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Title: ASSESSMENT OF SINGLE NUCLEOTIDE POLYMORPHISM (SNPS) IN SOYBEAN

Author
item GRIMM, DAVID - ARS
item CREGAN, PERRY
item DENESH, D. - UNIVERSITY OF MINNESOTA
item MUDGE, J. - UNIVERSITY OF MINNESOTA
item YOUNG, N. - UNIVERSITY OF MINNESOTA

Submitted to: Plant and Animal Genome
Publication Type: Abstract Only
Publication Acceptance Date: 1/18/1999
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: Single nucleotide polymorphisms (SNPs), have been shown to be the most abundant type of DNA polymorphism in humans with an average frequency of 1.4 SNPs/kbp. One attractive feature of SNPs is the possibility of detection using non-gel based systems. In contrast to the large amount of information available in humans, very limited data are available on SNPs in plants. Thus, studies were initiated to determine if there are sufficient SNPs in soybean to be useful for genetic map development and applications in plant improvement. The level of SNP was assayed 1) 12 soybean genes (exons, introns, 5' UTR and 3' UTR) chosen from GenBank, 2) in the flanking regions of SSR-containing sequences, and 3) in random subclones of a BAC in one region of the genome near the soybean cyst nematode resistance locus, rhg1. A total of 18 soybean cultivars were sequenced for SNP discovery. These were chosen on the basis of their contribution to North American soybean germplasm. Initial results from this work suggest that SNPs in the soybean genome occur at a frequency of 3.4/kbp. The frequency of SNPs in soybean is also approximately equal in SSR flanking regions and in non-SSR containing regions.