Open AccessGenome‐wide Association Analysis for Drought Tolerance and Associated Traits in Common Bean
Author(s) -
HoyosVillegas Valerio,
Song Qijian,
Kelly James D.
Publication year - 2017
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/plantgenome2015.12.0122
Subject(s) - biology , genome wide association study , genetic association , genome , genetics , evolutionary biology , computational biology , gene , genotype , single nucleotide polymorphism
A genome‐wide association study explored the genetic basis of variation for drought tolerance and related traits in a Middle American diversity panel comprising 96 common bean ( Phaseolus vulgaris L.) genotypes. The panel was grown under irrigated and rainfed conditions and single nucleotide polymorphism (SNP) data were used to explore the genetic diversity and ancestry of the panel. Varying levels of admixtures and distinctly divergent individuals were observed. Estimations of genome‐wide heterozygosity revealed that, on average, greater diversity is present in individuals with Mesoamerica (3.8%) ancestry, followed by admixed individuals (2.3%). The race Durango had the lowest level of heterozygosity (1.4%). We report 27 significant marker–trait associations based on best linear unbiased predictors. These associations include seven markers for shoot biomass at harvest under irrigation and five markers under rainfed conditions on P. vulgaris ( Pv ) chromosome Pv 11, two markers for shoot biomass at flowering under irrigation on Pv 02 and Pv 08, two markers for seed size under irrigated and rainfed conditions on Pv 09, seven markers for lodging score under irrigation on Pv 02 and Pv 07, one marker for leaf elongation rate on Pv 03 and one for wilting score on Pv 11. Positional candidate genes, including Phvul.011G102700 on Pv 11, associated with wilting, were identified. The SNP ss715639327 marker was located in the exon region of the PvSIP1;3 gene, which codes for an aquaporin associated with water movement in beans. Significant quantitative trait loci identified in this study could be used in marker‐assisted breeding to accelerate genetic improvement of drought tolerance in common bean.