A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes
The krill species Euphausia superba plays a critical role in the food chain of the Antarctic ecosystem. Significant changes in climate conditions observed in the Antarctic Peninsula region in the last decades have already altered the distribution of krill and its reproductive dynamics. A deeper unde...
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ftpubmed:oai:pubmedcentral.nih.gov:9259678 2023-05-15T13:56:18+02:00 A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes Urso, Ilenia Biscontin, Alberto Corso, Davide Bertolucci, Cristiano Romualdi, Chiara De Pittà, Cristiano Meyer, Bettina Sales, Gabriele 2022-07-06 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9259678/ https://doi.org/10.1038/s41598-022-15320-5 en eng Nature Publishing Group UK http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9259678/ http://dx.doi.org/10.1038/s41598-022-15320-5 © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . CC-BY Sci Rep Article Text 2022 ftpubmed https://doi.org/10.1038/s41598-022-15320-5 2022-07-10T00:54:15Z The krill species Euphausia superba plays a critical role in the food chain of the Antarctic ecosystem. Significant changes in climate conditions observed in the Antarctic Peninsula region in the last decades have already altered the distribution of krill and its reproductive dynamics. A deeper understanding of the adaptation capabilities of this species is urgently needed. The availability of a large body of RNA-seq assays allowed us to extend the current knowledge of the krill transcriptome. Our study covered the entire developmental process providing information of central relevance for ecological studies. Here we identified a series of genes involved in different steps of the krill moulting cycle, in the reproductive process and in sexual maturation in accordance with what was already described in previous works. Furthermore, the new transcriptome highlighted the presence of differentially expressed genes previously unknown, playing important roles in cuticle development as well as in energy storage during the krill life cycle. The discovery of new opsin sequences, specifically rhabdomeric opsins, one onychopsin, and one non-visual arthropsin, expands our knowledge of the krill opsin repertoire. We have collected all these results into the KrillDB(2) database, a resource combining the latest annotation of the krill transcriptome with a series of analyses targeting genes relevant to krill physiology. KrillDB(2) provides in a single resource a comprehensive catalog of krill genes; an atlas of their expression profiles over all RNA-seq datasets publicly available; a study of differential expression across multiple conditions. Finally, it provides initial indications about the expression of microRNA precursors, whose contribution to krill physiology has never been reported before. Text Antarc* Antarctic Antarctic Peninsula Euphausia superba PubMed Central (PMC) Antarctic Antarctic Peninsula The Antarctic Scientific Reports 12 1 |
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Article Urso, Ilenia Biscontin, Alberto Corso, Davide Bertolucci, Cristiano Romualdi, Chiara De Pittà, Cristiano Meyer, Bettina Sales, Gabriele A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
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The krill species Euphausia superba plays a critical role in the food chain of the Antarctic ecosystem. Significant changes in climate conditions observed in the Antarctic Peninsula region in the last decades have already altered the distribution of krill and its reproductive dynamics. A deeper understanding of the adaptation capabilities of this species is urgently needed. The availability of a large body of RNA-seq assays allowed us to extend the current knowledge of the krill transcriptome. Our study covered the entire developmental process providing information of central relevance for ecological studies. Here we identified a series of genes involved in different steps of the krill moulting cycle, in the reproductive process and in sexual maturation in accordance with what was already described in previous works. Furthermore, the new transcriptome highlighted the presence of differentially expressed genes previously unknown, playing important roles in cuticle development as well as in energy storage during the krill life cycle. The discovery of new opsin sequences, specifically rhabdomeric opsins, one onychopsin, and one non-visual arthropsin, expands our knowledge of the krill opsin repertoire. We have collected all these results into the KrillDB(2) database, a resource combining the latest annotation of the krill transcriptome with a series of analyses targeting genes relevant to krill physiology. KrillDB(2) provides in a single resource a comprehensive catalog of krill genes; an atlas of their expression profiles over all RNA-seq datasets publicly available; a study of differential expression across multiple conditions. Finally, it provides initial indications about the expression of microRNA precursors, whose contribution to krill physiology has never been reported before. |
format |
Text |
author |
Urso, Ilenia Biscontin, Alberto Corso, Davide Bertolucci, Cristiano Romualdi, Chiara De Pittà, Cristiano Meyer, Bettina Sales, Gabriele |
author_facet |
Urso, Ilenia Biscontin, Alberto Corso, Davide Bertolucci, Cristiano Romualdi, Chiara De Pittà, Cristiano Meyer, Bettina Sales, Gabriele |
author_sort |
Urso, Ilenia |
title |
A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
title_short |
A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
title_full |
A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
title_fullStr |
A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
title_full_unstemmed |
A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
title_sort |
thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
publisher |
Nature Publishing Group UK |
publishDate |
2022 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9259678/ https://doi.org/10.1038/s41598-022-15320-5 |
geographic |
Antarctic Antarctic Peninsula The Antarctic |
geographic_facet |
Antarctic Antarctic Peninsula The Antarctic |
genre |
Antarc* Antarctic Antarctic Peninsula Euphausia superba |
genre_facet |
Antarc* Antarctic Antarctic Peninsula Euphausia superba |
op_source |
Sci Rep |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9259678/ http://dx.doi.org/10.1038/s41598-022-15320-5 |
op_rights |
© The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
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CC-BY |
op_doi |
https://doi.org/10.1038/s41598-022-15320-5 |
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Scientific Reports |
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12 |
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