Digging into bivalve miRNAomes: between conservation and innovation
Bivalves are a diverse mollusc group of economic and ecological importance. An evident resilience to pollution, parasites and extreme environments makes some bivalve species important models for studying adaptation and immunity. Despite substantial progress in sequencing projects of bivalves, inform...
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ftpubmed:oai:pubmedcentral.nih.gov:8059956 2023-05-15T15:58:44+02:00 Digging into bivalve miRNAomes: between conservation and innovation Rosani, Umberto Bortoletto, Enrico Bai, Chang-Ming Novoa, Beatriz Figueras, Antonio Venier, Paola Fromm, Bastian 2021-05-24 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8059956/ http://www.ncbi.nlm.nih.gov/pubmed/33813895 https://doi.org/10.1098/rstb.2020.0165 en eng The Royal Society http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8059956/ http://www.ncbi.nlm.nih.gov/pubmed/33813895 http://dx.doi.org/10.1098/rstb.2020.0165 © 2021 The Author(s) https://royalsociety.org/-/media/journals/author/Licence-to-Publish-20062019-final.pdfhttps://royalsociety.org/journals/ethics-policies/data-sharing-mining/Published by the Royal Society. All rights reserved. Philos Trans R Soc Lond B Biol Sci Articles Text 2021 ftpubmed https://doi.org/10.1098/rstb.2020.0165 2022-05-29T00:26:05Z Bivalves are a diverse mollusc group of economic and ecological importance. An evident resilience to pollution, parasites and extreme environments makes some bivalve species important models for studying adaptation and immunity. Despite substantial progress in sequencing projects of bivalves, information on non-coding genes and gene-regulatory aspects is still lacking. Here, we review the current repertoire of bivalve microRNAs (miRNAs), important regulators of gene expression in Metazoa. We exploited available short non-coding RNA (sncRNA) data for Pinctada martensii, Crassostrea gigas, Corbicula fluminea, Tegillarca granosa and Ruditapes philippinarum, and we produced new sncRNA data for two additional bivalves, the Mediterranean mussel Mytilus galloprovincialis and the blood clam Scapharca broughtonii. We found substantial heterogeneity and incorrect annotations of miRNAs; hence, we reannotated conserved miRNA families using recently established criteria for bona fide microRNA annotation. We found 106 miRNA families missing in the previously published bivalve datasets and 89 and 87 miRNA complements were identified in the two additional species. The overall results provide a homogeneous and evolutionarily consistent picture of miRNAs in bivalves and enable future comparative studies. The identification of two bivalve-specific miRNA families sheds further light on the complexity of transcription and its regulation in bivalve molluscs. This article is part of the Theo Murphy meeting issue ‘Molluscan genomics: broad insights and future directions for a neglected phylum’. Text Crassostrea gigas PubMed Central (PMC) Philosophical Transactions of the Royal Society B: Biological Sciences 376 1825 20200165 |
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Articles Rosani, Umberto Bortoletto, Enrico Bai, Chang-Ming Novoa, Beatriz Figueras, Antonio Venier, Paola Fromm, Bastian Digging into bivalve miRNAomes: between conservation and innovation |
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Articles |
description |
Bivalves are a diverse mollusc group of economic and ecological importance. An evident resilience to pollution, parasites and extreme environments makes some bivalve species important models for studying adaptation and immunity. Despite substantial progress in sequencing projects of bivalves, information on non-coding genes and gene-regulatory aspects is still lacking. Here, we review the current repertoire of bivalve microRNAs (miRNAs), important regulators of gene expression in Metazoa. We exploited available short non-coding RNA (sncRNA) data for Pinctada martensii, Crassostrea gigas, Corbicula fluminea, Tegillarca granosa and Ruditapes philippinarum, and we produced new sncRNA data for two additional bivalves, the Mediterranean mussel Mytilus galloprovincialis and the blood clam Scapharca broughtonii. We found substantial heterogeneity and incorrect annotations of miRNAs; hence, we reannotated conserved miRNA families using recently established criteria for bona fide microRNA annotation. We found 106 miRNA families missing in the previously published bivalve datasets and 89 and 87 miRNA complements were identified in the two additional species. The overall results provide a homogeneous and evolutionarily consistent picture of miRNAs in bivalves and enable future comparative studies. The identification of two bivalve-specific miRNA families sheds further light on the complexity of transcription and its regulation in bivalve molluscs. This article is part of the Theo Murphy meeting issue ‘Molluscan genomics: broad insights and future directions for a neglected phylum’. |
format |
Text |
author |
Rosani, Umberto Bortoletto, Enrico Bai, Chang-Ming Novoa, Beatriz Figueras, Antonio Venier, Paola Fromm, Bastian |
author_facet |
Rosani, Umberto Bortoletto, Enrico Bai, Chang-Ming Novoa, Beatriz Figueras, Antonio Venier, Paola Fromm, Bastian |
author_sort |
Rosani, Umberto |
title |
Digging into bivalve miRNAomes: between conservation and innovation |
title_short |
Digging into bivalve miRNAomes: between conservation and innovation |
title_full |
Digging into bivalve miRNAomes: between conservation and innovation |
title_fullStr |
Digging into bivalve miRNAomes: between conservation and innovation |
title_full_unstemmed |
Digging into bivalve miRNAomes: between conservation and innovation |
title_sort |
digging into bivalve mirnaomes: between conservation and innovation |
publisher |
The Royal Society |
publishDate |
2021 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8059956/ http://www.ncbi.nlm.nih.gov/pubmed/33813895 https://doi.org/10.1098/rstb.2020.0165 |
genre |
Crassostrea gigas |
genre_facet |
Crassostrea gigas |
op_source |
Philos Trans R Soc Lond B Biol Sci |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8059956/ http://www.ncbi.nlm.nih.gov/pubmed/33813895 http://dx.doi.org/10.1098/rstb.2020.0165 |
op_rights |
© 2021 The Author(s) https://royalsociety.org/-/media/journals/author/Licence-to-Publish-20062019-final.pdfhttps://royalsociety.org/journals/ethics-policies/data-sharing-mining/Published by the Royal Society. All rights reserved. |
op_doi |
https://doi.org/10.1098/rstb.2020.0165 |
container_title |
Philosophical Transactions of the Royal Society B: Biological Sciences |
container_volume |
376 |
container_issue |
1825 |
container_start_page |
20200165 |
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1766394506418061312 |