Photoactive compounds and methods for biomolecule detection and sequencing
First Claim
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1. A method of determining a sequence of a target polynucleotide, comprising:
- providing an array comprising a plurality of wells, wherein said wells comprise a target polynucleotide to be sequenced bound to a surface of said well, and wherein said plurality of wells each comprise a sensor for detecting an electronic signal from said wells;
performing a sequencing reaction comprising performing at least one cycle, each cycle comprising;
contacting said wells with a solution comprising reagents for performing a polymerase extension reaction, said solution comprising a modified nucleotide comprising a photoactive group and a removable blocking group;
exposing said well to conditions to promote incorporation of one of said modified nucleotides at the 3′
end of a primer or probe hybridized to said single polynucleotide;
washing said well to remove unbound modified nucleotides;
exposing said well to a wavelength of light to induce said photoactive group to generate and acid or a base, thereby generating a detectable change in ion concentration;
detecting the change in ion concentration with said sensor; and
if another cycle of the sequencing reaction is to be performed, removing said removable blocking group from said incorporated nucleotide.
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Abstract
Disclosed herein are compositions, probes, devices, and processes useful for detecting specific reactions and binding interactions with biological molecules. In certain embodiments, methods of binding one or more biomolecules to a solid support are disclosed. Methods of generating site-specific sequences for one or more biomolecules from a solid support are also disclosed. Biological complexes generated by these methods are also disclosed.
15 Citations
22 Claims
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1. A method of determining a sequence of a target polynucleotide, comprising:
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providing an array comprising a plurality of wells, wherein said wells comprise a target polynucleotide to be sequenced bound to a surface of said well, and wherein said plurality of wells each comprise a sensor for detecting an electronic signal from said wells; performing a sequencing reaction comprising performing at least one cycle, each cycle comprising; contacting said wells with a solution comprising reagents for performing a polymerase extension reaction, said solution comprising a modified nucleotide comprising a photoactive group and a removable blocking group; exposing said well to conditions to promote incorporation of one of said modified nucleotides at the 3′
end of a primer or probe hybridized to said single polynucleotide;washing said well to remove unbound modified nucleotides; exposing said well to a wavelength of light to induce said photoactive group to generate and acid or a base, thereby generating a detectable change in ion concentration; detecting the change in ion concentration with said sensor; and if another cycle of the sequencing reaction is to be performed, removing said removable blocking group from said incorporated nucleotide. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20)
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21. A method of detecting a sequence identity of a target polynucleotide, comprising:
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providing a substrate an immobilized target polynucleotide hybridized to a primer or probe; contacting said immobilized target polynucleotide with a solution comprising reagents for performing a polymerase extension reaction, said solution comprising a set of modified nucleotides comprising a photoactive group and a blocking group; exposing said substrate to conditions to promote incorporation of one of said modified nucleotides at the 3′
end of said primer or probe;washing said substrate to remove unbound modified nucleotides; exposing said immobilized target polynucleotide to a wavelength of light to induce said photoactive group to generate an acid or a base, thereby generating a detectable change in ion concentration in a solution surrounding said immobilized target polynucleotide if said modified nucleotide is incorporated into said target polynucleotide; detecting said change in ion concentration; and determining a sequence identity of said target polynucleotide from said detected change in ion concentration.
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22. A method of detecting a target biomolecule, comprising:
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providing probe capable of binding specifically to a target biomolecule, wherein said probe is bound to a photoacid generator or a photobase generator; contacting a sample suspected of comprising said target biomolecule with said probe; removing unbound probes from said sample; exposing said sample to an wavelength of light capable of activating said photoacid generator or said photobase generator, such that said probe, if bound to said target biomolecule, releases an acid of a base upon exposure to said wavelength of light; and detecting a concentration of ions in the sample, thereby identifying the presence or absence of said target analyte based on a change of said concentration of ion.
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Specification