Transcriptome Analysis of the Scleractinian Coral Stylophora pistillata
Identifieur interne : 002996 ( Pmc/Curation ); précédent : 002995; suivant : 002997Transcriptome Analysis of the Scleractinian Coral Stylophora pistillata
Auteurs : Sarit Karako-Lampert [Israël] ; Didier Zoccola [Monaco] ; Mali Salmon-Divon [Israël] ; Mark Katzenellenbogen [Israël] ; Sylvie Tambutté [Monaco] ; Anthony Bertucci [Monaco, France, Australie] ; Ove Hoegh-Guldberg [Australie] ; Emeline Deleury [France] ; Denis Allemand [Monaco] ; Oren Levy [Israël]Source :
- PLoS ONE [ 1932-6203 ] ; 2014.
Abstract
The principal architects of coral reefs are the scleractinian corals; these species are divided in two major clades referred to as “robust” and “complex” corals. Although the molecular diversity of the “complex” clade has received considerable attention, with several expressed sequence tag (EST) libraries and a complete genome sequence having been constructed, the “robust” corals have received far less attention, despite the fact that robust corals have been prominent focal points for ecological and physiological studies. Filling this gap affords important opportunities to extend these studies and to improve our understanding of the differences between the two major clades. Here, we present an EST library from
Url:
DOI: 10.1371/journal.pone.0088615
PubMed: 24551124
PubMed Central: 3923803
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Transcriptome Analysis of the Scleractinian Coral <italic>Stylophora pistillata</italic>
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<front><div type="abstract" xml:lang="en"><p>The principal architects of coral reefs are the scleractinian corals; these species are divided in two major clades referred to as “robust” and “complex” corals. Although the molecular diversity of the “complex” clade has received considerable attention, with several expressed sequence tag (EST) libraries and a complete genome sequence having been constructed, the “robust” corals have received far less attention, despite the fact that robust corals have been prominent focal points for ecological and physiological studies. Filling this gap affords important opportunities to extend these studies and to improve our understanding of the differences between the two major clades. Here, we present an EST library from <italic>Stylophora pistillata</italic>
(Esper 1797) and systematically analyze the assembled transcripts compared to putative homologs from the complete proteomes of six well-characterized metazoans: <italic>Nematostella vectensis, Hydra magnipapillata</italic>
, <italic>Caenorhabditis elegans, Drosophila melanogaster, Strongylocentrotus purpuratus</italic>
, <italic>Ciona intestinalis</italic>
and <italic>Homo sapiens</italic>
. Furthermore, comparative analyses of the <italic>Stylophora pistillata</italic>
ESTs were performed against several Cnidaria from the Scleractinia, Actiniaria and Hydrozoa, as well as against other stony corals separately. Functional characterization of <italic>S. pistillata</italic>
transcripts into KOG/COG categories and further description of Wnt and bone morphogenetic protein (BMP) signaling pathways showed that the assembled EST library provides sufficient data and coverage. These features of this new library suggest considerable opportunities for extending our understanding of the molecular and physiological behavior of “robust” corals.</p>
</div>
</front>
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</TEI>
<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">PLoS One</journal-id>
<journal-id journal-id-type="iso-abbrev">PLoS ONE</journal-id>
<journal-id journal-id-type="publisher-id">plos</journal-id>
<journal-id journal-id-type="pmc">plosone</journal-id>
<journal-title-group><journal-title>PLoS ONE</journal-title>
</journal-title-group>
<issn pub-type="epub">1932-6203</issn>
<publisher><publisher-name>Public Library of Science</publisher-name>
<publisher-loc>San Francisco, USA</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">24551124</article-id>
<article-id pub-id-type="pmc">3923803</article-id>
<article-id pub-id-type="publisher-id">PONE-D-12-18186</article-id>
<article-id pub-id-type="doi">10.1371/journal.pone.0088615</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject>
</subj-group>
