A high-quality chromosome-level genome assembly of the Chinese medaka Oryzias sinensis.
Sci Data
; 11(1): 322, 2024 Mar 28.
Article
em En
| MEDLINE
| ID: mdl-38548787
ABSTRACT
Oryzias sinensis, also known as Chinese medaka or Chinese ricefish, is a commonly used animal model for aquatic environmental assessment in the wild as well as gene function validation or toxicology research in the lab. Here, a high-quality chromosome-level genome assembly of O. sinensis was generated using single-tube long fragment read (stLFR) reads, Nanopore long-reads, and Hi-C sequencing data. The genome is 796.58 Mb, and a total of 712.17 Mb of the assembled sequences were anchored to 23 pseudo-chromosomes. A final set of 22,461 genes were annotated, with 98.67% being functionally annotated. The Benchmarking Universal Single-Copy Orthologs (BUSCO) benchmark of genome assembly and gene annotation reached 95.1% (93.3% single-copy) and 94.6% (91.7% single-copy), respectively. Furthermore, we also use ATAC-seq to uncover chromosome transposase-accessibility as well as related genome area function enrichment for Oryzias sinensis. This study offers a new improved foundation for future genomics research in Chinese medaka.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Oryzias
Limite:
Animals
Idioma:
En
Ano de publicação:
2024
Tipo de documento:
Article