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ARS Home » Midwest Area » East Lansing, Michigan » Sugarbeet and Bean Research » Research » Publications at this Location » Publication #310415

Title: Genome-wide association study of agronomic traits in common bean

item KAMFWA, KELVIN - Michigan State University
item Cichy, Karen
item KELLY, JAMES - Michigan State University

Submitted to: The Plant Genome
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 12/28/2014
Publication Date: 7/10/2015
Citation: Kamfwa, K., Cichy, K.A., Kelly, J. 2015. Genome-wide association study of agronomic traits in common bean. The Plant Genome. 8(2):1-12.

Interpretive Summary: Yield gains in large seeded Andean dry beans, such as kidney and cranberry beans, have lagged behind those of smaller seeded dry beans, including pinto and black beans. A group of 237 dry bean accessions, mostly Andean in origin were field grown over two seasons and evaluated for seed yield. Molecular marker data from ~6,000 single nucleotide polymorphism markers was combined with the yield data to identify regions of the bean genome important in determining seed yield. Two areas of the genome were identified, one on chromosome 3 and one on chromosome 9 that are each responsible for 100 kg/ha yield differences. These findings will be applied to bean breeding.

Technical Abstract: A genome-wide association study (GWAS) using a global Andean diversity panel (ADP) of 237 genotypes of common bean, Phaseolus vulgaris was conducted to gain insight into the genetic architecture of several agronomic traits controlling phenology, biomass, yield components and seed yield. The panel was evaluated for two years in field trials and genotyped with 5398 SNP markers. After correcting for population structure and cryptic relatedness, significant SNP markers associated with several agronomic traits were identified. Positional candidate genes including Phvul.001G221100 on Pv01 that associated with days to flowering and maturity were also identified. Significant SNPs for seed yield were identified on Pv03 and Pv09, where several previous studies have also reported quantitative trait loci (QTL) for yield. These yield QTL that have been identified in several environments and genetic backgrounds are potential candidates for marker-assisted breeding. We identified QTL with enhanced resolution and the study provided additional insights into the genetic architecture of important agronomic traits in common bean.