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...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2012-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3420891?pdf=render |
| _version_ | 1818359237390106624 |
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| 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 |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-12-13T20:41:42Z |
| format | Article |
| id | doaj.art-01e9061c221e4cfa8dd21a399619ad89 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-13T20:41:42Z |
| publishDate | 2012-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-01e9061c221e4cfa8dd21a399619ad892022-12-21T23:32:08ZengPublic Library of Science (PLoS)PLoS ONE1932-62032012-01-0178e4376210.1371/journal.pone.0043762Transcriptomics and comparative analysis of three antarctic notothenioid fishes.Seung Chul ShinSu Jin KimJong Kyu LeeDo Hwan AhnMin Gyu KimHyoungseok LeeJungeun LeeBum-Keun KimHyun ParkFor 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.http://europepmc.org/articles/PMC3420891?pdf=render |
| spellingShingle | 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. PLoS ONE |
| title | 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_short | Transcriptomics and comparative analysis of three antarctic notothenioid fishes. |
| title_sort | transcriptomics and comparative analysis of three antarctic notothenioid fishes |
| url | http://europepmc.org/articles/PMC3420891?pdf=render |
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