distinct test zones labeled zone A, zone B
and zone C. In use, a first compound known to be chemotactic for a
particular cell type is placed in one of the reservoirs (200) and a
second test compound is added to the other of the reservoirs (300).
This plate design allows the evaluation of two test compounds and
comparison to control media. Cells are seeded on the substrate in
optional cell seeding areas (600) and allowed to attach as
described in the embodiments above. Test compound A is placed in
test reservoir (300) in zone A, test compound B is placed in test
reservoir (300) in zone B and control media is placed in test
reservoir (300) in zone C. Communicating microfluidic channels
provide the known chemotactic agent (210) and test compound (310)
to local test region reservoirs that deliver these agents to the
cells on the test substrate in a gradient. Presence of cells in the
assay regions (400 and 500) is preferably assayed by overlaying the
substrate with liquid crystals as described above. A simple
determination of the effects of the test compound can be made by
comparing the results with control assays. The known chemotactic
agent will stimulate cells to move into the assay region closest to
the local reservoirs containing this compound (210). If a test
compound (in zones A and B, deposited into reservoir 300 and
delivered to local reservoirs 310) is able to inhibit chemotaxis
incited by a known chemotactic agent then fewer cells will be
localized to the test region closest to the test reservoirs (500)
compared to controls (in zone C). Additionally, if a test agent is
synergistic or additive in stimulating chemotaxis then more cells
will be located in zone 500 compared to controls. If a compound
completely inhibits migration of cells in the presence of a known
chemotactic agent then fewer cells will be located in both assay
regions 500 and 600 compared to controls. In certain embodiments it
is anticipated that this design will be used in conjunction with
colorimetric and fluorimetric assays. In preferred embodiments the
detection of cell number will employ placing a thin film of liquid
crystal overt the test substrate (with assay zones that align
liquid crystal mesogens) and any attached cells. As previously
described, the presence of cells will mask the nanostructured
substrate locally thus prevent the LC from gaining access to the
ordering influence of the substrate. In preferred embodiments, this
is detected and quantified using polarized light, specific
wavelengths or combinations of wavelengths of light.
[0452] Additional embodiments use this design of multiple
reservoirs and microfluidic channels to create separate test zones
for use in cell invasion assays described previously (See, e.g.,
FIGS. 5-9). This allows for the determination of the ability of a
test compound to prevent cell invasion, which is often used as an
indication of probable therapeutic efficacy in the development of
anti-neoplastic compounds.
[0453] Additional embodiments and variations of the disclosed assay
configurations are within the scope of the present invention. In
some embodiments, the cells seeded onto the assay substrates
described herein are labeled on their surfaces with one or more
fluorescent molecules, radioisotopes, and the like. It is
contemplated that in some embodiments, labeling will increase the
detectability and sensitivity of the signals generated by the
disclosed assay systems. For example, in certain embodiments, a
standard commercial plate reader (adapted to handle the LC assay
formats described herein) is used to analyze areas of disorder and
order in a liquid crystal and then determine cell number by
analyzing fluorescence. The art is well acquainted with cell
labeling technologies and with detecting labeled cells.
[0454] In other preferred embodiments of the present invention,
asymmetrically (e.g., partially transparent and partially opaque)
patterned substrates are provided that are useful for conducting
cell migration assays that employ liquid crystal, fluorometric,
calorimetric or densitometric readout methods. In the liquid
crystal assay embodiments, the asymmetrically patterned substrates
are configured to provide regions of order that orientate mesogens
or to provide regions of disorder (e.g., random patterning) that do
not orientate mesogens. The present invention contemplates that
certain embodiments employing asymmetric substrates are useful for
determining the effects of a test-compound on cell migration by
providing a tool for distinguishing chemokinetic from chemotactic
cell migration. The underlying principle behind the embodiments
employing asymmetric substrates and the various liquid crystal
based assay configurations disclosed herein is basically identical.
However, fluorometric, calorimetric, or densitometric based methods
find use in these embodiments when the cells of interest are
vitally, calorimetrically (e.g., for assays of dead cells) or
fluorescently stained or otherwise labeled when the substrate
provided is asymmetrically patterned with both optically
transparent and optically opaque regions.
[0455] In preferred embodiments, cells (e.g., at least one cell)
are seeded on the optically opaque portion of the assay substrate.
In some of these embodiments, the cells are seeded in a cell
seeding region (e.g., a depression in the assay substrate). In
other embodiments, the cells are simply evenly distributed across
the substrate and allowed sufficient time under appropriate
conditions for attachment. The test region, encompassing both
optically transparent and optically opaque (or patterned and
non-patterned regions; the patterned regions of which orient LC
mesogens) can be configured to correspond to the assay regions read
out by commercial plate readers.
[0456] In certain embodiments disclosed herein, test compounds are
placed in one or more reservoirs and the assays are conducted using
protocols similar to those used in the liquid crystal based assays
described above. In other embodiments, the asymmetrically patterned
assay substrate further provides at least one microfluidic channel
fluidically connecting at least one reservoir and the optically
opaque and the optically transparent regions of the substrate.
[0457] The present invention contemplates detecting cells that
migrate onto the transparent regions, or regions that are patterned
to align liquid crystals of the asymmetric substrate. Cells that
migrate onto the opaque regions or regions that don't align liquid
crystals of the asymmetric substrate are hidden from detection.
