Association Mapping of Quantitative Trait Loci for Grain Size in Introgression Line Derived from Oryza Rufipogon
Kashif Hussain,
Zhang Yingxing,
Workie Anley,
Aamir Riaz,
Adil Abbas,
Md. Hasanuzzaman Rani,
Wang Hong,
Shen Xihong,
Cao Liyong,
Cheng Shihua
Affiliations
Kashif Hussain
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China; Southern Rice Research Institute Thatta, Agriculture Research Wing, Government of Sindh, Sindh 73130, Pakistan
Zhang Yingxing
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
Workie Anley
Department of Plant Sciences, University of Gondar, P.O.Box 196, Ethiopia
Aamir Riaz
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
Adil Abbas
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
Md. Hasanuzzaman Rani
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China; Bangladesh Institute of Nuclear Agriculture, Dhaka 2202, Bangladesh
Wang Hong
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
Shen Xihong
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China
Cao Liyong
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China; Corresponding author.
Cheng Shihua
Key Laboratory for Zhejiang Super Rice Research & State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, China; Corresponding author.
Grain size is one of the critical agronomic traits governing grain yield and quality in rice. However, the underlying genetic mechanisms that control grain size in rice are poorly understood. We used an introgression line derived from Zhonghui 8015 and Oryza rufipogon Griff. This introgression line was evaluated under two different environmental conditions to dissect the quantitative trait loci controlling grain size. Genome-wide association study (GWAS) was performed using 28 193 SNPs through a general linear model, and 56 significant SNPs on different loci associated with the 4 grain size traits were detected. Cloned genes including GS3 and qGL3 showed substantial effects on grain length and size. Seven new stable loci were identified with pleiotropic effects on grain size. Haplotype, gene expression analyses, combined gene-based associations, and functional annotations permitted the shortlisting of important dominant genes including GS3 and qGL3. Keywords: grain size, association mapping, Oryza sativa, Oryza rufipogon, quantitative trait locus, genome-wide association analysis
