A high-quality chromosome-level wild rice genome of Oryza coarctata

被引：7

作者：

Zhao, Hang ^{[2
,3
]}

Wang, Wenzheng ^{[3
]}

Yang, Yirong ^{[3
]}

Wang, Zhiwei ^{[3
]}

Sun, Jing ^{[3
]}

Yuan, Kaijun ^{[3
,5
]}

Rabbi, S. M. Hisam Al ^{[1
]}

Khanam, Munnujan ^{[1
]}

Kabir, Md. Shahjahan ^{[1
]}

Seraj, Zeba I. ^{[4
]}

Rahman, Md. Sazzadur ^{[1
]}

Zhang, Zhiguo ^{[3
]}

机构：

[1] Chinese Acad Agr Sci, Biotechnol Res Inst, Beijing 100081, Peoples R China

[2] Univ Liege, TERRA Teaching & Res Ctr, Gembloux Agrobio Tech, Gembloux, Belgium

[3] Chinese Acad Agr Sci, Bangladesh Rice Res Inst, Gazipur 1701, Bangladesh

[4] Univ Dhaka, Dept Biochem & Mol Biol, Dhaka, Bangladesh

[5] Duke Univ, Durham, NC USA

来源：

SCIENTIFIC DATA | 2023年 / 10卷 / 01期

关键词：

DE-NOVO IDENTIFICATION; SEQUENCE; PROGRAM; GENE; TRANSCRIPTOME; ALIGNMENT; FAMILIES; ACCURATE; FINDER;

D O I：

10.1038/s41597-023-02594-1

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Oryza coarctata (2n = 4X = 48, KKLL) is an allotetraploid, undomesticated relative of rice and the only species in the genus Oryza with tolerance to high salinity and submergence. Therefore, it contains important stress and tolerance genes/factors for rice. The initial draft genome published was limited by data and technical restrictions, leading to an incomplete and highly fragmented assembly. This study reports a new, highly contiguous chromosome-level genome assembly and annotation of O. coarctata. PacBio high-quality HiFi reads generated 460 contigs with a total length of 573.4 Mb and an N50 of 23.1 Mb, which were assembled into scaffolds with Hi-C data, anchoring 96.99% of the assembly onto 24 chromosomes. The genome assembly comprises 45,571 genes, and repetitive content contributes 25.5% of the genome. This study provides the novel identification of the KK and LL genome types of the genus Oryza, leading to valuable insights into rice genome evolution. The chromosome-level genome assembly of O. coarctata is a valuable resource for rice research and molecular breeding.

引用

页数：14

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