文献类型：期刊文献

英文题名：De novo sequencing and chromosomal-scale genome assembly of leopard coral grouper,Plectropomus leopardus

作者：Zhou, Qian[1,2];Guo, Xinyu[3,4];Huang, Yang[5];Gao, Haoyang[3,4];Xu, Hao[1];Liu, Shanshan[3,4];Zheng, Weiwei[1];Zhang, Tianshi[1];Tian, Changxu[5];Zhu, Chunhua[5];Lin, Haoran[6];Chen, Songlin[1,2]

机构：[1]Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, Key Lab Sustainable Dev Marine Fisheries, Minist Agr, Qingdao, Peoples R China;[2]Pilot Natl Lab Marine Sci & Technol Qingdao, Lab Marine Fisheries Sci & Food Prod Proc, Qingdao, Peoples R China;[3]BGI Shenzhen, BGI Qingdao, Qingdao, Peoples R China;[4]BGI Shenzhen, Qingdao Europe Adv Inst Life Sci, Qingdao, Peoples R China;[5]Guangdong Ocean Univ, Fisheries Coll, Guangdong Res Ctr Reprod Control & Breeding Techn, Southern Marine Sci & Engn Guangdong Lab, Zhanjiang, Peoples R China;[6]Sun Yat Sen Univ, Sch Life Sci, Guangzhou, Peoples R China

年份：2020

卷号：20

期号：5

起止页码：1403

外文期刊名：MOLECULAR ECOLOGY RESOURCES

收录：SCI-EXPANDED(收录号：WOS:000551117400001)、、Scopus(收录号：2-s2.0-85088308755)、WOS

基金：Southern Marine Science and Engineering Guangdong Laboratory (Zhanjiang), Grant/Award Number: ZJW-2019-06; Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology (Qingdao), Grant/Award Number: 2017ASTCP-OS15; Shandong Superior Variety Project, Grant/Award Number: 2016LZGC009; Central Publicinterest Scientific Institution Basal Research Fund, Grant/Award Number: CAFS (No. 2020TD20); Shandong Taishan Scholar Climbing Project

语种：英文

外文关键词：chromosomal assembly; genome annotation; genome sequencing; leopard coral grouper; Plectropomus leopardus

外文摘要：The leopard coral grouper,Plectropomus leopardus, belonging to the family Epinephelinae, is a carnivorous coral reef fish widely distributed in tropical and subtropical waters of the Indo-Pacific. Due to its appealing body appearance and delicious taste,P. leopardushas become a popular commercial fish for aquaculture in many countries. However, the lack of genomic and molecular resources forP. leopardushas hindered study of its biology and genomic breeding programmes. Here we report the de novo sequencing and assembly of theP. leopardusgenome using a combination of 10 x Genomics, high-throughput chromosome conformation capture (Hi-C) and PacBio long-read sequencing technologies. The genome assembly has a total length of 881.55 Mb with a scaffold N50 of 34.15 Mb, consisting of 24 pseudochromosome scaffolds.buscoanalysis showed that 97.2% of the conserved single-copy genes were retrieved, indicating the assembly was almost entire. We predicted 25,248 protein-coding genes, among which 96.5% were functionally annotated. Comparative genomic analyses revealed that gene family expansions inP. leoparduswere associated with immune-related pathways. In addition, we identified 5,178,453 single nucleotide polymorphisms based on genome resequencing of 54 individuals. TheP. leopardusgenome and genomic variation data provide valuable genomic resources for studies of its genetics, evolution and biology. In particular, it is expected to benefit the development of genomic breeding programmes in the farming industry.