Method of detecting genetic polymorphisms using over represented sequences

A method for identifying an organism by species, serotype, or strain comprising:

• a) obtaining DNA from the organism, said DNA comprising over represented oligonucleotide sequences,
• b) amplifying said DNA to produce amplification products using at least one pair of oligonucleotide primers, said primer pair comprising,
• i) a first primer that binds to a first over represented oligonucleotide biased to one strand of said DNA, and
• ii) a second primer that binds to a second over represented oligonucleotide biased to a DNA strand complementary to the strand in i),
• c) analyzing the amplification products by a method capable of detecting differences in nucleic acid sequences, and
• d) analyzing the results obtained in c) for amplification products in common with all members of the species and for products unique to strains or serotypes within the species and comparing the results to a database of previously analyzed products, thereby identifying the species, serotype or strain of the organism.

A method for identifying an individual comprising:

• a) obtaining DNA from said individual, said DNA comprising over represented oligonucleotide sequences,
• b) amplifying said DNA to produce amplification products using at least one pair of oligonucleotide primers, said primer pair comprising,
• i) a first primer that binds to a first over represented oligonucleotide biased to one strand of said DNA, and
• ii) a second primer that binds to a second over represented oligonucleotide biased to a DNA strand complementary to the strand in i),
• c) analyzing the amplification products by a method capable of detecting differences in nucleic acid sequences, and
• d) comparing the results obtained in c) to a database of previously analyzed products, thereby identifying the individual.

A method for identifying genes by differential display analysis comprising:

• a) isolating mRNA from two groups of organisms,
• b) converting the mRNA to DNA by reverse transcription,
• c) amplifying said DNA to produce amplification products using at least one pair of oligonucleotide primers, said primer pair comprising,
• i) a first primer that binds to a first over represented oligonucleotide biased to one strand of said DNA, and
• ii) a second primer that binds to a second over represented oligonucleotide biased to a DNA strand complimentary to the strand in i),
• d) detecting the amplification products produced by a method capable of detecting the presence of said amplification products, and
• e) determining pattern differences in the amplification products produced.

A kit comprising:

• a) at least one pair of oligonucleotide primers, said primer pair comprising,
• i) a first primer that binds to a first over represented oligonucleotide biased to one strand of DNA, and
• ii) a second primer that binds to a second over represented oligonucleotide biased to a DNA strand complementary to the strand in i),
• b) a reaction solution comprising a buffer and a magnesium salt, and
• c) instructions for amplification of nucleic acid sequences using the at least one set of primers pairs to produce amplification products and for detection of nucleic acid sequence polymorphism from said amplification products.

A method for the determination of polymorphism in a DNA sequence comprising:

• a) producing an oligonucleotide sequence containing a reporter moiety, said oligonucleotide comprising an over represented oligonucleotide,
• b) if desired, repeating step a) at least once to produce at least one additional oligonucleotide sequence containing a reporter moiety, said additional oligonucleotide sequence comprising a different over represented oligonucleotide,
• c) contacting the oligonucleotide of a) and if present b) with chromosomes obtained from an organism, so that the oligonucleotide hybridizes to complementary nucleotide sequences contained in said chromosomes,
• d) repeating c) with chromosomes obtained from a different organism,
• e) detecting the presence of the oligonucletides on the chromosomes, and
• f) comparing the locations of the oligonucleotides on the chromosomes to detect polymorphism.