[0458] FIG. 27 shows one embodiment of a contemplated asymmetric
assay configuration. Referring to FIG. 27, Panel A depicts the use
of an asymmetrically patterned nanostructured substrate for use
with liquid crystal assays and Panel B depicts the design of an
asymmetrically opaque substrate for use with calorimetric,
fluorimetric, radiometric and other assays that detect the presence
of cells. The assay substrate comprises a first region (100) which
is patterned to align liquid crystal mesogens (panel A) or is
substantially transparent for use with other assays of cell
detection (panel B) and a second region (200) that does not orient
liquid crystals and thus will not report the presence of cells with
liquid crystal assays (Panel A) or is substantially opaque and will
not report the presence of cells using other assays (exemplified by
but not limited to calorimetric and fluorimetric assays) of cell
detection (panel B). In certain embodiments, at the center of
regions (100) and (200) is a position (e.g., depression) provided
for seeding cells (300). The regions in FIG. 27 are depicted as
semicircles. However, it will be understood that the substantially
transparent and substantially opaque regions may be different in
size and shape depending on the nature of the assay and detection
equipment used. In some embodiments, protocols for using asymmetric
embodiments of the present invention are substantially the same as
those for using the conventional LC assay configurations described
above.
[0459] FIG. 28 shows the expected effects of a test compound that
exerts a chemotactic effect on cell migration. The arrows (100)
indicate that a chemotactic gradient is originating from the left
hand side. Panel A depicts the use of asymmetric substrates for use
with liquid crystal assays. The presence of cells is only reported
when they are located on regions that are nanotextured as to align
liquid crystal mesogens (left hand side of substrate A in panel A
and right hand side of substrate B in panel A). It is contemplated
that by using paired asymmetrically patterned substrates that are
oriented differently (see substrates A vs. substrates B in Panels A
and B) in regards to the direction of a chemotactic signal and
comparing the results, the user of the device is able to sort out
whether a given test compound has no effect, or whether it induces
chemotaxis or chemokinesis. With chemotactic stimuli, the cells
move towards the origin of the chemotactic signal (100). A marked
increase in the number of cells is detected when the patterned
substrate is oriented on the left (substrate A of panel A).
[0460] Panel B of FIG. 28 demonstrates the use of asymmetrically
patterned substrates for use with calorimetric or fluorimetric
plate readers of other imaging devices that assay for cell number.
Similar to the liquid crystal assay substrates, only one-half of
the substrate allows for the determination of cell number (the left
hand portion of substrate A and the right hand portion of substrate
B in panel B).
[0461] FIG. 29 demonstrates the anticipated results for a test
compound that stimulates chemokinesis (e.g., by demonstrating an
increase in cell migration without a directional vector as regards
the stimulus). The test compound gradient is originating from the
left hand side (100). Panel A (substrates A and B) illustrates the
results expected with liquid crystal assays and Panel B illustrates
the results expected using colorimetric or fluorimetric assays. A
greater number of cells are detected compared to controls (e.g., no
chemotactic stimulus provided) and an equivalent number of cells
are detected regardless of whether the substrate portion that can
detect the presence of cells is oriented on the left (substrates A)
or on the right (substrates B) relative to the direction of test
compound gradient (100--originating from the left).
[0462] It is important to note that the asymmetric substrate
embodiments present one adaptation of the general schemes and
embodiments disclosed herein for conducting cell migration and
motility assays. Thus, the present invention specifically
contemplates that the substrates may comprise one or more
microchannels and one or more reservoirs as described in detail
above. Similarly, asymmetrically patterned embodiments are equally
adaptable to multiple assay region microarray and plate reader
sizes and formats (e.g., conforming to standard 24, 96, 384, 1536
well plate reader formats).
[0463] In some preferred embodiments, the assays comprise a
plurality (e.g., 2, 4, 12, 24, 48, 96 or more) of asymmetrically
patterned regions orientated in an array. In particularly preferred
embodiments, adjacent (e.g., neighboring) asymmetric substrate
regions are arranged to provide alternating (e.g., opposing)
orientations for neighboring optically opaque and the optically
transparent regions. FIGS. 30 through 32 illustrate several
contemplated asymmetrically patterned assay configurations designed
to determine the affects of a test compound (or several test
compounds and known compounds) on cell migration.
[0464] Referring to FIG. 30, a plurality of asymmetrically
patterned assay regions (200) and (300) are configured in an array
format on substrate (100). While illustrations CC through EE depict
the use of asymmetrically patterned substrates for use with liquid
crystal assays, the principle of asymmetric sampling of a substrate
surface in a multiarray format is applicable also for use with
colorimetric or fluorimetric assays as detailed in FIGS. 27 through
29. Each asymmetrically patterned assay region (200) and (300)
further provides a region that is patterned to align liquid crystal
mesogens (400) and a planar region that does not align liquid
crystal mesogens (500). The presence of cells would only be
reported, after the addition of liquid crystal mesogens, on assay
regions that are capable of aligning the mesogens. The neighboring
asymmetrically patterned assay regions ((200) and (300)) are
orientated in a opposing arrangement in regard to the respective
planar regions (400) and patterned regions (500) and located
orthogonally relative to the site of origin of a test compound
gradient (700). In preferred embodiments, the patterned region
(500) of each asymmetrically patterned assay region ((200) and
(300)) provides a cell seeding position (e.g., a depression) (600).
The embodiment depicted in FIG. 30 further provides a reservoir
(700) at one edge of substrate (100) for holding and dispersing at
least one test compound.
[0465] It is contemplated that the assay configuration illustrated
in FIG. 30 provides an increasingly attenuated concentration
(dashed lines) of test compound from reservoir (700) to the
asymmetrically patterned assay regions ((200) and (300)) as the
distance of the asymmetrically patterned assay regions ((200) and
(300)) from reservoir (700) increases. Analysis of cell migration
data obtained from asymmetrically patterned assay regions ((200)
and (300)) provides information as to the relative potency of the
test compound. For instance, a strongly chemotactic test compound
more strongly stimulates the migration of cells towards the origin
of the compound (700) in the asymmetrically patterned assay regions
((200) and (300)) distant to reservoir (700) at a given time point
than would a weakly chemotactic test compound. In preferred
embodiments, the asymmetrically patterned assay regions ((200) and
(300)) are orientated on substrate (100) to provide for automated
data acquisition and analysis (e.g., using a plate reader).
