Copy number variation at the GL7 locus contributes to grain size diversity in rice

文献类型： 外文期刊

第一作者： Wang, Yuexing

作者： Wang, Yuexing;Hu, Jiang;Xu, Jie;Fang, Yunxia;Xu, Erbo;Xu, Jing;Ye, Weijun;Liu, Ruifang;Chen, Hongqi;Zhu, Xudong;Qian, Qian;Wang, Yuexing;Xiong, Guosheng;Jiang, Liang;Yu, Hong;Meng, Xiangbing;Jing, Yanhui;Wang, Yonghong;Li, Jiayang;Wang, Yuexing;Xiong, Guosheng;Jiang, Liang;Yu, Hong;Meng, Xiangbing;Jing, Yanhui;Wang, Yonghong;Li, Jiayang;Xiong, Guosheng;Zeng, Longjun;Liu, Ruifang;Qian, Qian

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期刊名称：NATURE GENETICS （ 影响因子：38.33； 五年影响因子：36.431 ）

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收录情况： SCI

摘要： Copy number variants (CNVs) are associated with changes in gene expression levels and contribute to various adaptive traits1'2. Here we show that a CNV at the Grain Length on Chromosome 7 (GL7) locus contributes to grain size diversity in rice (Oryza sativa L). GL7 encodes a protein homologous to Arabidopsis thaliana LONGIFOLIA proteins, which regulate longitudinal cell elongation. Tandem duplication of a 17.1 -kb segment at the GL7 locus leads to upregulation of GL7 and downregulation of its nearby negative regulator, resulting in an increase in grain length and improvement of grain appearance quality. Sequence analysis indicates that allelic variants of GL7 and its negative regulator are associated with grain size diversity and that the CNV at the GL7 locus was selected for and used in breeding. Our work suggests that pyramiding beneficial alleles of GL7 and other yield- and quality-related genes may improve the breeding of elite rice varieties. Naturally occurring CNVs in individuals have the potential to drive phenotypic diversity in populations. CNVs in plants tend to occur within the loci of stress-related genes. Genome-wide studies have suggested that CNVs in rice are relatively recent events that arose within breeding populations. However, whether and how CNVs are associated with specific traits still remains to be elucidated. Grain appearance is a major quality parameter that is determined by grain size and endosperm translucency. The cloning and characterization of quantitative trait loci (QTLs), including GS3, GW2, GW5 (qSW5), GS5, GW8, GL3.1 (qGL3), TGW6 and Chalk5 (refs. 9-17), has enriched knowledge of how grain yield and quality are regulated and enables breeders to develop high-yield and good-quality varieties18. The landrace Pingl3 (P13) is an indica variety with superior grain length and appearance quality (Supplementary Fig. la). Using an F2 population derived from a cross between P13 and Nipponbare (NPB; a japonica cultivar), we detected five QTLs associated with grain length and/or width in P13, including a major QTL affecting grain length on chromosome 7, GL7 (Supplementary Fig. lb). To clone GL7, we developed a near-isogenic line for GL7 (NIL-GL7), containing an 82.9-kb chromosome segment from P13, through repeated backcrossing with NPB. The longer and narrower spikelet hull of NIL-GL7 plants in comparison to NPB plants was the result of an increase in cell length and a decrease in cell width for epidermal cells of the outer and inner glumes (Fig. la-c and Supplementary Fig. 2).

分类号： R394

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