Fluorerscence polarization detection of nucleic acid amplication
First Claim
1. A method for detecting amplification of a double-stranded nucleic acid target sequence in a Strand Displacement Amplification reaction (SDA), the method comprising:
- a) including in the SDA reaction a first amplification primer for SDA which hybridizes to a first strand of the target sequence, and a fluorescently-labeled single-stranded detector probe which hybridizes to the first strand of the target sequence downstream of the first amplification primer;
b) extending the first amplification primer and the detector probe on the target sequence, thereby producing (i) a detector probe extension product which is displaced from the first strand of the target sequence by extension of the first amplification primer and (ii) a first amplification primer extension product;
c) hybridizing a second amplification primer for SDA to the detector probe extension product and the first amplification primer extension product;
d) extending the second amplification primer on the detector probe extension product and the first amplification primer extension product, thereby converting the detector probe extension product to double-stranded form and amplifying the target sequence, and;
e) detecting an increase in fluorescence polarization as an indication of amplification of the target sequence.
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Abstract
Fluorescence polarization methods for detection of nucleic acid amplification. A fluorescently labelled oligodeoxynucleotide probe is converted from single- to double-stranded form in a target dependent manner during amplification of the target sequence. This conformational change is accompanied by an increase in fluorescence polarization values. The increase in fluorescence polarization can be measured on a transient-state fluorometer in real-time during the amplification reaction without any physical manipulation of the sample. The inventive methods therefore provide a closed, homogeneous system for both amplification of target sequences and detection of amplification. Alternatively, amplification may be detected in the fluorometer after the amplification reaction is completed.
135 Citations
18 Claims
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1. A method for detecting amplification of a double-stranded nucleic acid target sequence in a Strand Displacement Amplification reaction (SDA), the method comprising:
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a) including in the SDA reaction a first amplification primer for SDA which hybridizes to a first strand of the target sequence, and a fluorescently-labeled single-stranded detector probe which hybridizes to the first strand of the target sequence downstream of the first amplification primer; b) extending the first amplification primer and the detector probe on the target sequence, thereby producing (i) a detector probe extension product which is displaced from the first strand of the target sequence by extension of the first amplification primer and (ii) a first amplification primer extension product; c) hybridizing a second amplification primer for SDA to the detector probe extension product and the first amplification primer extension product; d) extending the second amplification primer on the detector probe extension product and the first amplification primer extension product, thereby converting the detector probe extension product to double-stranded form and amplifying the target sequence, and; e) detecting an increase in fluorescence polarization as an indication of amplification of the target sequence. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 13, 17, 18)
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9. A method for detecting amplification of a nucleic acid target sequence in an amplification reaction, the method comprising:
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a) including in the amplification reaction a first amplification primer which hybridizes to a first strand of the target sequence and a fluorescently-labeled detector probe which hybridizes to the first strand of the target sequence downstream of the first amplification primer; b) extending the first amplification primer and the detector probe on the target sequence, thereby producing (i) a detector probe extension product which is displaced from the first strand of the target sequence by extension of the first amplification primer and (ii) a first amplification primer extension product; c) hybridizing a second amplification primer to the detector probe extension product and the first amplification primer extension product; d) extending the second amplification primer on the detector probe extension product and the first amplification primer extension product, thereby converting the detector probe extension product to double-stranded form and amplifying the target sequence, and;
e) detecting an increase in fluorescence polarization as an indication of target sequence amplification. - View Dependent Claims (10, 11, 12, 14, 15, 16)
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Specification