[0466] FIG. 31 represents another embodiment where substrate (100)
provides one or more rows that serve as controls of asymmetrically
patterned assay regions (800) that are prohibited from contacting a
test compound. FIGS. 31 and 32 also illustrate assay configurations
where one or more microfluidic channels. (e.g., 900 of FIGS. 31 and
750 & 850 of FIG. 32) are provided to uniform delivery of test
compounds across the substrate (100).
[0467] The present invention is not intended to be limited to the
asymmetrically patterned assay configurations described above and
in FIGS. 30 and 31. Indeed, a number of assay region configurations
are possible when employing larger numbers (e.g., 48, 64, 96, 384,
or 1536, or more) of asymmetrically patterned assay regions on a
single substrate. FIG. 32 briefly illustrates an embodiment where a
first reservoir (700) and accompanying microfluidic channels (750)
containing a known chemotactic agent are positioned in proximity to
a second reservoir (800), and accompanying microfluidic channels
(850) containing a test compound. The other elements illustrated in
the asymmetric assay configuration depicted in FIG. 32 are common
to those described in FIGS. 30 and 31, respectively. It is
contemplated that the model assay configuration illustrated in FIG.
32 provides for evaluating the ability of a test compound to affect
(e.g., augment or inhibit) a known chemotactic agent.
[0468] In some embodiments of the use of asymmetric substrates with
patterned surfaces, the assay region will be patterned over its
entire surface, but asymmetric sampling will occur due to the
asymmetric presence of an underlying opaque component that prevents
the transmission of light. FIG. 33 demonstrates one such
embodiment. In FIG. 33, panel A is a top-view of an assay region
(100) and panel B is a cross sectional view of the same assay
region. It can be seen that the assay region is asymmetric in its
sampling capabilities, with light being transmitted through region
200 but not through region 300. The entire surface of the assay
region is nanopatterned (600) to align liquid crystal mesogens.
Underlying the nanopatterned surface however is an asymmetrically
opaque substrate that is optically clear (400) underlying region
200 and optically opaque (500) underlying region 300. Thus, data
are collected, as to the presence of cells on the surface (which
disturb the orientation of liquid crystal mesogens placed on their
surface) only in the portion of the substrate that is optically
clear (200). This design has application to all of the embodiments
described above that utilize asymmetrically patterned or
asymmetrically opaque substrates (e.g. see FIGS. 27 through 32)
[0469] It is possible to use this strategy by programming a plate
reader to take asymmetric readings within a single test area.
Currently, many commercial plate readers take multiple readings
within a single well and average the readings. A reader could be
programmed to take readings asymmetrically within a test area and
could therefore be used to determine chemotaxis and chemokinesis as
outlined in previous descriptions. These embodiments are
illustrated in FIG. 34.
[0470] In some preferred embodiments, a plate reader is programmed
so that the sensing element(s) obtain multiple discreet readings
within a single analytic zone or to scan an analytic zone to locate
the perimeter and calculate the diameter of an outwardly spreading
population of cells. In this embodiment, cells are seeded centrally
onto a distinct cell seeding area. In some embodiments, the cells
are seeded using a specifically designed cell seeding device
described below that constrains the distribution of cells to a
discrete location within the analytic zone (such as the center of a
single well of a 24, 96, 384 or 1536 multiwell plate). After
initial incubation in the cell seeding device to allow for cell
attachment (time dependent on culture conditions and cell type),
the cell seeding device is removed and nonattached cells gently
removed by irrigation. The substrate with cells is then incubated
again (time dependent on culture conditions and cell type) and the
migration of cells outward from the initial cell seeding area
determined using the programmed sensing elements and analytic
software. If a factor is added to the media (such that no gradient
of the factor is present in the media) that promotes cell migration
then the outline of the outwardly migrating cells will roughly
define a circle with the diameter of the circle being proportional
to the potency of the factor to stimulate cell migration.
[0471] Similarly, this procedure could be used to evaluate
compounds that inhibit cell migration. Such assays are important
for screening of possible therapeutic compounds for the treatment
of cancer. In some preferred embodiments, this procedure is used to
assess the ability of test compounds to inhibit migration of
vascular endothelial cells which is often used as a positive
indicator for compounds used in cancer treatment. The programming
of the mechanical drivers of the sensing element(s) and analytic
software is easily accomplished by those of ordinary skill in the
art. In some embodiments, the cell seeding area is optically opaque
to avoid being read out as containing cells or it could be
transparent and the perimeter of the cells seeded into a defined
area recorded and their location determined. In other embodiments,
the sensing element(s) are programmed to avoid obtaining readings
from the initial cell seeding area.
[0472] It must be noted that this approach is not limited to use
with liquid crystal based assays but is broadly applicable to
biophotonic techniques such as calorimetric, optical densitometric,
fluorometric and radiometric methodologies. Using this strategy,
assays that separate out chemokinesis from chemotaxis can be
performed by provision of a chemotactic gradient to the initially
seeded cells (using a fluidic delivery system or a degradable
pellet to create a gradient of chemotactic factor(s)) and then
obtaining multiple readings of cell location within an analytic
zone. The software provides either analysis of discrete regions
within an analytic zone or is used to determine the resultant size
and major axis of the dispersed colony of cells. If a compound is
chemokinetic the dispersed cells will be evenly distributed around
the initial cell seeding area creating a roughly circular outline
with the diameter of the circle being proportional to the potency
of the chemokinetic compound while a chemotactic compound will
induce the cells to preferentially migrate towards the source of
the factor creating an ellipse with the long axis diameter being
proportional to the relative chemotactic potency of the compound.
