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Genome-wide Association Study for Beta-glucan Concentration in Elite North American Oat
Crop Science
  • Franco G. Asoro, Iowa State University
  • Mark A. Newell, Iowa State University
  • M. Paul Scott, Iowa State University
  • William D Beavis, Iowa State Univeristy
  • Jean-Luc Jannink, United States Department of Agriculture
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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.) β-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 β-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 β-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 β-glucan concentration in elite oat.

This article is published as Asoro, Franco G., Mark A. Newell, M. Paul Scott, William D. Beavis, and Jean-Luc Jannink. "Genome-wide association study for beta-glucan concentration in elite North American oat." Crop Science 53, no. 2 (2013): 542-553, doi: 10.2135/cropsci2012.01.0039.

Works produced by employees of the U.S. Government as part of their official duties are not copyrighted within the U.S. The content of this document is not copyrighted.
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Franco G. Asoro, Mark A. Newell, M. Paul Scott, William D Beavis, et al.. "Genome-wide Association Study for Beta-glucan Concentration in Elite North American Oat" Crop Science Vol. 53 Iss. 2 (2013) p. 542 - 553
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