Chromosome-level genome assembly reveals the unique genome evolution of the swimming crab (Portunus trituberculatus). Issue 1 (6th January 2020)

• Record Type: Journal Article
• Authors: Tang, Boping; Zhang, Daizhen; Li, Haorong; Jiang, Senhao; Zhang, Huabin; Xuan, Fujun; Ge, Baoming; Wang, Zhengfei; Liu, Yu; Sha, Zhongli; Cheng, Yongxu; Jiang, Wei; Jiang, Hui; Wang, Zhongkai; Wang, Kun; Li, Chaofeng; Sun, Yue; She, Shusheng; Qiu, Qiang; Wang, Wen; Li, Xinzheng; Li, Yongxin; Liu, Qiuning; Ren, Yandong
• Is Part Of: GigaScience. Volume 9:Issue 1(2020)
• Publication Date: 2020-01-06
• Subjects: Portunus trituberculatus -- genome assembly -- crab -- chromosome -- evolution; Information storage and retrieval systems -- Research -- Periodicals; Biology -- Research -- Periodicals; Medical sciences -- Research -- Periodicals; Database management -- Periodicals; 570.285
• DOI: 10.1093/gigascience/giz161
• Languages: English
• ISSNs: 2047-217X

Abstract

Abstract: 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.