This procedure could be done by modifying the software that
determines the spatial location of the sensing element(s) and the
analytic software. In another embodiment of the invention, a motive
force (including but not limited to electrical fields, magnetic
fields, and thermal fields) is used to orient thin films of liquid
crystal mesogens such that they report the presence and spatial
location of cells attached to a substrate. In this embodiment, the
mesogens are not in direct contact with the cells. This embodiment
makes use of the fact that attached cells create defined zones of
impedence (e.g., electrical and/or magnetic and/or thermal) that
attenuates the motive force(s) transmitted into the liquid crystal
film. An example of this embodiment is depicted in FIG. 35. Cells
(100) are seeded onto a non-conducting substrate (200) and allowed
to attach (the attachment time is dependent on cell type and
culture conditions). The substrate (200) may be functionalized by
adsorption or covalent bonding of constitutents that support cell
attachment and function (including, but not limited to,
extracellular matrix proteins such as collagens, laminins,
fibronectin, vitronectin, osteopontin, thromospondin, Intercellular
adhesion molecule-1 (ICAM-1), ICAM-2, proteoglycans such as
chondroitin sulfate, von Willebrand factor, entactin, fibrinogen,
tenascin, Mucosal adressin cell adhesion molecule (MAdCAM-1), C3b,
and MDC (metalloprotease/disintegrin/cysteine-rich) proteins),
nucleic acids, specific receptors and cell receptor recognition
sequences (e.g., cadherein, immunoglobulin superfamily, selectin,
mucin and integrin binding sequences such as RGD, EILDV, LDV, LDVP,
IDAP, PHSRN, SLDVP, GRGDAC, and IDSP,)). Once attached, a thin film
of liquid crystal mesogens (300) is placed in contact with the
surface of the substrate opposite to the surface to which cells are
attached. With attached cells it makes no difference if the cells
are on the upper or the lower surface. A motive force (400,
represented by large arrows on lower part of diagram) that is
capable of orienting liquid crystal mesogens once a threshold level
is attained, is applied across the substrate (100). The magnitude
of the motive force is set to be just above threshold for orienting
the liquid crystal mesogens overlying the substrate (200) in
regions where cells are not attached. At near threshold values, the
impedence of attached cells will prevent the orientation of
mesogens located on the substrate (200) immediately opposite their
site of attachment. The diferential attenuation of the motive force
as it passes through the cells, substrate and subsequently through
the LC film is represented by differing size arrows in the upper
part of the diagram (500). This results in regions of the liquid
crystal film where mesogens are oriented by the motive force and
regions (correlating to cell attachment zones) where mesogens are
not exposed to a sufficient magnitude of motive force to cause
orientation of mesogens.
[0473] In preferred embodiments, the motive force is an electric
field applied by first and second electrodes positioned on either
side of the substrate. In preferred embodiments, an aqueous
electrolyte is incorporated between the cell side of the substrate
and the first or second electrode. The electrodes are preferably
either solid slab-type electrodes, or more preferably made of a
wire mesh. In operation, a potential difference is applied across
the substrate. The presence of cells perturbs the electric field
lines in a manner that perturbs orientation of the liquid crystal,
causing the cells to be imaged.
[0474] This embodiment has applications for the detection of cell
number useful in assays of cell attachment and cell proliferation.
Additionally, since the magnitude of motive force impedence
directly correlates with firm cell attachment to the substrate,
this embodiment is useful for evaluating the toxic effects of test
compounds. A compound toxic to cells will cause weakening or
dissolution of attachment to the underlying substrate that in turn
results in a quantifiable loss of impedence thus making the
mesogens opposite the region occupied by the cell more succeptible
to the orienting influence of the motive force(s).
[0475] FIG. 36 demonstrates another embodiment of the invention. In
this embodiment, cells (100) are seeded on a substrate (200) that
has 10 nm to 1 .mu.m diameter perforations in it (300). Such a
substrate can be fabricated using a variety of techniques including
but not limited to photolithography, x-ray lithography and e-beam
lithography. The registered array of perforations would be
introduced into a substrate that is insulating in nature,
preventing transmission of motive forces into the liquid crystal
mesogens located on the surface opposite the surface cells are
attached to. A thin conducting fluid layer (biologically inert to
cells) is placed on the surface opposite the cells prior to
placement of a thin film of LC mesogens. This creates distinct
zones of readout of known spatial distribution that will facilitate
development of automated process for information processing.
[0476] In other embodiments, cells are grown to confluence on test
substrates which allow assessment of the integrity of intercellular
adhesions. Similar to assays that utilize transepithelia membrane
resistance to the conduction of electric fields, this assay has
applications to studies of functional morphology, for studies of
pathobiology of infectious organisms, to the evaluation of toxic
effects of test compounds, and to the in vitro evaluation of
neoplastic invasiveness (Zak et al). An example of this embodiment
is given in FIGS. 37A and 37B. Cells (100) are seeded on a
substrate (200) that conducts a motive force (eg, electrical and/or
magnetic and/or thermal fields). Epithelial cells are incubated and
allowed to grow to confluence at which point they develop
intercellular junctions (300) which makes them more resistant to
transmitting motive forces through the substrate and subsequently
into a thin film of liquid crystal mesogens (400). At near
threshold values of motive force (large arrows in lower part of
illustration (500) the intact cellular monolayer prevents
transmission of sufficient motive force to align LC mesogens. The
attenuation of motive force by the intact epithelial monolayer is
depicted by small arrows (600) in the upper part of FIG. 37A.
[0477] FIG. 37B depicts the consequences of exposure to a test
compound that is toxic for the epithelial cells. In this case
cellular toxicity (100) is manifested by a breakdown of the
intercellular junctions (300) and a loss of impedance (resistance)
of the epithelial layer to transmission of motive force(s) into the
mesogenic layer located on the surface opposite the cells. In this
case, the motive force is sufficient (depicted by large arrows-600)
to align the mesogenic layer. This change in the orientation of the
liquid crystal mesogens can be quantitated by all of the means
previously described in this application. Orientation shifts in the
liquid crystal mesogen orientation can be continuously monitored
prior to and after exposure to test compound or can be quantitated
at pre-determined time points.
