Scientific Data (Nov 2024)
Chromosome-level genome assembly and annotation of the tropical sea cucumber Stichopus monotuberculatus
- Ting Chen,
- Yun Yang,
- Xuan Wang,
- Zhou Qin,
- Zhenyu Xie,
- Dingding Fan,
- Chunhua Ren,
- Hongyan Sun,
- Peng Luo,
- Xiao Jiang,
- Hao Long,
- Chang Chen,
- Wenjie Pan,
- Zixuan E.,
- Jiasheng Huang,
- Qianying Huang,
- Jianfeng Xu,
- Zepeng Zhang,
- Chuhang Cheng,
- Suzhong Yu,
- Yanhong Wang,
- Fajun Jiang,
- Aifen Yan,
- Chaoqun Hu
Affiliations
- Ting Chen
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Yun Yang
- Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University
- Xuan Wang
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Zhou Qin
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Zhenyu Xie
- Laboratory of Marine Resource Utilization in the South China Sea, Hainan University
- Dingding Fan
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Chunhua Ren
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Hongyan Sun
- Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University
- Peng Luo
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Xiao Jiang
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Hao Long
- Laboratory of Marine Resource Utilization in the South China Sea, Hainan University
- Chang Chen
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Wenjie Pan
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Zixuan E.
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Jiasheng Huang
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Qianying Huang
- School of Medicine, Foshan University
- Jianfeng Xu
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Zepeng Zhang
- Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University
- Chuhang Cheng
- Guangxi Key Laboratory of Marine Environmental Science, Guangxi Academy of Marine Sciences, Guangxi Academy of Sciences
- Suzhong Yu
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Yanhong Wang
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- Fajun Jiang
- Guangxi Key Laboratory of Marine Environmental Science, Guangxi Academy of Marine Sciences, Guangxi Academy of Sciences
- Aifen Yan
- School of Medicine, Foshan University
- Chaoqun Hu
- Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences
- DOI
- https://doi.org/10.1038/s41597-024-03985-8
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 12
Abstract
Abstract In this study, a chromosome-level genome of the tropical sea cucumber Stichopus monotuberculatus was generated by a combination of Nanopore long-read, Illumina short-read, and Hi-C sequencing technologies. The final assembly was 810.54 Mb in length, with contig N50 and scaffold N50 values of 10.15 Mb and 35.36 Mb, respectively. This assembly comprised 23 pseudo-chromosomes, covering 99.82% of the genome. Completeness analysis using BUSCO indicated that 97.8% of the metazoan conserved genes were presented in their entirety. A total of 29,596 protein-coding genes were predicted, with functional annotations available for 94.43% of these genes. The high-quality genome assembly produced in this study may provide an essential foundation for future researches on resource conservation and genetic breeding of S. monotuberculatus.
