热带海参糙海参的染色体水平基因组组装和注释。

Chromosome-level genome assembly and annotation of the tropical sea cucumber Stichopus monotuberculatus.

机构信息

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, Guangzhou, 510301, China.

Guangdong Laboratory for Lingnan Modern Agriculture, College of Marine Sciences, South China Agricultural University, Guangzhou, 510642, China.

出版信息

Sci Data. 2024 Nov 18;11(1):1245. doi: 10.1038/s41597-024-03985-8.

DOI:10.1038/s41597-024-03985-8

PMID:39557846

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11574266/

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.

摘要

本研究结合纳米孔长读长、Illumina 短读长和 Hi-C 测序技术，生成了热带海参糙海参的染色体水平基因组。最终组装的基因组大小为 810.54Mb，contig N50 和 scaffold N50 值分别为 10.15Mb 和 35.36Mb。该组装包含 23 条假染色体，覆盖基因组的 99.82%。使用 BUSCO 进行的完整性分析表明，后生动物保守基因的 97.8%完整存在。共预测到 29596 个蛋白质编码基因，其中 94.43%的基因具有功能注释。本研究中生成的高质量基因组组装可能为糙海参资源保护和遗传育种的未来研究提供重要基础。