IC4R007-GWAS-2015-25785447

Project Title

Genome-Wide Association Mapping for Yield and Other Agronomic Traits in an Elite Breeding Population of Tropical Rice (Oryza sativa)

The Background of This Project

• Genome-wide association mapping studies (GWAS) are frequently used to detect QTL in diverse collections of crop germplasm, based on historic recombination events and linkage disequilibrium across the genome. Generally, diversity panels genotyped with high density SNP panels are utilized in order to assay a wide range of alleles and haplotypes and to monitor recombination breakpoints across the genome. By contrast, GWAS have not generally been performed in breeding populations.

[[File:|500px|thumb|right|Figure 1 Population structure of current association panel which consisted mostly of the indica accessions. (A) Scree plot from GAPIT showing the selection of PCs for association study. (B) PCA plot of first two components. (C) Bayesian clustering of 220 rice accessions using STRUCTURE program.]]

Research Findings

Table 1 Narrow-sense heritabilities (h 2 ) for the two validation season, 2012 dry season (DS 2012) and the 2012 wet season (WS 2012). YLD = grain yield, FL = days to 50% flowering, PH = plant height.

Labs working on this Project

• International Rice Research Institute, Los Baños, Philippines
• Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, United States of America
• Crop Science Cluster, University of the Philippines Los Baños, Los Baños, Philippines
• International Center for Tropical Agriculture, Cali, Colombia

Corresponding Author

• Susan R. McCouch(srm4@cornell.edu)