A chromosome-level genome assembly of the potato grouper (Epinephelus tukula)

Linna Wang; Zhentong Li; Yang Liu; Shuai Chen; Linlin Li; Pengfei Duan; Xinyi Wang; Wensheng Li; Qingbin Wang; Jieming Zhai; Yongsheng Tian

doi:10.1016/j.ygeno.2022.110473

A chromosome-level genome assembly of the potato grouper (Epinephelus tukula)

Genomics. 2022 Sep;114(5):110473. doi: 10.1016/j.ygeno.2022.110473. Epub 2022 Aug 30.

Authors

Linna Wang¹, Zhentong Li¹, Yang Liu¹, Shuai Chen², Linlin Li³, Pengfei Duan², Xinyi Wang², Wensheng Li⁴, Qingbin Wang⁴, Jieming Zhai⁴, Yongsheng Tian⁵

Affiliations

¹ Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266000, China.
² Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China; College of Fisheries and Life Science, Shanghai Ocean University, Shanghai 201306, China.
³ Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China; Graduate School of Chinese Academy of Agricultural Sciences, Beijing 100081, China.
⁴ Mingbo Aquatic Co. Ltd., Laizhou 261400, China.
⁵ Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266000, China. Electronic address: tianys@ysfri.ac.cn.

PMID: 36049667
DOI: 10.1016/j.ygeno.2022.110473

Abstract

The potato grouper, Epinephelus tukula, is one of the largest coral reef teleost, and it is an important germplasm resource for selection and cross breeding. Here we report a potato grouper genome assembly generated using PacBio long-read sequencing, Illumina sequencing and high-throughput chromatin conformation capture (Hi-C) technology. The genome size was 1.13 Gb, with a total of 508 contigs anchored into 24 chromosomes. The scaffold N50 was 42.65 Mb. For the genome models, our assembled genome contained 98.11% complete BUSCO with the vertebrata_odb9 database. One more copies of Gh and Hsp90b1 were identified in the E. tukula genome, which might contribute to its fast growth and high resistance to stress. In addition, 435 putative antimicrobial peptide (AMP) genes were identified in the potato grouper. This study provides a good reference for whole genome selective breeding of the potato grouper and for future development of novel marine drugs.

Keywords: AMP; Epinephelus tukula; Genome assembly; Hi-C; PacBio long-read sequencing.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Bass* / genetics
Chromatin
Chromosomes / genetics
Phylogeny

Substances

Chromatin