Natural variation and artificial selection in four genes determine grain shape in rice

被引:76
|
作者
Lu, Li [1 ,2 ]
Shao, Di [1 ,2 ]
Qiu, Xianjin [1 ,2 ]
Sun, Liang [1 ,2 ]
Yan, Wenhao [1 ,2 ]
Zhou, Xiangchun [1 ,2 ]
Yang, Lin [1 ,2 ]
He, Yuqing [1 ,2 ]
Yu, Sibin [1 ,2 ]
Xing, Yongzhong [1 ,2 ]
机构
[1] Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Wuhan 430070, Peoples R China
[2] Huazhong Agr Univ, Natl Ctr Plant Gene Res Wuhan, Wuhan 430070, Peoples R China
关键词
grain size genes; linkage disequilibrium; nucleotide diversity; phenotypic variation; resequencing; rice; QUANTITATIVE TRAIT LOCUS; ORYZA-SATIVA; MAJOR QTL; SIZE; WEIGHT; LENGTH; WIDTH; GS3; IDENTIFICATION; POLYMORPHISM;
D O I
10.1111/nph.12430
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
The size of cultivated rice (Oryza sativa) grains has been altered by both domestication and artificial selection over the course of evolutionary history. Several quantitative trait loci (QTLs) for grain size have been cloned in the past 10 yr. To explore the natural variation in these QTLs, resequencing of grain width and weight 2 (GW2), grain size 5 (GS5) and QTL for seed width 5 (qSW5) and genotyping of grain size 3 (GS3) were performed in the germplasms of 127 varieties of rice (O. sativa) and 10-15 samples of wild rice (Oryza rufipogon). Ten, 10 and 15 haplotypes were observed for GW2, GS5 and qSW5. qSW5 and GS3 had the strongest effects on grain size, which have been widely utilized in rice production, whereas GW2 and GS5 showed more modest effects. GS5 showed small sequence variations in O. sativa germplasm and that of its progenitor O. rufipogon. qSW5 exhibited the highest level of nucleotide diversity. GW2 showed signs of purifying selection. The four grain size genes experienced different selection intensities depending on their genetic effects. In the indica population, linkage disequilibrium (LD) was detected among GS3, qSW5 and GS5. The substantial genetic variation in these four genes provides the flexibility needed to design various rice grain shapes. These findings provide insight into the evolutionary features of grain size genes in rice.
引用
收藏
页码:1269 / 1280
页数:12
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