[0478] In some embodiments, the substrate (100) consists of an
insulating material (200) (e.g., glass in the case of using
electric fields as the motive force) with a central window (300)
comprised of a conducting material, capable of supporting cell
attachment and function, that allows the transmission of motive
force(s). These relationships are depicted in FIG. 38A.
[0479] FIG. 38B illustrates the use of this substrate with cells.
Cells (400) are seeded on the substrate (100) that is comprised of
an insulating material (200) and contains a central window (300)
that is conductive for the motive force(s) being used to orient LC
mesogens. Once confluence is reached mature intercellular adhesions
form (500) that contributes to the resistance to passage of the
motive force(s).
[0480] In another embodiment, LC mesogens are used to report
electrical activity of cells in culture. Types of cells of interest
for study include, but are not limited to, neuronal cells, cardiac
cells and muscle cells. In this embodiment, cells are cultured on
standard laboratory plastic or glassware. A thin film of LC
mesogens either non-toxic to the cell type being studied and/or
separated from the cell by addition of a thin film of phospholipid
that has been shown to interface with mesogenic layers. Electrical
activity in the cell results in alteration of the orientation of LC
mesogens immediately adjacent to the cell. This change in order can
be visualized using all of the techniques previously described.
[0481] C. Cytology Assays
[0482] In still further embodiments, the present invention provides
compositions and methods for reporting cytoskeletal alignment in
cell membranes. For example, in certain embodiments, liquid
crystals are used to report the order of cytoskeletal elements
transmitted through the cell membrane. In some embodiments, the
liquid crystal layer is placed directly onto the cells of interest.
In other embodiments, the membranes of the cells of interest are
solubilized (e.g., using surfactants) to reveal the cytoskeleton to
the liquid crystal layer itself. In some embodiments, the liquid
crystal layer can be the surfactant (e.g., lyotropic liquid
crystals).
[0483] In other embodiments of the present invention, compositions
and methods are provided for quantitating the production of
specific (or nonspecific) cellular secretory products. The present
invention further contemplates specific embodiments directed to
quantitating the secretion of specific secretory products in
response to contacting cells of interest with one or more compounds
that induce secretion of extracellular products. In a preferred
embodiment, a nanostructured substrate is fabricated with specific
binding sequences incorporated into its surface (e.g., targeted to
bind a specific protein product of the cell such as a growth factor
or cytokine). Cells of interest are seeded onto the substrate and
allowed to attach and grow under appropriate conditions. In a
preferred embodiment of the invention, the surface that supports
the cells is a second surface, and the first surface is that
surface that is fabricated with specific binding sequences
incorporated into its surface. This second surface may be placed
above or below the first surface. Production of a gradient of
liquid crystal response is visualized as a halo effect around the
cell(s) with the greatest concentration of a specific factor being
closest to the cell(s). (See, FIG. 39). Briefly, FIG. 39 shows the
zone of liquid crystal response (200) produced around a cell(s) of
interest (100) upon secretion of a specific secretory product by
the cell(s). It is contemplated that an estimation of the amount of
product secreted by a cell can be correlated to the diameter (ring)
of liquid crystal response surrounding the cell. For example, in
one specific embodiment, the assays and techniques disclosed herein
allow for evaluating cellular secretion of Nerve Growth Factor
(NGF) in response to exposure to one or more trophic factors such
as EGF.
[0484] From the above examples, it is clear that the present
invention allows for the investigation of cellular secretory
responses of single cells or small groups of cells to a variety of
environmental stimuli. It is also clear that these techniques and
assay substrates allow for the detection and quantitation of
cellular factors that are secreted asymmetrically in response to
environmental stimuli delivered by additional cells. (See, FIG.
40). FIG. 40 shows, the zone of liquid crystal response (200)
produced by a cell(s) of interest (100) upon secretion of a
specific secretory product influenced by the presence of another
cell (300). Examples would be the stimulation of secretion of
factors by epithelial cells (100) due to factors released by
adjacently located neuronal cells (300).
[0485] In still other embodiments, the secretory response assays
disclosed herein are adapted for use with the substrates,
reservoirs, and microfluidic systems disclosed above, such that a
cell's secretory profile can be quantitated in response to one or
more compound gradients established across a liquid crystal
surface. For example, FIG. 41 shows the secretory response (300) of
two cells (200) reported through a suitable liquid crystal surface
(100) in response to a compound gradient established by a reservoir
(400) on the substrate.
[0486] In a preferred embodiment of the invention, micrometer and
nanometer-sized channels are patterned into the surfaces that
support the cells. The flow of liquid along the channels permits
the sampling of secretory products from the cells that cover the
channel. The secretory products collected from the channel can be
assayed by using methods that involve the use of liquid crystals,
which are well known to those skilled in the art, of by
conventional methods of analysis such as mass spectroscopy, UV-Vis
absorption spectroscopy, ELISA, gel electrophoresis and other
methods of analysis applicable to secretory products.
[0487] It is contemplated that the cell secretory product assays
can be engineered (e.g., adapted) for use with any of the cell
migration and motility assay configurations disclosed herein, thus
allowing the detection of asymmetric secretion in association with
cell migration. In FIG. 42, the nonspecific interaction of the cell
(200) during migration across the substrate (100) (having a test
compound reservoir (400)) creates a change in the order of the
surface of the substrate (100) in its wake which is reported by the
liquid crystal layer (300), the presence of the cell (200) is
reported by the cell blocking access of the ordered substrate to
the liquid crystal layer placed on top and the presence of a
specific secretory product (500) of the cell is being reported by
the specific receptors which have been incorporated into the
nanostructured surface of the substrate (100). A reservoir (400)
has been incorporated into this example to demonstrate an
asymmetric secretory process (500) by the cell (200) in response to
a gradient of a soluble factor being delivered across the surface
of substrate (100).
