Common Bean Coordinated Agricultural Project
Soybean Genomics and Improvement
2010 Annual Report
1a.Objectives (from AD-416)
Objectives are for the identification of genetic variability for nutritional traits in common bean, the discovery of the genes or quantitative trait loci (QTL) controlling that variability and the development of DNA markers that can be used by plant breeders to incorporate QTL into new and more nutritional common bean cultivars.
1b.Approach (from AD-416)
Single Nucleotide Polymorphism (SNP) DNA markers will be discovered via the use of high throughput DNA sequence analysis using the Illumina/Solexa Genome Analyzer as well as via the analysis of common bean DNA gene fragments amplified using polymerase chain reaction (PCR) primers designed to orthologous soybean genes. Because common bean market classes fall into three distinct groups based on their geographic origins in Central or S. America, three sets of 768 SNP panels specific to the three groups will be developed. These three sets of SNPs will be used to characterize common bean populations segregating for nutritional traits for purposes of QTL discovery. The SNP analysis will be conducted using the Illumina GoldenGate assay which is analyzed on the Illumina BeadStation.
Funds from North Dakota State University, Fargo, ND are provided by the Agriculture and Food Research Initiative (AFRI) of the USDA, National Institute of Food and Agriculture (NIFA). The overall objectives of the collaborative project are the identification of genetic variability for nutritional traits in common bean, the discovery of the genes or quantitative trait loci (QTL) controlling that variability and the development of DNA markers that can be used by plant breeders to incorporate QTL into new and more nutritional common bean cultivars. Progress was made in the development of a 1536 single nucleotide polymorphism (SNP) DNA marker assay for common bean. This assay was used to create a SNP-based genetic map of a new common bean mapping population developed at North Dakota St. University from a cross of the pinto bean cultivar Stampede with the dark red kidney bean cultivar Red Hawk. In addition, the same set of SNP markers was used to analyze a group of 192 diverse common bean genotypes which included beans from the various market classes (pinto, black, navy, great northern, small red, dark red kidney, dark red kidney, white kidney, and snap bean) with the objective of defining genetic variability within and among the market classes and to identify SNP markers that would be particularly useful for genetic mapping and marker assisted selection in breeding populations developed from within market class crosses. Progress is monitored via written reports, by phone and e-mail communication with the Project Coordinator and the Project Collaborators as well as by an annual meeting at the Plant & Animal Genome Conference in San Diego, CA in January.