Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus

doi:10.1038/s41597-023-02368-9

	Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus
	Sun, Lina 1,2,3; Jiang, Chunxi 1,2,3; Su, Fang 1,2,3; Cui, Wei1,2,3 ; Yang, Hongsheng1,2,3
	2023-07-13
发表期刊	SCIENTIFIC DATA
卷号	10 期号:1 页码:10
通讯作者	Sun, Lina(sunlina@qdio.ac.cn) ; Yang, Hongsheng(hshyang@qdio.ac.cn)
摘要	Sea cucumber is a morphologically diverse and ecologically important clade of echinoderms. The sea cucumber Apostichopus japonicus is the most economically valuable species of sea cucumber. The initial assembly of the A. japonicus genome was released in 2017. However, this genome assembly is fragmented and lacks relative position information of genes on chromosomes. In this study, we produced a high-quality chromosome-level genome of A. japonicus using Pacbio HiFi long-reads and Hi-C sequencing data. The assembled A. japonicus genome spanned 671.60 Mb with a contig N50 size of 17.20 Mb and scaffold N50 size of 29.65 Mb. A total of 99.9% of the assembly was anchored to 23 chromosomes. In total, 19,828 genes were annotated, and 97.2% of BUSCO genes were fully represented. This high-quality genome of A. japonicus will not only aid in the development of sustainable aquaculture practices, but also lay a foundation for a deeper understanding of their genetic makeup, evolutionary history, and ecological adaptation.
DOI	10.1038/s41597-023-02368-9
收录类别	SCI
语种	英语
资助项目	National Natural Science Foundation of China[42076093] ; National Natural Science Foundation of China[42276143] ; Taishan Scholars Program
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:001027856300001
出版者	NATURE PORTFOLIO
WOS关键词	INTESTINE REGENERATION ; GENE ; PREDICTION ; ALIGNMENT ; IDENTIFICATION ; CLASSIFICATION ; INTERPRO ; DATABASE ; PROGRAM ; GROWTH
引用统计	被引频次：2[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/182584
专题	海洋生态与环境科学重点实验室
通讯作者	Sun, Lina; Yang, Hongsheng
作者单位	1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
第一作者单位	海洋生态与环境科学重点实验室
通讯作者单位	海洋生态与环境科学重点实验室
推荐引用方式 GB/T 7714	Sun, Lina,Jiang, Chunxi,Su, Fang,et al. Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus[J]. SCIENTIFIC DATA,2023,10(1):10.
APA	Sun, Lina,Jiang, Chunxi,Su, Fang,Cui, Wei,&Yang, Hongsheng.(2023).Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus.SCIENTIFIC DATA,10(1),10.
MLA	Sun, Lina,et al."Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus".SCIENTIFIC DATA 10.1(2023):10.