Genome-wide association studies of 14 agronomic traits in rice landraces |
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Authors: | Huang Xuehui Wei Xinghua Sang Tao Zhao Qiang Feng Qi Zhao Yan Li Canyang Zhu Chuanrang Lu Tingting Zhang Zhiwu Li Meng Fan Danlin Guo Yunli Wang Ahong Wang Lu Deng Liuwei Li Wenjun Lu Yiqi Weng Qijun Liu Kunyan Huang Tao Zhou Taoying Jing Yufeng Li Wei Lin Zhang Buckler Edward S Qian Qian Zhang Qi-Fa Li Jiayang Han Bin |
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Affiliation: | National Center for Gene Research, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China. |
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Abstract: | Uncovering the genetic basis of agronomic traits in crop landraces that have adapted to various agro-climatic conditions is important to world food security. Here we have identified ~ 3.6 million SNPs by sequencing 517 rice landraces and constructed a high-density haplotype map of the rice genome using a novel data-imputation method. We performed genome-wide association studies (GWAS) for 14 agronomic traits in the population of Oryza sativa indica subspecies. The loci identified through GWAS explained ~ 36% of the phenotypic variance, on average. The peak signals at six loci were tied closely to previously identified genes. This study provides a fundamental resource for rice genetics research and breeding, and demonstrates that an approach integrating second-generation genome sequencing and GWAS can be used as a powerful complementary strategy to classical biparental cross-mapping for dissecting complex traits in rice. |
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