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

doi:10.1038/s41597-023-02357-y

	Chromosome genome assembly and annotation of the spiny red gurnard (Chelidonichthys spinosus)
	Wang, Yibang1,2 ; Zhang, Hui1,2 ; Xian, Weiwei 1; Iwasaki, Wataru 3
	2023-07-12
发表期刊	SCIENTIFIC DATA
卷号	10 期号:1 页码:12
通讯作者	Zhang, Hui([email protected]) ; Xian, Weiwei([email protected])
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.
DOI	10.1038/s41597-023-02357-y
收录类别	SCI
语种	英语
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研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:001027114100004
出版者	NATURE PORTFOLIO
WOS关键词	DE-NOVO IDENTIFICATION ; FAMILIES ; TRANSCRIPTOME ; EVOLUTION ; ALIGNMENT ; ACCURATE ; DATABASE ; PROGRAM ; GENES
引用统计	被引频次：3[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/337002/182560
专题	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
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	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.