[0488] Changes in the metabolic states of cells give rise to
changes in the heat output. Because the order within a liquid
crystalline can be a strong function of temperature, liquid
crystals can be used to detect changes in the heat output of cells.
For example, calorimetric changes can be associated with change in
metabolic state such as phagocytosis via stimulation with LPS. This
could be by simply placing LC on a single cell or population of
cells on a nanostructured (ordered) substrate or by using the
hybrid ECM-LC. A preferred embodiment of the invention, makes use
of mixtures of liquid crystals that possess phase transitions at
the temperatures similar to those used for cell cultures. In a
preferred embodiment of the invention, the liquid crystal is cooled
towards a phase transition and the appearance of the liquid crystal
is monitored during the ramp in temperature. The liquid crystal can
be a liquid crystalline substrate on which cells are grown. A
preferred embodiment of the invention is a liquid crystalline
substrate that is decorated with phospholipids or other biological
receptors that interact with cells. The liquid crystals can also be
lyotropic liquid crystals, and thus cell culture can occur in the
presence of the liquid crystal overlying the cells during imaging
of the cells.
[0489] D. Plate Top Devices
[0490] The present invention also provides novel plate top devices
for use in conjunction with multiwell (i.e., 8, 16, 24, 96, 364
etc.) plates. In some embodiments, the plate top devices provide
anchoring surfaces for mesogens utilized in the assay. Referring to
FIG. 43, one embodiment of a plate type device (100) of the present
invention comprises a plate top surface (200). A plurality of
elongated members (300) extend outwardly from the plate top surface
(200). In preferred embodiments the plate top members comprise a
distal end (400) having a distal end surface (500). In preferred
embodiments, the elongated member (300) is a hollow cylinder. In
further preferred embodiments, the distal end (400) is comprised of
a optically clear, non-birefringent material (e.g., polycarbonate).
In further preferred embodiments, the distal end surface (500) is
configured to orient mesogens. Any suitable surface preparation may
be used, including, but not limited to, rubbed surfaces, surface
with obliquely deposited metals, nanoblasted surfaces.
[0491] Referring to FIG. 44, the plate top device is placed over a
multiwell plate (100, only a portion is shown) having a number of
wells (600) equal to the number of elongated members (300) so that
each of the elongated members (300) extends into a corresponding
well (600). Preferably, the elongated member (300) extends
substantially to the bottom of the well (600) so that a thin film
of liquid crystal (700) is present between distal end (400) of the
elongated member (300). In still other preferred embodiments, the
dimensions of the elongated member (300) are only fractionally
smaller than the interior dimensions of the wells (600) so that
extra liquid crystal mesogens pass upwards along the sides of the
elongated members (300) placed in the wells (600). It is
contemplated that this arrangement creates uniform contact of the
distal end (400) of the elongated member (300) with the liquid
crystal film (700).
[0492] The present invention also provides plate tops useful for
delivering cells to a predetermined area in a well of a multiwell
plate. Referring to FIG. 45, the cell delivery plate top (100)
comprises a plurality of elongated members (200) extending downward
from a plate top (not shown). When the plate top is placed onto a
multiwell plate (300) the elongated members extend into the wells
(400) of the multiwell plate so that the distal end (500) of the
elongated member (200) contacts the surface (600) of the well
(400). In some preferred embodiments, the surface (600) is
substantially flat. In other preferred embodiments, the surface of
the well (600) has a depression therein. Preferably the distal end
(500) comprising an opening (550). In some preferred embodiment,
the opening is from about 1-4 mm. In some further preferred
embodiments, the edges of the opening 550 are coated with a gasket
material, ensuring a tight seal with the surface (600).
Non-limiting examples of gasket material include silicone, latex,
and petroleum jelly. In other embodiments, the edges of the opening
(550) are coated with a hydrophobic material to discourage cell
seepage or migration beyond the perimiter of the cylinder opening.
In preferred embodiments, the elongated member (200) is hollow so
that a solution of cells may be passed through the elongated member
(200) to the surface (600). In particularly preferred embodiments,
the elongated member (200) is conical in shape. However, the
invention is not limited to any particular shape of elongated
member (200). For example, the elongated member (200) may be
cylindrical and triangular in shape. In further preferred
embodiments, the elongated members (200) are oriented with respect
to the wells (400) of the multiwell plate (300) so that cells are
delivered to the center of the wells (400). The plate tops of the
present invention are not limited to any particular material.
Indeed, the plate tops may be formed from stainless steel or tissue
culture polystyrene.
[0493] In use, cells in solution are pipetted into the elongated
members (200). The cells are allowed to settle and attach to the
surface (600) of the wells (200). After being allowed to attach for
a specified period of time (incubation time being determined by
cell type and culture conditions), the plate top is removed and
non-adherent cells are removed by gentle washing. Culture media is
then added to the wells and a standard plate top is placed onto the
multiwell plate. In still further embodiments, the plate top
devices are used to perform cell invasion assays. In these
embodiments, the cells are seeded onto a substrate using the plate
top device (or applied by some other method) and allowed to attach.
Non-attached cells are rinsed off and the cells are labeled (e.g.,
with a fluorochrome or vital dye). The substrate is then overlayed
with a matrix. The matrix could be an extracellular matrix such as
a basement membrane like complex collagen 1 or other extracellular
matrices or could be agar. The cells are allowed to incubate. A
plate reader is then used as described above in more detail to
determine how far the cells have migrated from the original seeding
point. In other words, the plate reader can be used to identify the
area over which the cells have migrated by detecting the cells
labeled cells. This methodology may also be utilized to perform a
migration assay, except that no matrix is utilized.
