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Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology

The Antarctic toothfish, Dissostichus mawsoni, belongs to the Nototheniidae family and is distributed in sub-zero temperatures below S60° latitude in the Southern Ocean. Therefore, it is an attractive model species to study the stenothermal cold-adapted character state. In this study, we successfull...

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Autores principales: Jae Lee, Seung, Kim, Jeong-Hoon, Jo, Euna, Choi, Eunkyung, Kim, Jinmu, Choi, Seok-Gwan, Chung, Sangdeok, Kim, Hyun-Woo, Park, Hyun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Science Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7840457/
https://www.ncbi.nlm.nih.gov/pubmed/33258338
http://dx.doi.org/10.24272/j.issn.2095-8137.2020.264
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author Jae Lee, Seung
Kim, Jeong-Hoon
Jo, Euna
Choi, Eunkyung
Kim, Jinmu
Choi, Seok-Gwan
Chung, Sangdeok
Kim, Hyun-Woo
Park, Hyun
author_facet Jae Lee, Seung
Kim, Jeong-Hoon
Jo, Euna
Choi, Eunkyung
Kim, Jinmu
Choi, Seok-Gwan
Chung, Sangdeok
Kim, Hyun-Woo
Park, Hyun
author_sort Jae Lee, Seung
collection PubMed
description The Antarctic toothfish, Dissostichus mawsoni, belongs to the Nototheniidae family and is distributed in sub-zero temperatures below S60° latitude in the Southern Ocean. Therefore, it is an attractive model species to study the stenothermal cold-adapted character state. In this study, we successfully generated highly contiguous genome sequences of D. mawsoni, which contained 1 062 scaffolds with a N50 length of 36.98 Mb and longest scaffold length of 46.82 Mb. Repetitive elements accounted for 40.87% of the genome. We also inferred 32 914 protein-coding genes using in silico gene prediction and transcriptome sequencing and detected splicing variants using Isoform-Sequencing (Iso-Seq), which will be invaluable resource for further exploration of the adaptation mechanisms of Antarctic toothfish. This new high-quality reference genome of D. mawsoni provides a fundamental resource for a deeper understanding of cold adaptation and conservation of species.
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spelling pubmed-78404572021-01-29 Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology Jae Lee, Seung Kim, Jeong-Hoon Jo, Euna Choi, Eunkyung Kim, Jinmu Choi, Seok-Gwan Chung, Sangdeok Kim, Hyun-Woo Park, Hyun Zool Res Letters to the Editor The Antarctic toothfish, Dissostichus mawsoni, belongs to the Nototheniidae family and is distributed in sub-zero temperatures below S60° latitude in the Southern Ocean. Therefore, it is an attractive model species to study the stenothermal cold-adapted character state. In this study, we successfully generated highly contiguous genome sequences of D. mawsoni, which contained 1 062 scaffolds with a N50 length of 36.98 Mb and longest scaffold length of 46.82 Mb. Repetitive elements accounted for 40.87% of the genome. We also inferred 32 914 protein-coding genes using in silico gene prediction and transcriptome sequencing and detected splicing variants using Isoform-Sequencing (Iso-Seq), which will be invaluable resource for further exploration of the adaptation mechanisms of Antarctic toothfish. This new high-quality reference genome of D. mawsoni provides a fundamental resource for a deeper understanding of cold adaptation and conservation of species. Science Press 2021-01-18 /pmc/articles/PMC7840457/ /pubmed/33258338 http://dx.doi.org/10.24272/j.issn.2095-8137.2020.264 Text en Editorial Office of Zoological Research, Kunming Institute of Zoology, Chinese Academy of Sciences http://creativecommons.org/licenses/by-nc/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Letters to the Editor
Jae Lee, Seung
Kim, Jeong-Hoon
Jo, Euna
Choi, Eunkyung
Kim, Jinmu
Choi, Seok-Gwan
Chung, Sangdeok
Kim, Hyun-Woo
Park, Hyun
Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title_full Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title_fullStr Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title_full_unstemmed Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title_short Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
title_sort chromosomal assembly of the antarctic toothfish (dissostichus mawsoni) genome using third-generation dna sequencing and hi-c technology
topic Letters to the Editor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7840457/
https://www.ncbi.nlm.nih.gov/pubmed/33258338
http://dx.doi.org/10.24272/j.issn.2095-8137.2020.264
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