CAS Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China.
Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
Sci Data. 2023 Jul 13;10(1):454. doi: 10.1038/s41597-023-02368-9.
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.
海参是棘皮动物门形态多样且生态重要的一个类群。海参中的刺参（Apostichopus japonicus）是最具经济价值的海参物种。2017 年，首次公布了刺参的基因组初步组装结果。然而，该基因组组装较为碎片化，缺乏染色体上基因的相对位置信息。在本研究中，我们利用 Pacbio HiFi 长读长和 Hi-C 测序数据，生成了高质量的刺参染色体水平基因组。组装后的刺参基因组大小为 671.60 Mb，contig N50 大小为 17.20 Mb，scaffold N50 大小为 29.65 Mb。组装结果共锚定到 23 条染色体上，完整性达到 99.9%。总共注释了 19828 个基因，97.2%的 BUSCO 基因完全被注释。该高质量的刺参基因组不仅有助于可持续水产养殖实践的发展，还为深入了解其遗传组成、进化历史和生态适应奠定了基础。
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