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Acta Agron Sin ›› 2016, Vol. 42 ›› Issue (09): 1291-1297.doi: 10.3724/SP.J.1006.2016.01291


Development of Functional Markers and Identification of Haplotypes for Rice Grain Shape Gene GW8

YI Chuan-Deng*, WANG De-Rong, JIANG Wei, Li Wei, CHENG Xiao-Jun, WANG Ying, ZHOU Yong, LIANG Guo-Hua, and GU Ming-Hong   

  1. Jiangsu Key Laboratory of Crop Genetics and Physiology, Co-Innovation Center for Modern Production Technology of Grain Crops, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, China
  • Received:2016-01-04 Revised:2016-05-09 Online:2016-09-12 Published:2016-05-30
  • Contact: 裔传灯, E-mail: cdyi@yzu.edu.cn
  • Supported by:

    This study was supported by the National Natural Science Foundation of China (31571624, 31071382), National Basic Research Program of China (973 program) (2010CB125904, 2013CBA01405), the Key Natural Science Project in University of Jiangsu Province (15KJA210004), and the Priority Academic Program Development of Jiangsu Higher Education Institutions.


Rice grain shape including grain length, grain width, grain thickness, and grain length-to-width ratio is a major character affecting rice yield and quality. On the basis of the alignment of gene GW8 genomic DNA sequence, three functional markers were developed on the 10-bp indel in promoter region and two missense polymorphism sites (A/C and T/G) in the exon3, respectively. Subsequently the markers were used to identify the genotypes of gene GW8 in the 294 accessions of rice mini-core collection and 65 japonica varieties certificated in Jiangsu province from 2007 to 2013. We found that the allelic variations of the three target loci had significant or very significant effects on most traits of grain shape. On the bais of the three variation sites of gene GW8, eight haplotypes (combinations) were found to have very significant effect on the four grain shape traits in the rice mini-core collection. The main haplotypes were Hap3, Hap6, and Hap1, contained in 126, 85, and 58 representative varieties, respectively; Hap7 has the most strongest effect on grain length, ratio of length to width and 1000-grain weight. While the only two haplotypes, Hap6 and Hap2, contained in 63 and 2 japonica varieties certificated in Jiangsu provice, respectively. The results paved a way to apply the useful allelic variations or haplotypes of gene GW8 in rice yield and quality breeding programs.

Key words: Rice, Grain shape, Gene GW8, Functional markers, Haplotype

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