Use of selective DNA fragment amplification products for hybridization-based genetic fingerprinting, marker assisted selection, and high-throughput screening
First Claim
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1. A method of characterizing a biological nucleic acid, comprising:
- providing at least one probe which hybridizes to a marker in linkage disequilibrium with a polymorphism;
amplifying a mixture of biological DNA comprising a plurality of target nucleic acids comprising polymorphisms, thereby providing a heterogeneous amplified DNA mixture comprising the plurality of target nucleic acids in amplified form; and
,hybridizing the at least one probe to the amplified DNA mixture, thereby detecting at least one target nucleic acid in amplified form.
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Abstract
Methods of genotyping amplified mixtures of DNAs, nucleic acid markers and methods of obtaining markers, kits, recombinant plants, positional cloning and integrated systems for making genotypes and assessing hybridizations are provided. These features are applicable to DNA fingerprinting, marker assisted selection, genotyping, cladistic analysis of variance, and high throughput laboratory screening methods.
195 Citations
48 Claims
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1. A method of characterizing a biological nucleic acid, comprising:
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providing at least one probe which hybridizes to a marker in linkage disequilibrium with a polymorphism; amplifying a mixture of biological DNA comprising a plurality of target nucleic acids comprising polymorphisms, thereby providing a heterogeneous amplified DNA mixture comprising the plurality of target nucleic acids in amplified form; and
,hybridizing the at least one probe to the amplified DNA mixture, thereby detecting at least one target nucleic acid in amplified form. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 48)
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15. A method of mapping a polymorphic genetic marker, comprising the steps of:
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(i) providing a mixture of restriction enzyme-digested nucleic acids from biological samples; (ii) amplifying the mixture of restriction enzyme-digested nucleic acids; (iii) identifying a set of differentially amplified nucleic acids in the mixture; and
,(iv) mapping at least one of the differentially amplified nucleic acids to a unique genetic polymorphism, thereby providing a marker for the polymorphism. - View Dependent Claims (16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31)
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32. A high-throughput method of selecting polymorphic variants by marker assisted selection, the method comprising the steps of:
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(i) providing a mixture of nucleic acids amplified from a biological source, the mixture optionally comprising an amplified first target nucleic acid which hybridizes to a first marker nucleic acid which hybridizes to a first locus comprising a first nucleotide polymorphism; and
,(ii) selecting the biological source for the presence or absence of the first target nucleic acid in the mixture of amplified nucleic acids, said presence or absence measured by hybridization of the marker nucleic acid to the amplified mixture, thereby selecting for the presence or absence of the first nucleotide polymorphism. - View Dependent Claims (33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47)
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Specification