GrainGenes Reference Report: CRS-53-542
Reference
CRS-53-542
Title
Genome-wide association study for beta-glucan concentration in elite North American oat.
Journal
Crop Science
Year
2013
Volume
53
Pages
542-553
Author
Asoro FG Newell MA Scott MP Beavis WD Jannink J-L
Abstract
Genome-wide association studies (GWAS) can be a useful approach to detect quantitative trait loci (QTL) controlling complex traits in crop plants. Oat (Avena sativa L.) beta-glucan is a soluble dietary fiber and has been shown to have positive health benefits. We report a GWAS involving 446 elite oat breeding lines from North America genotyped with 1005 diversity arrays technology (DArT) markers and with phenotypic data from both historical and balanced 2-yr data. Association analyses accounting for pair-wise relationships and population structure were conducted using single-marker tests and least absolute shrinkage and selection operator (LASSO). Single-marker tests yielded six and 15 significant markers for the historical and balanced data sets, respectively. The LASSO method selected 24 and 37 markers as the most important in explaining beta-glucan concentration for the historical and balanced data sets, respectively. Comparisons of genetic location showed that 15 of the markers in our study were found on the same linkage groups as QTL identified in previous studies. Four of the markers colocalized to within 4 cM of three previously detected QTL, suggesting concordance between QTL detected in our study and previous studies. Two of the significant markers were also adjacent to a beta-glucan candidate gene in the rice (Oryza sativa L.) genome. Our findings suggest that GWAS can be used for QTL detection for the purpose of gene discovery and for marker-assisted selection to improve beta-glucan concentration in elite oat.
External Databases
https://doi.org/10.2135/cropsci2012.01.0039 https://dl.sciencesocieties.org/publications/cs/articles/53/2/542
GrainGenes is a product of the Agricultural Research Service of the US Department of Agriculture.
GrainGenes Reference Report: CRS-53-542
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GrainGenes is a product of the Agricultural Research Service of the US Department of Agriculture. | |||