气候变化领域集成服务门户(CCPortal): Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice

CCPortal

DOI	10.1038/s41588-018-0041-z
	Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice
	Zhao, Qiang; Feng, Qi; Lu, Hengyun; Li, Yan; Wang, Ahong; Tian, Qilin; Zhan, Qilin; Lu, Yiqi; Huang, Tao; Wang, Yongchun; Fan, Danlin; Zhao, Yan; Wang, Ziqun; Zhou, Congcong; Chen, Jiaying; Zhu, Chuanrang; Li, Wenjun; Weng, Qijun; Xu, Qun; Wang, Zi-Xuan; Wei, Xinghua; Han, Bin; Huang, Xuehui
发表日期	2018
ISSN	1061-4036
EISSN	1546-1718
卷号	50 期号:2
英文摘要	The rich genetic diversity in Oryza sativa and Oryza rufipogon serves as the main sources in rice breeding. Large-scale resequencing has been undertaken to discover allelic variants in rice, but much of the information for genetic variation is often lost by direct mapping of short sequence reads onto the O. sativa japonica Nipponbare reference genome. Here we constructed a pan-genome dataset of the O. sativa-O. rufipogon species complex through deep sequencing and de novo assembly of 66 divergent accessions. Intergenomic comparisons identified 23 million sequence variants in the rice genome. This catalog of sequence variations includes many known quantitative trait nucleotides and will be helpful in pinpointing new causal variants that underlie complex traits. In particular, we systemically investigated the whole set of coding genes using this pan-genome data, which revealed extensive presence and absence of variation among rice accessions. This pan-genome resource will further promote evolutionary and functional studies in rice.
学科领域	Genetics & Heredity
语种	英语
WOS研究方向	Genetics & Heredity
来源期刊	NATURE GENETICS
来源机构	中国科学院西北生态环境资源研究院
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/112005
作者单位	Chinese Acad Sci, Shanghai Inst Biol Sci, CAS Ctr Excellence Mol Plant Sci, Natl Ctr Gene Res,Inst Plant Physiol & Ecol, Shanghai, Peoples R China
推荐引用方式 GB/T 7714	Zhao, Qiang,Feng, Qi,Lu, Hengyun,et al. Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice[J]. 中国科学院西北生态环境资源研究院,2018,50(2).
APA	Zhao, Qiang.,Feng, Qi.,Lu, Hengyun.,Li, Yan.,Wang, Ahong.,...&Huang, Xuehui.(2018).Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice.NATURE GENETICS,50(2).
MLA	Zhao, Qiang,et al."Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice".NATURE GENETICS 50.2(2018).