Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus)

doi:10.1038/s41597-023-02357-y

CORC > 海洋研究所 > 中国科学院海洋研究所 > 海洋生态与环境科学重点实验室

	Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus)
	Wang, Yibang 1,2; Zhang, Hui 1,2; Xian, Weiwei 1; Iwasaki, Wataru 3
刊名	SCIENTIFIC DATA
	2023-07-12
卷号	10 期号:1 页码:12
DOI	10.1038/s41597-023-02357-y
通讯作者	Zhang, Hui(zhanghui@qdio.ac.cn) ; Xian, Weiwei(wwxian@qdio.ac.cn)
英文摘要	Chelidonichthys spinosus, a secondary economic fish, is increasingly being exploited and valued in China. However, overfishing has led to it being recognized as one of the most depleted marine species in China. In this study, we generated a chromosome-level genome of C. spinosus using PacBio, Illumina, and Hi-C sequencing data. Ultimately, we assembled a 624.7 Mb genome of C. spinosus, with a contig N50 of 13.77 Mb and scaffold N50 of 28.11 Mb. We further anchored and oriented the assembled sequences onto 24 pseudo-chromosomes using Hi-C techniques. In total, 25,358 protein-coding genes were predicted, of which 24,072 (94.93%) genes were functionally annotated. The dot plot reveals a prominent co-linearity between C. spinosus and Cyclopterus lumpus, indicating a remarkably close phylogenetic relationship between these two species. The assembled genome sequences provide valuable information for elucidating the genetic adaptation and potential molecular basis of C. spinosus. They also have the potential to provide insight into the evolutionary investigation of teleost fish and vertebrates.
资助项目	National Key Research and Development Project of China[2022YFE0112800] ; Taishan Scholars Program ; National Natural Science Foundation of China[41976094] ; National Natural Science Foundation of China[42111540159] ; Youth Innovation Promotion Association CAS[2020211] ; Oceanographic Data Center, IOCAS
WOS关键词	DE-NOVO IDENTIFICATION ; FAMILIES ; TRANSCRIPTOME ; EVOLUTION ; ALIGNMENT ; ACCURATE ; DATABASE ; PROGRAM ; GENES
WOS研究方向	Science & Technology - Other Topics
语种	英语
出版者	NATURE PORTFOLIO
WOS记录号	WOS:001027114100004
内容类型	期刊论文
源URL	[http://ir.qdio.ac.cn/handle/337002/182559]
专题	海洋研究所_海洋生态与环境科学重点实验室
通讯作者	Zhang, Hui; Xian, Weiwei
作者单位	1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Univ Tokyo, Grad Sch Frontier Sci, Dept Integrated Biosci, Kashiwa, Japan
推荐引用方式 GB/T 7714	Wang, Yibang,Zhang, Hui,Xian, Weiwei,et al. Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus)[J]. SCIENTIFIC DATA,2023,10(1):12.
APA	Wang, Yibang,Zhang, Hui,Xian, Weiwei,&Iwasaki, Wataru.(2023).Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus).SCIENTIFIC DATA,10(1),12.
MLA	Wang, Yibang,et al."Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus)".SCIENTIFIC DATA 10.1(2023):12.