TY - JOUR
T1 - Genome wide association analyses for drought tolerance related traits in barley (Hordeum vulgare L.)
AU - Varshney, R.K.
AU - Paulo, M.J.
AU - Grando, S.
AU - van Eeuwijk, F.A.
AU - Keizer, L.C.P.
AU - Guo, P.
AU - Ceccarelli, S.
AU - Kilian, A.
AU - Baum, M.
AU - Graner, A.
PY - 2012
Y1 - 2012
N2 - Genome wide association (GWA) analysis of yield, yield components, developmental, physiological and anatomical traits was conducted for a barley germplasm collection consisting of 185 cultivated (Hordeum vulgare L.) and 38 wild (Hordeum spontaneum L.) genotypes, originating from 30 countries of four continents. Phenotypic evaluations were performed at a dry (Breda) and wet (Tel Hadya) location in Syria. Genome wide association study was done with 816 markers comprised of 710 diversity array technology (DArT), 61 single nucleotide polymorphism (SNP) and 45 microsatellite or simple sequence repeat (SSR) markers. Diversity analysis revealed 5 groups of germplasm, related to origin (Middle East, North Africa), structural information (two-rows), and domestication (wild versus domesticated). Linkage disequilibrium (LD) decayed after 3 cM with a few exceptions at 10 and 15 cM. Although a few QTLs were identified that differed between the dry and wet site, these QTLs explained low phenotypic variation and could not unequivocally be related to drought tolerance when compared to earlier linkage mapping based QTL analysis studies. Therefore, GWA analysis seems to be not very effective for identification of major QTLs for complex traits like drought tolerance in highly structured germplasm collections
AB - Genome wide association (GWA) analysis of yield, yield components, developmental, physiological and anatomical traits was conducted for a barley germplasm collection consisting of 185 cultivated (Hordeum vulgare L.) and 38 wild (Hordeum spontaneum L.) genotypes, originating from 30 countries of four continents. Phenotypic evaluations were performed at a dry (Breda) and wet (Tel Hadya) location in Syria. Genome wide association study was done with 816 markers comprised of 710 diversity array technology (DArT), 61 single nucleotide polymorphism (SNP) and 45 microsatellite or simple sequence repeat (SSR) markers. Diversity analysis revealed 5 groups of germplasm, related to origin (Middle East, North Africa), structural information (two-rows), and domestication (wild versus domesticated). Linkage disequilibrium (LD) decayed after 3 cM with a few exceptions at 10 and 15 cM. Although a few QTLs were identified that differed between the dry and wet site, these QTLs explained low phenotypic variation and could not unequivocally be related to drought tolerance when compared to earlier linkage mapping based QTL analysis studies. Therefore, GWA analysis seems to be not very effective for identification of major QTLs for complex traits like drought tolerance in highly structured germplasm collections
KW - multilocus genotype data
KW - triticum-aestivum l.
KW - ab-qtl analysis
KW - linkage disequilibrium
KW - population-structure
KW - agronomic traits
KW - spring barley
KW - mapping population
KW - allele frequencies
KW - yield components
U2 - 10.1016/j.fcr.2011.10.008
DO - 10.1016/j.fcr.2011.10.008
M3 - Article
SN - 0378-4290
VL - 126
SP - 171
EP - 180
JO - Field Crops Research
JF - Field Crops Research
ER -