Open AccessGenome‐Wide Association Study of Agronomic Traits in Common Bean
Author(s) -
Kamfwa Kelvin,
Cichy Karen A.,
Kelly James D.
Publication year - 2015
Publication title -
the plant genome
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.403
H-Index - 41
ISSN - 1940-3372
DOI - 10.3835/plantgenome2014.09.0059
Subject(s) - biology , germplasm , phaseolus , quantitative trait locus , single nucleotide polymorphism , genetic architecture , genome wide association study , genetics , genetic association , snp , association mapping , candidate gene , trait , allele , genotype , gene , agronomy , computer science , programming language
A genome‐wide association study (GWAS) using a global Andean diversity panel (ADP) of 237 genotypes of common bean ( Phaseolus vulgaris L.) was conducted to gain insight into the genetic architecture of phenology, biomass, yield components, and seed yield traits. The panel was evaluated for 2 yr in field trials in Michigan and genotyped with 5398 single nucleotide polymorphism (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 P. vulgaris (Pv) chromosome 01, associated with days to flowering and maturity were identified. Significant SNPs for seed yield were identified on Pv03 and Pv09 and colocalized with quantitative trait loci (QTL) for yield from previous studies conducted in several environments and contrasting genetic backgrounds. The majority of germplasm carrying the alleles with positive effects on seed yield was of African origin and largely underutilized in US breeding programs. The study provided insights into the genetic architecture of agronomic traits in Andean beans.