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ARS Home » Research » Publications at this Location » Publication #121825
Title: SINGLE NUCLEOTIDE POLYMORPHISMS (SNPS) IN SOYBEAN GENES, CDNAS, AND RANDOM GENOMIC DNA

Author
item YOULIN, ZHU - VISITING SCIENTIST
item QIJIANG, SONG - VISITING SCIENTIST
item Quigley, Charles - Chuck
item Cregan, Perry

Submitted to: BARC Poster Day
Publication Type: Abstract Only
Publication Acceptance Date: 3/15/2001
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: In the near future human geneticists are likely to complete the discovery of in excess of 1,000,000 SNPs in humans. This resource will permit a wide range of applications in gene discovery, therapeutic drug development, drug response prediction, diagnostics, etc. As a result, myriad technologies exist and are being developed for the rapid and inexpensive detection of SNPs making them an appealing DNA marker system for plant geneticists and breeders. At present there is little information on the frequency of SNPs in soybean. Thus, our objectives were to determine 1) SNP frequency in coding and non-coding sequence, 2) the proportion of cDNAs and genes in which SNPs could be discovered 3) a set of three or four diverse soybean genotypes that could be sequenced to permit efficient SNP discovery. More than 28 kbp of coding- and 52 kbp of non-coding DNA was sequenced in each of 25 diverse soybean genotypes and a mean of 1.70 and 4.15 SNPs per kbp were discovered in coding and non-coding regions, respectively. Clustering of SNPs was observed. Mappable SNPs were discovered in 74 of the 180 cDNAs and genes. About 80% of the SNPs discovered by analysis of the 25 genotypes could be discovered via analysis of the three parents of the Univ. of Utah recombinant inbred line mapping populations, Minsoy, Noir 1, and Archer and the exotic genotype Peking.