Chromosome-level genome assembly of the silver pomfret <i>Pampus argenteus</i>

doi:10.1038/s41597-024-03070-0

IOCAS-IR

	Chromosome-level genome assembly of the silver pomfret Pampus argenteus
	Wei, Jiehong 1,2; Xiao, Yongshuang 1; Liu, Jing 1; Herrera-Ulloa, Angel 3; Loh, Kar-Hoe 4; Xu, Kuidong1
	2024-02-23
发表期刊	SCIENTIFIC DATA
卷号	11 期号:1 页码:11
通讯作者	Liu, Jing(jliu@qdio.ac.cn) ; Xu, Kuidong(kxu@qdio.ac.cn)
摘要	Pampus argenteus (Euphrasen, 1788) is one of the major fishery species in coastal China. Pampus argenteus has a highly specialized morphology, and its declining fishery resources have encouraged massive research efforts on its aquacultural biology. In this study, we reported the first high-quality chromosome-level genome of P. argenteus obtained by integrating Illumina, PacBio HiFi, and Hi-C sequencing techniques. The final size of the genome was 518.06 Mb, with contig and scaffold N50 values of 20.47 and 22.86 Mb, respectively. The sequences were anchored and oriented onto 24 pseudochromosomes based on Hi-C data corresponding to the 24-chromatid karyotype of P. argenteus. A colinear relationship was observed between the P. argenteus genome and that of a closely related species (Scomber japonicus). A total of 24,696 protein-coding genes were identified from the genome, 98.9% of which were complete BUSCOs. This report represents the first case of high-quality chromosome-level genome assembly for P. argenteus and can provide valuable information for future evolutionary, conservation, and aquacultural research.
DOI	10.1038/s41597-024-03070-0
收录类别	SCI
语种	英语
资助项目	National Natural Science Foundation of China (National Science Foundation of China)[31872195] ; National Natural Science Foundation of China (National Science Foundation of China)[32270472] ; National Natural Science Foundation of China[XDB42000000] ; Strategic Priority Research Program of the Chinese Academy of Sciences
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:001177046200001
出版者	NATURE PORTFOLIO
WOS关键词	SEQUENCE ; PREDICTION ; ALIGNMENT ; COVERAGE ; PROVIDES ; SYSTEM ; FINDER ; GENE
引用统计
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/184996
专题	中国科学院海洋研究所
通讯作者	Liu, Jing; Xu, Kuidong
作者单位	1.Chinese Acad Sci, Inst Oceanol, Qingdao, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Univ Nacl, Escuela Ciencias Biol, San Jose, Costa Rica 4.Univ Malaya, Inst Ocean & Earth Sci, Kuala Lumpur, Malaysia
第一作者单位	中国科学院海洋研究所
通讯作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Wei, Jiehong,Xiao, Yongshuang,Liu, Jing,et al. Chromosome-level genome assembly of the silver pomfret Pampus argenteus[J]. SCIENTIFIC DATA,2024,11(1):11.
APA	Wei, Jiehong,Xiao, Yongshuang,Liu, Jing,Herrera-Ulloa, Angel,Loh, Kar-Hoe,&Xu, Kuidong.(2024).Chromosome-level genome assembly of the silver pomfret Pampus argenteus.SCIENTIFIC DATA,11(1),11.
MLA	Wei, Jiehong,et al."Chromosome-level genome assembly of the silver pomfret Pampus argenteus".SCIENTIFIC DATA 11.1(2024):11.