Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes
The Antarctic krill, Euphausia superba, has a key position in the Southern Ocean food web by serving as direct link between primary producers and apex predators. The south-west Atlantic sector of the Southern Ocean, where the majority of the krill population is located, is experiencing one of the mo...
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ftpubmed:oai:pubmedcentral.nih.gov:4672718 2023-05-15T13:33:24+02:00 Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes Meyer, B Martini, P Biscontin, A De Pittà, C Romualdi, C Teschke, M Frickenhaus, S Harms, L Freier, U Jarman, S Kawaguchi, S 2015-11 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672718/ http://www.ncbi.nlm.nih.gov/pubmed/25818178 https://doi.org/10.1111/1755-0998.12408 en eng John Wiley & Sons, Ltd http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672718/ http://www.ncbi.nlm.nih.gov/pubmed/25818178 http://dx.doi.org/10.1111/1755-0998.12408 © 2015 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. CC-BY-NC-ND Resource Articles Text 2015 ftpubmed https://doi.org/10.1111/1755-0998.12408 2015-12-20T01:17:26Z The Antarctic krill, Euphausia superba, has a key position in the Southern Ocean food web by serving as direct link between primary producers and apex predators. The south-west Atlantic sector of the Southern Ocean, where the majority of the krill population is located, is experiencing one of the most profound environmental changes worldwide. Up to now, we have only cursory information about krill’s genomic plasticity to cope with the ongoing environmental changes induced by anthropogenic CO2 emission. The genome of krill is not yet available due to its large size (about 48 Gbp). Here, we present two cDNA normalized libraries from whole krill and krill heads sampled in different seasons that were combined with two data sets of krill transcriptome projects, already published, to produce the first knowledgebase krill ‘master’ transcriptome. The new library produced 25% more E. superba transcripts and now includes nearly all the enzymes involved in the primary oxidative metabolism (Glycolysis, Krebs cycle and oxidative phosphorylation) as well as all genes involved in glycogenesis, glycogen breakdown, gluconeogenesis, fatty acid synthesis and fatty acids β-oxidation. With these features, the ‘master’ transcriptome provides the most complete picture of metabolic pathways in Antarctic krill and will provide a major resource for future physiological and molecular studies. This will be particularly valuable for characterizing the molecular networks that respond to stressors caused by the anthropogenic CO2 emissions and krill’s capacity to cope with the ongoing environmental changes in the Atlantic sector of the Southern Ocean. Text Antarc* Antarctic Antarctic Krill Euphausia superba Southern Ocean PubMed Central (PMC) Antarctic Krebs ENVELOPE(-61.467,-61.467,-64.633,-64.633) Southern Ocean The Antarctic Molecular Ecology Resources 15 6 1460 1471 |
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Resource Articles Meyer, B Martini, P Biscontin, A De Pittà, C Romualdi, C Teschke, M Frickenhaus, S Harms, L Freier, U Jarman, S Kawaguchi, S Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
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Resource Articles |
description |
The Antarctic krill, Euphausia superba, has a key position in the Southern Ocean food web by serving as direct link between primary producers and apex predators. The south-west Atlantic sector of the Southern Ocean, where the majority of the krill population is located, is experiencing one of the most profound environmental changes worldwide. Up to now, we have only cursory information about krill’s genomic plasticity to cope with the ongoing environmental changes induced by anthropogenic CO2 emission. The genome of krill is not yet available due to its large size (about 48 Gbp). Here, we present two cDNA normalized libraries from whole krill and krill heads sampled in different seasons that were combined with two data sets of krill transcriptome projects, already published, to produce the first knowledgebase krill ‘master’ transcriptome. The new library produced 25% more E. superba transcripts and now includes nearly all the enzymes involved in the primary oxidative metabolism (Glycolysis, Krebs cycle and oxidative phosphorylation) as well as all genes involved in glycogenesis, glycogen breakdown, gluconeogenesis, fatty acid synthesis and fatty acids β-oxidation. With these features, the ‘master’ transcriptome provides the most complete picture of metabolic pathways in Antarctic krill and will provide a major resource for future physiological and molecular studies. This will be particularly valuable for characterizing the molecular networks that respond to stressors caused by the anthropogenic CO2 emissions and krill’s capacity to cope with the ongoing environmental changes in the Atlantic sector of the Southern Ocean. |
format |
Text |
author |
Meyer, B Martini, P Biscontin, A De Pittà, C Romualdi, C Teschke, M Frickenhaus, S Harms, L Freier, U Jarman, S Kawaguchi, S |
author_facet |
Meyer, B Martini, P Biscontin, A De Pittà, C Romualdi, C Teschke, M Frickenhaus, S Harms, L Freier, U Jarman, S Kawaguchi, S |
author_sort |
Meyer, B |
title |
Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
title_short |
Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
title_full |
Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
title_fullStr |
Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
title_full_unstemmed |
Pyrosequencing and de novo assembly of Antarctic krill (Euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
title_sort |
pyrosequencing and de novo assembly of antarctic krill (euphausia superba) transcriptome to study the adaptability of krill to climate-induced environmental changes |
publisher |
John Wiley & Sons, Ltd |
publishDate |
2015 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672718/ http://www.ncbi.nlm.nih.gov/pubmed/25818178 https://doi.org/10.1111/1755-0998.12408 |
long_lat |
ENVELOPE(-61.467,-61.467,-64.633,-64.633) |
geographic |
Antarctic Krebs Southern Ocean The Antarctic |
geographic_facet |
Antarctic Krebs Southern Ocean The Antarctic |
genre |
Antarc* Antarctic Antarctic Krill Euphausia superba Southern Ocean |
genre_facet |
Antarc* Antarctic Antarctic Krill Euphausia superba Southern Ocean |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4672718/ http://www.ncbi.nlm.nih.gov/pubmed/25818178 http://dx.doi.org/10.1111/1755-0998.12408 |
op_rights |
© 2015 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. |
op_rightsnorm |
CC-BY-NC-ND |
op_doi |
https://doi.org/10.1111/1755-0998.12408 |
container_title |
Molecular Ecology Resources |
container_volume |
15 |
container_issue |
6 |
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1460 |
op_container_end_page |
1471 |
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1766041943745232896 |