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Jan 08, 2025;15 (1):

The genome of the cryopelagic Antarctic bald notothen, Trematomus borchgrevinki.

Niraj Rayamajhi, Angel G Rivera-Col��n, Bushra Fazal Minhas, C H Christina Cheng, Julian M Catchen
Author Information
  1. Niraj Rayamajhi: Department of Evolution, Ecology, and Behavior, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States. ORCID
  2. Angel G Rivera-Col��n: Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403, United States. ORCID
  3. Bushra Fazal Minhas: Informatics Program, University of Illinois at Urbana-Champaign, Urbana, IL 61820, United States. ORCID
  4. C H Christina Cheng: Department of Evolution, Ecology, and Behavior, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States. ORCID
  5. Julian M Catchen: Department of Evolution, Ecology, and Behavior, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States. ORCID
PMID: 39549265 DOI: 10.1093/g3journal/jkae267

Abstract

The Antarctic bald notothen, Trematomus borchgrevinki (family Nototheniidae) occupies a high latitude, ice-laden environment and represents an extreme example of cold-specialization among fishes. We present the first, high-quality, chromosome-scale genome of a female T. borchgrevinki individual comprised of 23 putative chromosomes, the largest of which is 65 megabasepairs (Mbp) in length. The total length of the genome 935.13���Mbp, composed of 2,094 scaffolds, with a scaffold N50 of 42.67���Mbp. Annotation yielded 22,192 protein-coding genes while 54.75% of the genome was occupied by repetitive elements; an analysis of repeats demonstrated that an expansion occurred in recent time. Conserved synteny analysis revealed that the genome architecture of T. borchgrevinki is largely maintained with other members of the notothenioid clade, although several significant translocations and inversions are present, including the fusion of orthologous chromosomes 8 and 11 into a single element. This genome will serve as a cold-specialized model for comparisons to other members of the notothenioid adaptive radiation.

Keywords

Trematomus borchgrevinki cryonotothenioid genome assembly notothenioid

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Grants

  1. 10-69157/NSF DGE
  2. /IGERT
  3. /AGR-C
  4. 1645087/NSF OPP
  5. /JC
  6. /C-HCC
  7. 11-42158/NSF ANT
  8. /C-HCC

MeSH Term

Animals
Genome
Antarctic Regions
Synteny
Molecular Sequence Annotation
Chromosomes
Female
Perciformes
Repetitive Sequences, Nucleic Acid
Genomics
Phylogeny
Journal Article
Article has an altmetric score of 5

Word Cloud

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