VIII. Zymography Assays
[0494] In still other embodiments, the present invention provides
devices and methods that utilize liquid crystals to report the
results of zymology assays. In particular, it is contemplated that
the liquid crystal assay devices of the present invention can be
used to report the action of enzyme on its substrate. In some
preferred embodiments, the substrates are patterned or otherwise
treated as described above (see, e.g., description relating to
collagen, MATRIGEL, and other substrates) so that they orient
mesogens. An analyte or sample suspected of containing an analyte
(which can be an enzyme that acts on the substrate) is then
contacted with the substrate so that the analyte can interact with
or act on the substrate. The liquid crystal is then applied to the
substrate. Activity by the analyte on the substrate is detected by
a lack or order in the liquid crystal.
[0495] In other embodiments, an enzymatic substrate is applied to a
surface that orients liquid crystal (e.g., a surface onto which
gold has been obliquely deposited) so that the placement of the
enzymatic substrate on the surface prevents orientation of the
liquid crystal. The analyte or sample suspected of containing an
analyte is then contacted with the enzymatic substrate so that the
analyte can interact with or act on the enzymatic substrate. The
liquid crystal is then applied to the enzymatic substrate. Activity
by the analyte on the enzymatic substrate is detected by the
presence of order in the liquid crystal.
[0496] In some embodiments, an enzymatic substrate is covalently
immobilized on a surface and then rubbed so that liquid crystals
are aligned by the enzymatic substrate. A sample suspected of
containing an enzymatic activity specific for the enzymatic
substrate is then contacted with the enzymatic substrate. After
allowing time for a reaction to occur, a liquid crystal is then
applied to the substrate. The presence of an enzyme capable of
acting on the enzymatic substrate is evidenced by an absence of
liquid crystal alignment. In some preferred embodiments, the
enzymatic substrate is present in plurality of analytic zones on a
substrate surface. In further preferred embodiments, the samples
are transported to the analytic zones via microfluidic channels. In
still further embodiments, the degree of loss of liquid crystal
alignment is proportional to enzyme content in the sample.
[0497] In still other embodiments, enzymatic substrates are
nanostamped onto a surface to introduce anisotropy. Action of an
enzyme in a sample on the enzymatic substrate causes loss of the
anisotropy, which is detected by application of a liquid crystal.
It will be recognized that this approach can also be used for
creating anisotropy with a recognition moiety such as an
immunoglobulin.
[0498] The zymographic methods described above find use for the
study of a variety enzymes. The methods are not limited to the
analysis of one enzymatic substrate at a time. For example, more
than one enzymatic substrate may be applied to any given analytic
zone. Likewise, the methods are not limited to any particular
sample type. In some embodiments, the sample is aqueous. In other
embodiments, the sample is a sectioned tissue (e.g., cryosectioned
tissue) that is contacted with the analytic zone and allowed to
incubate. The sectioned tissue is then removed, the analytic zone
rinsed, and imaging is conducted by application of a liquid
crystal. The present invention is also not limited to any
particular type of analytic zone. In some embodiments, the analytic
zones are circular or square. In other embodiments, the analytic
zones are microfluidic channels. When the sample is caused to flow
through the channel, the amount of enzyme in the channel is
proportional to the length along the microfluidic channel in which
liquid crystal alignment is disrupted.
[0499] In still other embodiments, the sample are partially
purified before being applied to the enzyme substrate. For example,
where a sample may contain more than one enzyme that is capable of
acting on a substrate, a non-target enzyme or enzymes may be
removed by passing the sample along a microaffinity column that
removes the non-target enzyme(s). In preferred embodiments, the
microaffinity column comprising micro- or nano-beads that are
coated with antibodies specific for the non-target enzyme(s).
Experimental
1. Fabrication of Nanostructured Substrates for Use in Cell
Assays.
[0500] Nanostructured substrates that align liquid crystal (LC) for
use in LC cell assays have been fabricated using: 1) nanoscale
molding, 2) nanoabrasives, 3) obliquely deposited gold films.
[0501] Nanomolded substrates were fabricated by the molding of
polyurethane and polystyrene from hard masters prepared in silicon.
The silicon masters were prepared by electron beam lithography and
the topography present in the masters had a width of 200 nm and a
height of 50 nm. Studies indicated that immersion of these
substrates into aqueous media (phosphate buffered saline) for at
least 24 hours does not lead to loss of topography. Furthermore,
because of the relatively large scale features, these substrates
did not respond (in terms of LC alignment) to non-specific protein
adsorption. Polyurethane, micromolded, nanostructured substrates
with 50 nm deep tracks were incubated for 4 hrs with cell culture
medium (MEM) containing 10% fetal bovine serum. The ability to
align LC's was not affected. When viewed with a polarizing
microscope, the area within the tracks appeared dark and uniform,
while the areas outside of the tracks appeared bright. Sharp
lateral resolution of the LC alignment between nanostructured
regions and non-structured region of the surface was observed
microscopically.
[0502] Abraded surfaces were created on glass slides by hand
rubbing the slides with a fine commercial emery cloth. Even
pressure was applied throughout the rubbing. A liquid crystal film
was applied on the surface of the abraded slide and viewed through
polarizing filters. The liquid crystal film appeared dark when
viewed through crossed polars indicating that the liquid crystals
were aligned on the nano-abraded surface. Cell culture medium (MEM)
containing 10% fetal calf serum was incubated on the surfaces. A
film of LC's was added to the surface. When viewed with polarizing
lenses, the LC's were aligned on the surface, indicating that the
alignment of LC's is not affected by protein adsorption to the
nano-abraded surface.
[0503] Obliquely deposited gold films were prepared on glass
slides. The gold was deposited from a vapor that impacts the glass
slide at an oblique angle of incidence (12.5 degrees). This method
leads to a surface with nano-meter scale statistical topography.
The slide was incubated with cell culture medium (MEM) containing
10% fetal calf serum. Following the removal of the cell culture
medium, a layer of LC was applied and the slide was visualized
through polarizing filters. The liquid crystals were aligned on the
slide. This demonstrates that such surfaces will be useful in
liquid crystal based cellular assays.
