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

Autor: Zhao H; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.; Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, Gembloux, Belgium., Wang W; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China., Yang Y; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China., Wang Z; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China., Sun J; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China., Yuan K; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.; Duke university, Durham, USA., Rabbi SMHA; Bangladesh Rice Research Institute, Gazipur, 1701, Bangladesh., Khanam M; Bangladesh Rice Research Institute, Gazipur, 1701, Bangladesh., Kabir MS; Bangladesh Rice Research Institute, Gazipur, 1701, Bangladesh., Seraj ZI; Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka, Bangladesh., Rahman MS; Bangladesh Rice Research Institute, Gazipur, 1701, Bangladesh. sazzadur.phys@brri.gov.bd., Zhang Z; Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. zhangzhiguo@caas.cn.
Jazyk: angličtina
Zdroj: Scientific data [Sci Data] 2023 Oct 14; Vol. 10 (1), pp. 701. Date of Electronic Publication: 2023 Oct 14.
DOI: 10.1038/s41597-023-02594-1
Abstrakt: 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.
(© 2023. Springer Nature Limited.)
Databáze: MEDLINE
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