Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: 10/30/2006
Publication Date: 12/24/2006
Citation: Ma, W., Li, Y., Guo, B., Culbreath, A.K., Milla-Lewis, S., Tallury, S., Holbrook, Jr., C.C., Isleib, T., Stalker, H.T., Knapp, S.J. 2006. Simple sequence repeat polymorphisms in peanut [abstract]. In: Proceedings of the Plant and Animal Genome XV Conference, January 13-17, 2007, San Diego, CA. p. 113. Interpretive Summary:
Technical Abstract: Genetic mapping, forward genetic analyses, and marker-assisted selection (MAS) have been intractable in intraspecific populations of cultivated peanut (Arachis hypogaea), primarily because domestication and breeding bottlenecks have narrowed genetic diversity and depleted DNA polymorphisms. The DNA polymorphism problem can be partly mitigated by the development of a critical mass of simple sequence repeat (SSR) markers. Thus far, 540 SSR markers have been developed for peanut; however, most were not specifically designed for maximum genotyping throughput, and many have not been screened for polymorphisms and cross-taxa utility. Here, we describe the development of 98 SSR markers from 148 repeats discovered in 10,944 methylation-filtered and unfiltered genomic DNA sequences, allele length polymorphisms for 709 SSR markers among 32 diploid and tetraploid germplasm accessions (primarily the parents of intraspecific mapping populations), and the development of a database to facilitate high-throughput SSR marker genotyping. We screened 18 botanically and genetically diverse A. hypogaea and 14 A. kuhlmanii, A. diogoi, A. duranensis, A. batizocoi, and A. monticola germplasm accessions. Of the 709 SSR markers, 561 amplified alleles across taxa and produced genotypes of sufficient quality for high-throughput genotyping applications. Heterozygosity means were 0.66 for diploid and 0.31 for tetraploid germplasm accessions (19.2 to 79.9% of the SSR markers were polymorphic in intraspecific mapping populations). SSR marker polymorphisms seem to be more than sufficient for genetic mapping in intraspecific A. hypogaea mapping populations; however, several hundred additional high-throughput DNA markers must be developed to supply the critical mass needed for routine genotyping in cultivated peanut.