Chromosomal-Level Assembly of Antarctic Scaly Rockcod, Trematomus loennbergii Genome Using Long-Read Sequencing and Chromosome Conformation Capture (Hi-C) Technologies
- Authors
- Jo, Euna; Lee, Seung Jae; Kim, Jeong-Hoon; Parker, Steven J.; Choi, Eunkyung; Kim, Jinmu; Han, So-Ra; Oh, Tae-Jin; Park, Hyun
- Issue Date
- Dec-2021
- Publisher
- MDPI
- Keywords
- Antarctic fish; Hi-C; chromosomal-level assembly; long-read sequencing; notothenioids
- Citation
- DIVERSITY-BASEL, v.13, no.12
- Indexed
- SCIE
SCOPUS
- Journal Title
- DIVERSITY-BASEL
- Volume
- 13
- Number
- 12
- URI
- https://scholar.korea.ac.kr/handle/2021.sw.korea/135674
- DOI
- 10.3390/d13120668
- ISSN
- 1424-2818
- Abstract
- Trematomus species (suborder Notothenioidei; family Nototheniidae) are widely distributed in the southern oceans near Antarctica. There are 11 recognized species in the genus Trematomus, and notothenioids are known to have high chromosomal diversity (2n = 24-58) because of relatively recent and rapid adaptive radiation. Herein, we report the chromosomal-level genome assembly of T. loennbergii, the first characterized genome representative of the genus Trematomus. The final genome assembly of T. loennbergii was obtained using a Pacific Biosciences long-read sequencing platform and high-throughput chromosome conformation capture technology. Twenty-three chromosomal-level scaffolds were assembled to 940 Mb in total size, with a longest contig size of 48.5 Mb and contig N50 length of 24.7 Mb. The genome contained 42.03% repeat sequences, and a total of 24,525 protein-coding genes were annotated. We produced a high-quality genome assembly of T. loennbergii. Our results provide a first reference genome for the genus Trematomus and will serve as a basis for studying the molecular taxonomy and evolution of Antarctic fish.
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