Chromosomal-level assembly of antarctic scaly rockcod, trematomus loennbergii genome using long-read sequencing and chromosome conformation capture (Hi-c) technologies

Euna Jo, Seung Jae Lee, Jeong Hoon Kim, Steven J. Parker, Eunkyung Choi, Jinmu Kim, So Ra Han, Tae Jin Oh, Hyun Park

Research output: Contribution to journalArticlepeer-review

2 Citations (Scopus)

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.

Original languageEnglish
Article number668
JournalDiversity
Volume13
Issue number12
DOIs
Publication statusPublished - 2021 Dec

Bibliographical note

Publisher Copyright:
© 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https:// creativecommons.org/licenses/by/ 4.0/).

Keywords

  • Antarctic fish
  • Chromosomal-level assembly
  • Hi-C
  • Long-read sequencing
  • Notothenioids

ASJC Scopus subject areas

  • Ecology
  • Ecological Modelling
  • Agricultural and Biological Sciences (miscellaneous)
  • Nature and Landscape Conservation

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