2. Liquid Crystals Reliably Report Cell Number
[0504] CHO K1 cells were seeded in DMSO onto anisotropically
ordered nanostructured substrates of obliquely deposited gold that
align liquid crystals. The cells were allowed to attach for 4
hours. The media was removed and the cells were fixed in methanol,
gluteraldehyde or they were left unfixed. The slides were either
dried in a stream of Nitrogen or left wet and then covered with a
film of a nematic LC. A variety of LC films, including 5CB, E7 and
TL205 were able to accurately report the presence of cells
regardless of their state of hydration or method of fixation.
Substrates with 100, 300, 600 and 1200 cells per 3.14 mm2
(equivalent to approx 5,600-67,000 cells seeded into a single 15 mm
diameter of a 24 well plate) were imaged through polarizing filters
and the images were analyzed for gray scale intensity using NIH
Image software. The presence of cells locally prevents the LC film
from gaining access to the ordering influence of the underlying
nanostructured substrate. Regions of the LC film directly overlying
cells are therefore disordered and do not preserve the plane of
polarization of light. When viewed in a cross polar configuration
the amount of light transmitted is therefore proportional to cell
number. These data are presented in FIG. 47.
3. Stability of LC Response
[0505] It was noted in the experiments conducted with cells, the LC
assays provide an unambiguous signal that persists for weeks
without appreciable change. This was true of cells that were fixed
prior to the addition of LC and to live cells coated with the
LC.
[0506] 4. LC's do not Inhibit Cell Mobility.
[0507] Matrigel (diluted 1:1 with MEM) and LC TL 205 were mixed in
equal volumes and the emulsion was applied to a glass slide which
was incubated at 37 C for 30 minutes. Hepa-1c1c7 (hepatic rodent
cell line) was plated onto the matrix and incubated for 2 hrs. The
cells were visualized with a microscope. In the presence of LC TL
205, the cells formed tracks on the Matrigel. This experiment shows
that LC 205 is not inhibitory to cellular movement and that imaging
of cellular movement on Matrigel by LC's is feasible.
5. Quantification of an Analyte Using Microfluidic Channels and
Liquid Crystals
[0508] This example describes the results of an experiment in which
disruption of a liquid crystal along a microfluidic channel was
used quantify the amount of an analyte in a sample. Five
microchannels were (1 mm wide by 25 .mu.m deep) were formed on a
block of PDMS that was supported on a glass slide. Samples
containing PBS (control) or biotin-bovine serum albumin (BSA) in
varying concentrations: 12.5, 25, 50 or 100 .mu.g/ml, were placed
into a reservoir and moved into the microchannel by capillary
force. The substrate was incubated at 37.degree. C. for 60-90
minutes. After incubation, a vacuum was applied to remove the
liquids from the microchannels and reservoirs. The PDMS was then
peeled off from the glass slide, rinsed with water, dried in a
stream of nitrogen gas and placed onto an OTS treated glass slide.
Liquid crystals (E7) were introduced into each microchannel through
its reservoir by capillary force. Images of the alignment of liquid
crystals inside the microchannels were taken with a polarized
microscope.
[0509] Liquid crystals assume a homeotropic alignment on the PDMS
in the absence of bound protein. This region appears dark and
homogenous when viewed through polarizing lenses. When biotin-BSA
is present on the surface of the microchannel, the liquid crystal
loses its homeotropic alignment. This disruption is evidenced by
the transmission of light in the regions where protein is bound.
The higher the concentration of protein in the sample, the longer
the region of disruption along the microchannel (FIG. 48). The
length of the disruption of liquid crystals alignment in the
microchannel was measured from the images by using the width of the
microchannel (1 mm) as a standard. Additional experiments with
higher concentrations of biotin-BSA (6.25-400 .mu.g/ml) showed
similar results.
6. Detection of Zymographic Activity by Liquid Crystals
[0510] The enzymatic digestion of a protein substrate can be
detected by the orientation of a layer of liquid crystals placed
upon the substrate following exposure to an enzyme. To demonstrate
this, we prepared thin films of obliquely deposited gold
(45.degree.) on glass slides. The gold slide was functionalized
with a self assembling monolayer of an alkanethiol (2 mM, C16SH). A
solution of collagen IV (BD Biosciences, 50 .mu.g/mL) was incubated
on the slide for 2 hrs at 37.degree. C. A test sample containing 1
pg total enzyme of activated MMP-9 (Chemicon) in 5 mM Tris buffer
with 0.005 IGEPAL, pH7.5 was added to the surface and incubated for
30 minutes at 37.degree. C. The surfaces were washed with water,
dried with a stream of nitrogen and a drop of liquid crystal was
placed on the surface. The alignment of the liquid crystal was
observed microscopically and the degree of disruption of the liquid
crystal alignment was measured using Scion software.
[0511] Liquid crystals align in a regular fashion on the surfaces
prepared with SAM. On surfaces presenting collagen IV, the liquid
crystals appear disordered when viewed through a polarizing filter.
If MMP-9 digests the collagen IV, the underlying SAM is exposed and
liquid crystals align on the SAM. FIG. 49 demonstrates that a
surface presenting collagen IV causes disruption in the alignment
of the liquid crystal layer (0 min), however, after 30 minutes
incubation with 1 pg MMP-9, the collagen IV has been digested and
the liquid crystals align on the exposed SAM (30 min).
[0512] All publications and patents mentioned in the above
specification are herein incorporated by reference. Various
modifications and variations of the described method and system of
the invention will be apparent to those skilled in the art without
departing from the scope and spirit of the invention. Although the
invention has been described in connection with specific preferred
embodiments, it should be understood that the invention as claimed
should not be unduly limited to such specific embodiments. Indeed,
various modifications of the described modes for carrying out the
invention that are obvious to those skilled in chemical
engineering, cell biology, or molecular biology or related fields
are intended to be within the scope of the following claims.
* * * * *