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.

Identification of MicroRNAs in the Coral Stylophora pistillata

Dateien

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Datum

2014

Autor:innen

Liew, Yi Jin

Aranda, Manuel

Carr, Adrian

Baumgarten, Sebastian

Zoccola, Didier

Tambutté, Sylvie

Allemand, Denis

Micklem, Gos

Voolstra, Christian R.

Open Access-Veröffentlichung

Open Access Gold

Sammlungen

Biologie

Publikationstyp

Zeitschriftenartikel

Publikationsstatus

Published

Erschienen in

PLoS one. Public Library of Science (PLoS). 2014, 9(3), e91101. eISSN 1932-6203. Available under: doi: 10.1371/journal.pone.0091101

Zusammenfassung

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.

Fachgebiet (DDC)

570 Biowissenschaften, Biologie

Zitieren

ISO 690

LIEW, Yi Jin, Manuel ARANDA, Adrian CARR, Sebastian BAUMGARTEN, Didier ZOCCOLA, Sylvie TAMBUTTÉ, Denis ALLEMAND, Gos MICKLEM, Christian R. VOOLSTRA, 2014. Identification of MicroRNAs in the Coral Stylophora pistillata. In: PLoS one. Public Library of Science (PLoS). 2014, 9(3), e91101. eISSN 1932-6203. Available under: doi: 10.1371/journal.pone.0091101

BibTex

@article{Liew2014Ident-50922,
  year={2014},
  doi={10.1371/journal.pone.0091101},
  title={Identification of MicroRNAs in the Coral Stylophora pistillata},
  number={3},
  volume={9},
  journal={PLoS one},
  author={Liew, Yi Jin and Aranda, Manuel and Carr, Adrian and Baumgarten, Sebastian and Zoccola, Didier and Tambutté, Sylvie and Allemand, Denis and Micklem, Gos and Voolstra, Christian R.},
  note={Article Number: e91101}
}

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    <dcterms:abstract xml:lang="eng">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.</dcterms:abstract>
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