Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa

Keyan Zhao, Chih-Wei Tung, Georgia C. Eizenga, Mark H. Wright, M. Liakat Ali, Adam H. Price, Gareth J. Norton, M. Rafiqul Islam, Andy Reynolds, Jason Mezey, Anna M. McClung, Carlos D. Bustamante () and Susan R. McCouch ()
Additional contact information
Keyan Zhao: Cornell University
Chih-Wei Tung: Cornell University
Georgia C. Eizenga: USDA ARS, Dale Bumpers National Rice Research Center
Mark H. Wright: Cornell University
M. Liakat Ali: Rice Research and Extension Center, University of Arkansas
Adam H. Price: Institute of Biological and Environmental Sciences, University of Aberdeen
Gareth J. Norton: Institute of Biological and Environmental Sciences, University of Aberdeen
M. Rafiqul Islam: Bangladesh Agricultural University
Andy Reynolds: Cornell University
Jason Mezey: Cornell University
Anna M. McClung: USDA ARS, Dale Bumpers National Rice Research Center
Carlos D. Bustamante: Cornell University
Susan R. McCouch: Cornell University

Nature Communications, 2011, vol. 2, issue 1, 1-10

Abstract: Abstract Asian rice, Oryza sativa is a cultivated, inbreeding species that feeds over half of the world's population. Understanding the genetic basis of diverse physiological, developmental, and morphological traits provides the basis for improving yield, quality and sustainability of rice. Here we show the results of a genome-wide association study based on genotyping 44,100 SNP variants across 413 diverse accessions of O. sativa collected from 82 countries that were systematically phenotyped for 34 traits. Using cross-population-based mapping strategies, we identified dozens of common variants influencing numerous complex traits. Significant heterogeneity was observed in the genetic architecture associated with subpopulation structure and response to environment. This work establishes an open-source translational research platform for genome-wide association studies in rice that directly links molecular variation in genes and metabolic pathways with the germplasm resources needed to accelerate varietal development and crop improvement.

Date: 2011
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DOI: 10.1038/ncomms1467

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