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Chromosome-level genome assembly reveals the unique genome evolution of the swimming crab (Portunus trituberculatus)

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: He...

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Detalles Bibliográficos
Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6944217/
https://www.ncbi.nlm.nih.gov/pubmed/31904811
http://dx.doi.org/10.1093/gigascience/giz161
Descripción
Sumario: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.