Identification of MicroRNAs in the Coral Stylophora pistillata
Coral reefs are major contributors to marine biodiversity. However, they are in rapid decline due to global environmental changes such as rising sea surface temperatures, ocean acidification, and pollution. Genomic and transcriptomic analyses have broadened our understanding of coral biology, but a...
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ftpubmed:oai:pubmedcentral.nih.gov:3962355 2023-05-15T17:51:47+02:00 Identification of MicroRNAs in the Coral Stylophora pistillata Liew, Yi Jin Aranda, Manuel Carr, Adrian Baumgarten, Sebastian Zoccola, Didier Tambutté, Sylvie Allemand, Denis Micklem, Gos Voolstra, Christian R. 2014-03-21 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962355 http://www.ncbi.nlm.nih.gov/pubmed/24658574 https://doi.org/10.1371/journal.pone.0091101 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962355 http://www.ncbi.nlm.nih.gov/pubmed/24658574 http://dx.doi.org/10.1371/journal.pone.0091101 This is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2014 ftpubmed https://doi.org/10.1371/journal.pone.0091101 2014-03-30T01:43:38Z Coral reefs are major contributors to marine biodiversity. However, they are in rapid decline due to global environmental changes such as rising sea surface temperatures, ocean acidification, and pollution. Genomic and transcriptomic analyses have broadened our understanding of coral biology, but a study of the microRNA (miRNA) repertoire of corals is missing. miRNAs constitute a class of small non-coding RNAs of ∼22 nt in size that play crucial roles in development, metabolism, and stress response in plants and animals alike. In this study, we examined the coral Stylophora pistillata for the presence of miRNAs and the corresponding core protein machinery required for their processing and function. Based on small RNA sequencing, we present evidence for 31 bona fide microRNAs, 5 of which (miR-100, miR-2022, miR-2023, miR-2030, and miR-2036) are conserved in other metazoans. Homologues of Argonaute, Piwi, Dicer, Drosha, Pasha, and HEN1 were identified in the transcriptome of S. pistillata based on strong sequence conservation with known RNAi proteins, with additional support derived from phylogenetic trees. Examination of putative miRNA gene targets indicates potential roles in development, metabolism, immunity, and biomineralisation for several of the microRNAs. Here, we present first evidence of a functional RNAi machinery and five conserved miRNAs in S. pistillata, implying that miRNAs play a role in organismal biology of scleractinian corals. Analysis of predicted miRNA target genes in S. pistillata suggests potential roles of miRNAs in symbiosis and coral calcification. Given the importance of miRNAs in regulating gene expression in other metazoans, further expression analyses of small non-coding RNAs in transcriptional studies of corals should be informative about miRNA-affected processes and pathways. Text Ocean acidification PubMed Central (PMC) PLoS ONE 9 3 e91101 |
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Research Article Liew, Yi Jin Aranda, Manuel Carr, Adrian Baumgarten, Sebastian Zoccola, Didier Tambutté, Sylvie Allemand, Denis Micklem, Gos Voolstra, Christian R. Identification of MicroRNAs in the Coral Stylophora pistillata |
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Research Article |
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Coral reefs are major contributors to marine biodiversity. However, they are in rapid decline due to global environmental changes such as rising sea surface temperatures, ocean acidification, and pollution. Genomic and transcriptomic analyses have broadened our understanding of coral biology, but a study of the microRNA (miRNA) repertoire of corals is missing. miRNAs constitute a class of small non-coding RNAs of ∼22 nt in size that play crucial roles in development, metabolism, and stress response in plants and animals alike. In this study, we examined the coral Stylophora pistillata for the presence of miRNAs and the corresponding core protein machinery required for their processing and function. Based on small RNA sequencing, we present evidence for 31 bona fide microRNAs, 5 of which (miR-100, miR-2022, miR-2023, miR-2030, and miR-2036) are conserved in other metazoans. Homologues of Argonaute, Piwi, Dicer, Drosha, Pasha, and HEN1 were identified in the transcriptome of S. pistillata based on strong sequence conservation with known RNAi proteins, with additional support derived from phylogenetic trees. Examination of putative miRNA gene targets indicates potential roles in development, metabolism, immunity, and biomineralisation for several of the microRNAs. Here, we present first evidence of a functional RNAi machinery and five conserved miRNAs in S. pistillata, implying that miRNAs play a role in organismal biology of scleractinian corals. Analysis of predicted miRNA target genes in S. pistillata suggests potential roles of miRNAs in symbiosis and coral calcification. Given the importance of miRNAs in regulating gene expression in other metazoans, further expression analyses of small non-coding RNAs in transcriptional studies of corals should be informative about miRNA-affected processes and pathways. |
format |
Text |
author |
Liew, Yi Jin Aranda, Manuel Carr, Adrian Baumgarten, Sebastian Zoccola, Didier Tambutté, Sylvie Allemand, Denis Micklem, Gos Voolstra, Christian R. |
author_facet |
Liew, Yi Jin Aranda, Manuel Carr, Adrian Baumgarten, Sebastian Zoccola, Didier Tambutté, Sylvie Allemand, Denis Micklem, Gos Voolstra, Christian R. |
author_sort |
Liew, Yi Jin |
title |
Identification of MicroRNAs in the Coral Stylophora pistillata |
title_short |
Identification of MicroRNAs in the Coral Stylophora pistillata |
title_full |
Identification of MicroRNAs in the Coral Stylophora pistillata |
title_fullStr |
Identification of MicroRNAs in the Coral Stylophora pistillata |
title_full_unstemmed |
Identification of MicroRNAs in the Coral Stylophora pistillata |
title_sort |
identification of micrornas in the coral stylophora pistillata |
publisher |
Public Library of Science |
publishDate |
2014 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962355 http://www.ncbi.nlm.nih.gov/pubmed/24658574 https://doi.org/10.1371/journal.pone.0091101 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962355 http://www.ncbi.nlm.nih.gov/pubmed/24658574 http://dx.doi.org/10.1371/journal.pone.0091101 |
op_rights |
This is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
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CC-BY |
op_doi |
https://doi.org/10.1371/journal.pone.0091101 |
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PLoS ONE |
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9 |
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3 |
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e91101 |
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1766159039921651712 |