Method for nucleic acid isolation and amplification
First Claim
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1. A method for amplifying a polynucleotide molecule of interest or a fragment thereof, comprising:
- (a) isolating a polynucleotide molecule from a nucleic acid population using an immobilizable separation group to provide an isolated polynucleotide molecule, and(b) isothermally amplifying the isolated polynucleotide molecule or a fragment thereof, wherein(i) the amplification is a sequence-biased amplification which is defined as a hybrid of generic amplification and sequence-specific amplification performed in the presence of both random primers and sequence-specific primers, or(ii) the amplification is a sequence-specific amplification performed in the presence of center-specific primers and end-specific primers.
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Abstract
The present invention provides methods and compositions for sequence-specific isolation of polynucleotide molecules from nucleic acid populations and subsequent amplification of isolated polynucleotide molecules or fragments thereof.
26 Citations
36 Claims
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1. A method for amplifying a polynucleotide molecule of interest or a fragment thereof, comprising:
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(a) isolating a polynucleotide molecule from a nucleic acid population using an immobilizable separation group to provide an isolated polynucleotide molecule, and (b) isothermally amplifying the isolated polynucleotide molecule or a fragment thereof, wherein (i) the amplification is a sequence-biased amplification which is defined as a hybrid of generic amplification and sequence-specific amplification performed in the presence of both random primers and sequence-specific primers, or (ii) the amplification is a sequence-specific amplification performed in the presence of center-specific primers and end-specific primers. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29)
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30. A method for amplifying multiple polynucleotide molecules of interest from a population of nucleic acid molecules, comprising:
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(a) isolating multiple polynucleotide molecules from a nucleic acid population using one or more immobilizable separation groups to provide isolated polynucleotide molecules of interest, and (b) isothermally amplifying the isolated polynucleotide molecules or fragments thereof, wherein (i) the amplification is a sequence-biased amplification which is defined as a hybrid of generic amplification and sequence-specific amplification performed in the presence of both random primers and sequence-specific primers, or (ii) the amplification is a sequence-specific amplification performed in the presence of center-specific primers and end-specific primers. - View Dependent Claims (31, 32, 33, 34, 35)
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36. A method for amplifying a genomic DNA molecule of interest or a fragment thereof, wherein the genomic DNA molecule of interest comprises a polymorphic sequence, comprising:
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(a) contacting a genomic DNA population that comprises the genomic DNA molecule of interest with an oligonucleotide, wherein (i) the oligonucleotide comprises a sequence at least substantially complementary to a target nucleic acid sequence in one strand of the genomic DNA molecule of interest, (ii) the target nucleic acid sequence is located immediately 3′
to the polymorphic sequence in the one strand of the genomic DNA molecule of interest, and(iii) the 3′
portion of the oligonucleotide is complementary to the polymorphic sequence or a portion thereof when annealing to the one strand of the genomic DNA molecule of interest,(b) extending the oligonucleotide in the presence of an immobilizable nucleotide using the one strand of the genomic DNA molecule of interest to which the oligonucleotide anneals as a template to provide an extension product, (c) immobilizing to a substrate via the immobilizable nucleotide the extension product to which the genomic DNA molecule of interest is bound, (d) removing the immobilized extension product to which the genomic DNA molecule of interest is bound to thereby isolate the genomic DNA molecule of interest from the genomic DNA population, (e) optionally elute the genomic DNA molecule of interest from the substrate, and (f) isothermally amplifying the isolated or eluted genomic DNA molecule of interest or a fragment thereof, wherein (i) the amplification is a sequence-biased amplification which is defined as a hybrid of generic amplification and sequence-specific amplification performed in the presence of both random primers and sequence-specific primers, or (ii) the amplification is a sequence-specific amplification performed in the presence of center-specific primers and end-specific primers.
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Specification