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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ftawi:oai:epic.awi.de:56678 2023-05-15T13:45:22+02:00 A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes Urso, Illenia Biscontin, Alberto Bertolucci, Cristiano Romualdi, Chiara De Pitta, Cristiano Meyer, Bettina Sales, Gabriele 2022-07-06 application/pdf https://epic.awi.de/id/eprint/56678/ https://epic.awi.de/id/eprint/56678/1/Ursoetal2022.pdf https://hdl.handle.net/10013/epic.1b2b8478-6213-4f49-a550-0d6915f4a920 https://hdl.handle.net/ unknown Nature https://epic.awi.de/id/eprint/56678/1/Ursoetal2022.pdf https://hdl.handle.net/ Urso, I. , Biscontin, A. , Bertolucci, C. , Romualdi, C. , De Pitta, C. , Meyer, B. orcid:0000-0001-6804-9896 and Sales, G. (2022) A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes , Scientific reports, 12 (1), p. 11415 . doi:10.1038/s41598-022-15320-5 <https://doi.org/10.1038/s41598-022-15320-5> , hdl:10013/epic.1b2b8478-6213-4f49-a550-0d6915f4a920 EPIC3Scientific reports, Nature, 12(1), pp. 11415 Article NonPeerReviewed 2022 ftawi https://doi.org/10.1038/s41598-022-15320-5 2022-07-31T23:12:20Z 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 KrillDB2 database, a resource combining the latest annotation of the krill transcriptome with a series of analyses targeting genes relevant to krill physiology. KrillDB2 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. Article in Journal/Newspaper Antarc* Antarctic Antarctic Peninsula Euphausia superba Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) Antarctic Antarctic Peninsula The Antarctic Scientific Reports 12 1 |
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Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) |
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ftawi |
language |
unknown |
description |
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 KrillDB2 database, a resource combining the latest annotation of the krill transcriptome with a series of analyses targeting genes relevant to krill physiology. KrillDB2 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 |
Article in Journal/Newspaper |
author |
Urso, Illenia Biscontin, Alberto Bertolucci, Cristiano Romualdi, Chiara De Pitta, Cristiano Meyer, Bettina Sales, Gabriele |
spellingShingle |
Urso, Illenia Biscontin, Alberto Bertolucci, Cristiano Romualdi, Chiara De Pitta, Cristiano Meyer, Bettina Sales, Gabriele A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes |
author_facet |
Urso, Illenia Biscontin, Alberto Bertolucci, Cristiano Romualdi, Chiara De Pitta, Cristiano Meyer, Bettina Sales, Gabriele |
author_sort |
Urso, Illenia |
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 |
publishDate |
2022 |
url |
https://epic.awi.de/id/eprint/56678/ https://epic.awi.de/id/eprint/56678/1/Ursoetal2022.pdf https://hdl.handle.net/10013/epic.1b2b8478-6213-4f49-a550-0d6915f4a920 https://hdl.handle.net/ |
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 |
EPIC3Scientific reports, Nature, 12(1), pp. 11415 |
op_relation |
https://epic.awi.de/id/eprint/56678/1/Ursoetal2022.pdf https://hdl.handle.net/ Urso, I. , Biscontin, A. , Bertolucci, C. , Romualdi, C. , De Pitta, C. , Meyer, B. orcid:0000-0001-6804-9896 and Sales, G. (2022) A thorough annotation of the krill transcriptome offers new insights for the study of physiological processes , Scientific reports, 12 (1), p. 11415 . doi:10.1038/s41598-022-15320-5 <https://doi.org/10.1038/s41598-022-15320-5> , hdl:10013/epic.1b2b8478-6213-4f49-a550-0d6915f4a920 |
op_doi |
https://doi.org/10.1038/s41598-022-15320-5 |
container_title |
Scientific Reports |
container_volume |
12 |
container_issue |
1 |
_version_ |
1766222922221879296 |