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United States Department of Agriculture

Agricultural Research Service

Title: Detection of Single Nucleotide Polymorphisms Using Ion-Pair Reverse Phase Chromatography.

Authors
item Cregan, Perry
item Quigley, Charles
item Song, O - VISITING SCIENTIST
item Young, N - UNIV. OF MINNESOTA
item Devancy, J - PRIVATE INDUSTRY
item Marino, M - PRIVATE INDUSTRY

Submitted to: American Society of Agronomy Meetings
Publication Type: Abstract Only
Publication Acceptance Date: November 6, 2000
Publication Date: N/A

Technical Abstract: Technologies developed by human geneticists for the rapid and inexpensive detection of SNPs make 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 ESTs 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 that 16 kbp and of coding- 23 kbp of non-coding DNA was sequenced in each of 22 diverse soybean genotypes and a mean of 1.4 and 3.9 SNPs per kb were discovered in coding and non- coding regions respectively. Primers to the 3' end of ESTs resulted in the discovery of mappable SNPs in one-third of the ESTs to which primers were designed based upon the analysis of fragments that averaged 381 bp in length and contained approximately equal amounts of coding and non- coding DNA. Over 80% of the EST-derived SNPs could be mapped in one of the Univ. of Utah recombinant inbred line mapping populations (Minsoy x Noir, Noir x Archer, or Minsoy x Archer).

Last Modified: 4/19/2014
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