染色体水平基因组组装揭示了游泳蟹（三疣梭子蟹）独特的基因组进化。
Chromosome-level genome assembly reveals the unique genome evolution of the swimming crab (Portunus trituberculatus).
机构信息
Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources and Environmental Protection, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University, Kaifang Road 50#, Yancheng 224002, China.
Center for Ecological and Environmental Sciences, Northwestern Polytechnical University, Youyixi Road 127#, Xi'an 710072, China.
出版信息
Gigascience. 2020 Jan 1;9(1). doi: 10.1093/gigascience/giz161.
BACKGROUND
The swimming crab, Portunus trituberculatus, is an important commercial species in China and is widely distributed in the coastal waters of Asia-Pacific countries. Despite increasing interest in swimming crab research, a high-quality chromosome-level genome is still lacking.
FINDINGS
Here, we assembled the first chromosome-level reference genome of P. trituberculatus by combining the short reads, Nanopore long reads, and Hi-C data. The genome assembly size was 1.00 Gb with a contig N50 length of 4.12 Mb. In addition, BUSCO assessment indicated that 94.7% of core eukaryotic genes were present in the genome assembly. Approximately 54.52% of the genome was identified as repetitive sequences, with a total of 16,796 annotated protein-coding genes. In addition, we anchored contigs into chromosomes and identified 50 chromosomes with an N50 length of 21.80 Mb by Hi-C technology.
CONCLUSIONS
We anticipate that this chromosome-level assembly of the P. trituberculatus genome will not only promote study of basic development and evolution but also provide important resources for swimming crab reproduction.
背景
三疣梭子蟹是中国重要的商业蟹种，广泛分布于亚太国家的沿海水域。尽管人们对三疣梭子蟹的研究兴趣日益浓厚，但高质量的染色体水平基因组仍然缺乏。
发现
本研究通过结合短读长、纳米孔长读长和 Hi-C 数据，组装了第一个三疣梭子蟹的染色体水平参考基因组。基因组组装大小为 1.00Gb，contig N50 长度为 4.12Mb。此外，BUSCO 评估表明，基因组中存在 94.7%的核心真核生物基因。约 54.52%的基因组被鉴定为重复序列，共注释了 16796 个蛋白编码基因。此外，我们通过 Hi-C 技术将 contigs 锚定到染色体上，并鉴定出 50 条染色体，N50 长度为 21.80Mb。
结论
我们预计，该三疣梭子蟹染色体水平基因组组装不仅将促进基础发育和进化研究，还将为三疣梭子蟹繁殖提供重要资源。
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