A de novo evolved gene contributes to rice grain shape difference between indica and japonica

doi:10.1038/s41467-023-41669-w

KIB OpenIR

	A de novo evolved gene contributes to rice grain shape difference between indica and japonica
	Chen,Rujia; Xiao,Ning; Lu,Yue; Tao,Tianyun; Huang,Qianfeng; Wang,Shuting; Wang,Zhichao; Chuan,Mingli; Bu,Qing; Lu,Zhou; Wang,Hanyao; Su,Yanze; Ji,Yi; Ding,Jianheng; Gharib,Ahmed; Liu,Huixin; Zhou,Yong; Tang,Shuzhu; Liang,Guohua; Zhang,Honggen; Yi,Chuandeng; Zheng,Xiaoming; Cheng,Zhukuan; Xu,Yang; Li,Pengcheng; Xu,Chenwu; Huang,Jinling; Li,Aihong; Yang,Zefeng
	2023
Source Publication	NATURE COMMUNICATIONS
ISSN	2041-1723
Volume	14 Issue:1 Pages:5906
Abstract	The role of de novo evolved genes from non-coding sequences in regulating morphological differentiation between species/subspecies remains largely unknown. Here, we show that a rice de novo gene GSE9 contributes to grain shape difference between indica/xian and japonica/geng varieties. GSE9 evolves from a previous non-coding region of wild rice Oryza rufipogon through the acquisition of start codon. This gene is inherited by most japonica varieties, while the original sequence (absence of start codon, gse9) is present in majority of indica varieties. Knockout of GSE9 in japonica varieties leads to slender grains, whereas introgression to indica background results in round grains. Population evolutionary analyses reveal that gse9 and GSE9 are derived from wild rice Or-I and Or-III groups, respectively. Our findings uncover that the de novo GSE9 gene contributes to the genetic and morphological divergence between indica and japonica subspecies, and provide a target for precise manipulation of rice grain shape.
Keyword	NATURAL VARIATION ORIGIN SIZE PROTEIN GENOME ASSOCIATION PREDICTION DIVERSITY SEQUENCE QUALITY
DOI	10.1038/s41467-023-41669-w
WOS ID	WOS:001126871400005
Citation statistics
Document Type	期刊论文
Identifier	http://ir.kib.ac.cn/handle/151853/74869
Collection	中国科学院昆明植物研究所
Recommended Citation GB/T 7714	Chen,Rujia,Xiao,Ning,Lu,Yue,et al. A de novo evolved gene contributes to rice grain shape difference between indica and japonica[J]. NATURE COMMUNICATIONS,2023,14(1):5906.
APA	Chen,Rujia.,Xiao,Ning.,Lu,Yue.,Tao,Tianyun.,Huang,Qianfeng.,...&Yang,Zefeng.(2023).A de novo evolved gene contributes to rice grain shape difference between indica and japonica.NATURE COMMUNICATIONS,14(1),5906.
MLA	Chen,Rujia,et al."A de novo evolved gene contributes to rice grain shape difference between indica and japonica".NATURE COMMUNICATIONS 14.1(2023):5906.

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