Transcriptomics and comparative analysis of three antarctic notothenioid fishes.
For the past 10 to 13 million years, Antarctic notothenioid fish have undergone extraordinary periods of evolution and have adapted to a cold and highly oxygenated Antarctic marine environment. While these species are considered an attractive model with which to study physiology and evolutionary ada...
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ftdoajarticles:oai:doaj.org/article:01e9061c221e4cfa8dd21a399619ad89 2023-05-15T13:34:55+02:00 Transcriptomics and comparative analysis of three antarctic notothenioid fishes. Seung Chul Shin Su Jin Kim Jong Kyu Lee Do Hwan Ahn Min Gyu Kim Hyoungseok Lee Jungeun Lee Bum-Keun Kim Hyun Park 2012-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0043762 https://doaj.org/article/01e9061c221e4cfa8dd21a399619ad89 EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC3420891?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0043762 https://doaj.org/article/01e9061c221e4cfa8dd21a399619ad89 PLoS ONE, Vol 7, Iss 8, p e43762 (2012) Medicine R Science Q article 2012 ftdoajarticles https://doi.org/10.1371/journal.pone.0043762 2022-12-31T04:30:52Z For the past 10 to 13 million years, Antarctic notothenioid fish have undergone extraordinary periods of evolution and have adapted to a cold and highly oxygenated Antarctic marine environment. While these species are considered an attractive model with which to study physiology and evolutionary adaptation, they are poorly characterized at the molecular level, and sequence information is lacking. The transcriptomes of the Antarctic fishes Notothenia coriiceps, Chaenocephalus aceratus, and Pleuragramma antarcticum were obtained by 454 FLX Titanium sequencing of a normalized cDNA library. More than 1,900,000 reads were assembled in a total of 71,539 contigs. Overall, 40% of the contigs were annotated based on similarity to known protein or nucleotide sequences, and more than 50% of the predicted transcripts were validated as full-length or putative full-length cDNAs. These three Antarctic fishes shared 663 genes expressed in the brain and 1,557 genes expressed in the liver. In addition, these cold-adapted fish expressed more Ub-conjugated proteins compared to temperate fish; Ub-conjugated proteins are involved in maintaining proteins in their native state in the cold and thermally stable Antarctic environments. Our transcriptome analysis of Antarctic notothenioid fish provides an archive for future studies in molecular mechanisms of fundamental genetic questions, and can be used in evolution studies comparing other fish. Article in Journal/Newspaper Antarc* Antarctic Directory of Open Access Journals: DOAJ Articles Antarctic The Antarctic PLoS ONE 7 8 e43762 |
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Directory of Open Access Journals: DOAJ Articles |
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Medicine R Science Q |
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Medicine R Science Q Seung Chul Shin Su Jin Kim Jong Kyu Lee Do Hwan Ahn Min Gyu Kim Hyoungseok Lee Jungeun Lee Bum-Keun Kim Hyun Park Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
topic_facet |
Medicine R Science Q |
description |
For the past 10 to 13 million years, Antarctic notothenioid fish have undergone extraordinary periods of evolution and have adapted to a cold and highly oxygenated Antarctic marine environment. While these species are considered an attractive model with which to study physiology and evolutionary adaptation, they are poorly characterized at the molecular level, and sequence information is lacking. The transcriptomes of the Antarctic fishes Notothenia coriiceps, Chaenocephalus aceratus, and Pleuragramma antarcticum were obtained by 454 FLX Titanium sequencing of a normalized cDNA library. More than 1,900,000 reads were assembled in a total of 71,539 contigs. Overall, 40% of the contigs were annotated based on similarity to known protein or nucleotide sequences, and more than 50% of the predicted transcripts were validated as full-length or putative full-length cDNAs. These three Antarctic fishes shared 663 genes expressed in the brain and 1,557 genes expressed in the liver. In addition, these cold-adapted fish expressed more Ub-conjugated proteins compared to temperate fish; Ub-conjugated proteins are involved in maintaining proteins in their native state in the cold and thermally stable Antarctic environments. Our transcriptome analysis of Antarctic notothenioid fish provides an archive for future studies in molecular mechanisms of fundamental genetic questions, and can be used in evolution studies comparing other fish. |
format |
Article in Journal/Newspaper |
author |
Seung Chul Shin Su Jin Kim Jong Kyu Lee Do Hwan Ahn Min Gyu Kim Hyoungseok Lee Jungeun Lee Bum-Keun Kim Hyun Park |
author_facet |
Seung Chul Shin Su Jin Kim Jong Kyu Lee Do Hwan Ahn Min Gyu Kim Hyoungseok Lee Jungeun Lee Bum-Keun Kim Hyun Park |
author_sort |
Seung Chul Shin |
title |
Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
title_short |
Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
title_full |
Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
title_fullStr |
Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
title_full_unstemmed |
Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
title_sort |
transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2012 |
url |
https://doi.org/10.1371/journal.pone.0043762 https://doaj.org/article/01e9061c221e4cfa8dd21a399619ad89 |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_source |
PLoS ONE, Vol 7, Iss 8, p e43762 (2012) |
op_relation |
http://europepmc.org/articles/PMC3420891?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0043762 https://doaj.org/article/01e9061c221e4cfa8dd21a399619ad89 |
op_doi |
https://doi.org/10.1371/journal.pone.0043762 |
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PLoS ONE |
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7 |
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8 |
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e43762 |
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1766059047077806080 |