马铃薯石斑鱼（Epinephelus tukula）的染色体水平基因组组装。

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

机构信息

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.

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.

出版信息

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

DOI:10.1016/j.ygeno.2022.110473

PMID:36049667

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.

摘要

土豆石斑鱼，Epinephelus tukula，是最大的珊瑚礁硬骨鱼之一，是选择和杂交的重要种质资源。在这里，我们报告了使用 PacBio 长读测序、Illumina 测序和高通量染色质构象捕获 (Hi-C) 技术生成的土豆石斑鱼基因组组装。基因组大小为 1.13Gb，共有 508 个 contigs 锚定在 24 条染色体上。支架 N50 为 42.65Mb。对于基因组模型，我们组装的基因组包含了 98.11%完整的 BUSCO，与脊椎动物_odb9 数据库相对应。在 E. tukula 基因组中还发现了一个额外的 Gh 和 Hsp90b1 拷贝，这可能有助于其快速生长和对压力的高抵抗力。此外，在土豆石斑鱼中鉴定出了 435 种潜在的抗菌肽 (AMP) 基因。这项研究为土豆石斑鱼的全基因组选择性育种和未来新型海洋药物的开发提供了很好的参考。