Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2011 Dec 4;44(1):32-9.
doi: 10.1038/ng.1018.

Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm

Xuehui Huang  1 , Yan Zhao, Xinghua Wei, Canyang Li, Ahong Wang, Qiang Zhao, Wenjun Li, Yunli Guo, Liuwei Deng, Chuanrang Zhu, Danlin Fan, Yiqi Lu, Qijun Weng, Kunyan Liu, Taoying Zhou, Yufeng Jing, Lizhen Si, Guojun Dong, Tao Huang, Tingting Lu, Qi Feng, Qian Qian, Jiayang Li, Bin Han
Affiliations

Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm

Xuehui Huang et al. Nat Genet. .

Abstract

A high-density haplotype map recently enabled a genome-wide association study (GWAS) in a population of indica subspecies of Chinese rice landraces. Here we extend this methodology to a larger and more diverse sample of 950 worldwide rice varieties, including the Oryza sativa indica and Oryza sativa japonica subspecies, to perform an additional GWAS. We identified a total of 32 new loci associated with flowering time and with ten grain-related traits, indicating that the larger sample increased the power to detect trait-associated variants using GWAS. To characterize various alleles and complex genetic variation, we developed an analytical framework for haplotype-based de novo assembly of the low-coverage sequencing data in rice. We identified candidate genes for 18 associated loci through detailed annotation. This study shows that the integrated approach of sequence-based GWAS and functional genome annotation has the potential to match complex traits to their causal polymorphisms in rice.

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Nat Genet. 2008 Jun;40(6):761-7 - PubMed
    1. BMC Genomics. 2011 Mar 16;12:149 - PubMed
    1. Trends Genet. 2000 Jun;16(6):276-7 - PubMed
    1. Nat Genet. 2011 Feb;43(2):163-8 - PubMed
    1. PLoS Genet. 2010 Sep 09;6(9):e1001111 - PubMed

Publication types

LinkOut - more resources