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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...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Science Press
2021
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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. |
format | Online Article Text |
id | pubmed-7840457 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Science Press |
record_format | MEDLINE/PubMed |
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
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title_full | Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
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title_fullStr | Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
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title_full_unstemmed | Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
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title_short | Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology
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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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