Compositions and methods of detecting an analyte by using a nucleic acid hybridization switch probe
First Claim
1. A hybridization switch probe (HSP) specific for detection of an analyte, comprising:
- a first nucleic acid arm sequence;
a second nucleic acid arm sequence that is different from the first nucleic acid arm sequence;
a nucleic acid support sequence that is at least partially complementary to the first nucleic acid arm sequence and at least partially complementary to the second nucleic acid arm sequence, whereby under hybridization conditions the support sequence forms a hybridization duplex with either the first nucleic acid arm sequence thereby forming a first HSP conformation, or the second nucleic acid arm sequence thereby forming a second HSP conformation;
a label that produces a signal that indicates the conformation of the hybridization switch probe, and a binding pair member that forms a specific binding pair complex with the analyte, wherein the specific binding pair complex produces a conformational change in the hybridization switch probe that results in a detectable signal.
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Abstract
Compositions are described for detecting binding of an analyte to a binding partner attached to a nucleic acid hybridization switch probe that includes first and second arm sequences and a support sequence that is at least partially complementary to both arm sequences, allowing the probe under hybridization conditions to form a first conformation in the absence of the analyte and to form a second conformation in the presence of the analyte, and a label associated with the probe that produces a signal that indicates the conformation of the probe. Methods are described for detecting an analyte that forms a specific binding pair with the binding partner attached to the hybridization switch probe, thereby changing the probe from a first to a second conformation that results in a detectable signal that indicates the presence of the analyte in the sample.
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Citations
32 Claims
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1. A hybridization switch probe (HSP) specific for detection of an analyte, comprising:
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a first nucleic acid arm sequence;
a second nucleic acid arm sequence that is different from the first nucleic acid arm sequence;
a nucleic acid support sequence that is at least partially complementary to the first nucleic acid arm sequence and at least partially complementary to the second nucleic acid arm sequence, whereby under hybridization conditions the support sequence forms a hybridization duplex with either the first nucleic acid arm sequence thereby forming a first HSP conformation, or the second nucleic acid arm sequence thereby forming a second HSP conformation;
a label that produces a signal that indicates the conformation of the hybridization switch probe, and a binding pair member that forms a specific binding pair complex with the analyte, wherein the specific binding pair complex produces a conformational change in the hybridization switch probe that results in a detectable signal. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12)
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13. A kit comprising a hybridization switch probe that comprises:
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a first nucleic acid arm sequence;
a second nucleic acid arm sequence that is different from the first nucleic acid arm sequence;
a nucleic acid support sequence that is at least partially complementary to the first nucleic acid arm sequence and to the second nucleic acid arm sequence, whereby under hybridization conditions the support sequence forms a hybridization duplex with the first nucleic acid arm sequence to form a first conformation of the hybridization switch probe, or with the second nucleic acid arm sequence to form a second conformation of the hybridization switch probe;
a label that produces a signal that indicates the conformation of the hybridization switch probe;
and a binding pair member that forms a specific binding pair complex with an analyte detected by the hybridization switch probe, wherein the specific binding pair complex produces a conformational change in the hybridization switch probe that results in a detectable signal from the label. - View Dependent Claims (14)
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15. A method of detecting an analyte in a sample, comprising:
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forming a reaction mixture comprising a sample containing an analyte and a hybridization switch probe specific for the analyte, wherein the hybridization switch probe is made up of a first nucleic acid arm sequence, a second nucleic acid arm sequence that is different from the first nucleic acid arm sequence, a nucleic acid support sequence that is at least partially complementary to the first nucleic acid arm sequence and to the second nucleic acid arm sequence, a label that produces a detectable signal, and a binding pair member that binds the analyte to form a specific binding pair complex that produces a conformational change in the hybridization switch probe, and wherein the hybridization switch probe is in a first HSP conformation in which one arm sequence is in a hybridization duplex with the support sequence;
binding the analyte to the binding pair member, thereby forming a specific binding pair complex on the hybridization switch probe;
producing a conformational change from the first HSP conformation to a second HSP conformation resulting from formation of the specific binding pair complex; and
detecting a signal change from the label that indicates the conformational change, thereby indicating the presence of the analyte in the sample. - View Dependent Claims (16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32)
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Specification