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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ftpubmed:oai:pubmedcentral.nih.gov:3420891 2023-05-15T13:50:09+02:00 Transcriptomics and Comparative Analysis of Three Antarctic Notothenioid Fishes Shin, Seung Chul Kim, Su Jin Lee, Jong Kyu Ahn, Do Hwan Kim, Min Gyu Lee, Hyoungseok Lee, Jungeun Kim, Bum-Keun Park, Hyun 2012-08-16 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3420891 http://www.ncbi.nlm.nih.gov/pubmed/22916302 https://doi.org/10.1371/journal.pone.0043762 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3420891 http://www.ncbi.nlm.nih.gov/pubmed/22916302 http://dx.doi.org/10.1371/journal.pone.0043762 This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2012 ftpubmed https://doi.org/10.1371/journal.pone.0043762 2013-09-04T11:36:49Z 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. Text Antarc* Antarctic PubMed Central (PMC) Antarctic The Antarctic PLoS ONE 7 8 e43762 |
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Research Article Shin, Seung Chul Kim, Su Jin Lee, Jong Kyu Ahn, Do Hwan Kim, Min Gyu Lee, Hyoungseok Lee, Jungeun Kim, Bum-Keun Park, Hyun Transcriptomics and Comparative Analysis of Three Antarctic Notothenioid Fishes |
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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 |
Text |
author |
Shin, Seung Chul Kim, Su Jin Lee, Jong Kyu Ahn, Do Hwan Kim, Min Gyu Lee, Hyoungseok Lee, Jungeun Kim, Bum-Keun Park, Hyun |
author_facet |
Shin, Seung Chul Kim, Su Jin Lee, Jong Kyu Ahn, Do Hwan Kim, Min Gyu Lee, Hyoungseok Lee, Jungeun Kim, Bum-Keun Park, Hyun |
author_sort |
Shin, Seung Chul |
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 |
publishDate |
2012 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3420891 http://www.ncbi.nlm.nih.gov/pubmed/22916302 https://doi.org/10.1371/journal.pone.0043762 |
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Antarctic The Antarctic |
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Antarctic The Antarctic |
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Antarc* Antarctic |
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Antarc* Antarctic |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3420891 http://www.ncbi.nlm.nih.gov/pubmed/22916302 http://dx.doi.org/10.1371/journal.pone.0043762 |
op_rights |
This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1371/journal.pone.0043762 |
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PLoS ONE |
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e43762 |
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