黄颡鱼（Elopichthys bambusa）的染色体水平基因组组装

Chromosome-level genome assembly of the yellow-cheek carp Elopichthys bambusa.

作者信息

Li Shunyao, Xiong Xuemei, Qiu Siyu, Shen Zhigang, He Yan, Gao Zexia, Wan Shiming

机构信息

College of Fisheries, Key Lab of Freshwater Animal Breeding, Ministry of Agriculture/Key Lab of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education/Engineering Research Center of Green development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education/Engineering Technology Research Center for Fish Breeding and Culture in Hubei Province, Huazhong Agricultural University, Wuhan, 430070, China.

Hubei Hongshan Laboratory, Wuhan, 430070, China.

出版信息

Sci Data. 2024 Apr 24;11(1):426. doi: 10.1038/s41597-024-03262-8.

DOI:10.1038/s41597-024-03262-8

PMID:38658574

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11043341/

Abstract

Yellow-cheek carp (Elopichthys bambusa) is a typical large and ferocious carnivorous fish endemic to East Asia, with high growth rate, nutritional value and economic value. In this study, a chromosome-level genome of yellow-cheek carp was generated by combining PacBio reads, Illumina reads and Hi-C data. The genome size is 827.63 Mb with a scaffold N50 size of 33.65 Mb, and 99.51% (823.61 Mb) of the assembled sequences were anchored to 24 pseudo-chromosomes. The genome is predicted to contain 24,153 protein-coding genes, with 95.54% having functional annotations. Repeat elements account for approximately 55.17% of the genomic landscape. The completeness of yellow-cheek carp genome assembly is highlighted by a BUSCO score of 98.4%. This genome will help us understand the genetic diversity of yellow-cheek carp and facilitate its conservation planning.

摘要

黄颡鱼（Elopichthys bambusa）是东亚特有的典型大型凶猛肉食性鱼类，生长速度快，具有较高的营养价值和经济价值。在本研究中，通过结合PacBio reads、Illumina reads和Hi-C数据，构建了黄颡鱼的染色体水平基因组。基因组大小为827.63 Mb，支架N50大小为33.65 Mb，99.51%（823.61 Mb）的组装序列被锚定到24条假染色体上。预测该基因组包含24,153个蛋白质编码基因，其中95.54%具有功能注释。重复元件约占基因组图谱的55.17%。黄颡鱼基因组组装的完整性通过BUSCO评分为98.4%得到突出体现。该基因组将有助于我们了解黄颡鱼的遗传多样性，并促进其保护规划。