<subj-group subj-group-type="Discipline-v2"><subject>Biology</subject>
<subj-group><subject>Computational biology</subject>
<subj-group><subject>Genomics</subject>
<subj-group><subject>Genome analysis tools</subject>
<subj-group><subject>Transcriptomes</subject>
</subj-group>
</subj-group>
<subj-group><subject>Comparative genomics</subject>
</subj-group>
</subj-group>
</subj-group>
<subj-group><subject>Evolutionary biology</subject>
<subj-group><subject>Comparative genomics</subject>
</subj-group>
</subj-group>
<subj-group><subject>Genomics</subject>
<subj-group><subject>Genome analysis tools</subject>
<subj-group><subject>Transcriptomes</subject>
</subj-group>
</subj-group>
</subj-group>
<subj-group><subject>Marine biology</subject>
<subj-group><subject>Corals</subject>
</subj-group>
</subj-group>
<subj-group><subject>Molecular cell biology</subject>
<subj-group><subject>Signal transduction</subject>
<subj-group><subject>Signaling cascades</subject>
<subj-group><subject>Wnt signaling cascade</subject>
</subj-group>
</subj-group>
</subj-group>
</subj-group>
</subj-group>
</article-categories>
<title-group><article-title>Transcriptome Analysis of the Scleractinian Coral <italic>Stylophora pistillata</italic>
</article-title>
<alt-title alt-title-type="running-head">Transcriptome of <italic>Stylophora pistillata</italic>
</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author" equal-contrib="yes"><name><surname>Karako-Lampert</surname>
<given-names>Sarit</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author" equal-contrib="yes"><name><surname>Zoccola</surname>
<given-names>Didier</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
<xref ref-type="corresp" rid="cor1"><sup>*</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Salmon-Divon</surname>
<given-names>Mali</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Katzenellenbogen</surname>
<given-names>Mark</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
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<given-names>Sylvie</given-names>
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<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
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<given-names>Anthony</given-names>
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<xref ref-type="aff" rid="aff2"><sup>2</sup>
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<xref ref-type="aff" rid="aff4"><sup>4</sup>
</xref>
<xref ref-type="aff" rid="aff5"><sup>5</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Hoegh-Guldberg</surname>
<given-names>Ove</given-names>
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<xref ref-type="aff" rid="aff6"><sup>6</sup>
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<given-names>Emeline</given-names>
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<xref ref-type="aff" rid="aff4"><sup>4</sup>
</xref>
<xref ref-type="aff" rid="aff7"><sup>7</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Allemand</surname>
<given-names>Denis</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
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<given-names>Oren</given-names>
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<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<xref ref-type="corresp" rid="cor1"><sup>*</sup>
</xref>
</contrib>
</contrib-group>
<aff id="aff1"><label>1</label>
<addr-line>The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, Israel</addr-line>
</aff>
<aff id="aff2"><label>2</label>
<addr-line>Centre Scientifique de Monaco, Monaco, Monaco</addr-line>
</aff>
<aff id="aff3"><label>3</label>
<addr-line>Department of Molecular Biology, Ariel University, Ariel, Israel</addr-line>
</aff>
<aff id="aff4"><label>4</label>
<addr-line>Université de Nice-Sophia-Antipolis, UFR Sciences, Nice, France</addr-line>
</aff>
<aff id="aff5"><label>5</label>
<addr-line>Australian Research Council Centre of Excellence for Coral Reef Studies, James Cook University, Townsville, Queensland, Australia</addr-line>
</aff>
<aff id="aff6"><label>6</label>
<addr-line>Global Change Institute, The University of Queensland, St Lucia, Queensland, Australia</addr-line>
</aff>
<aff id="aff7"><label>7</label>
<addr-line>Institut Sophia Agrobiotech INRA 1355, CNRS 7254, Sophia-Antipolis, France</addr-line>
</aff>
<contrib-group><contrib contrib-type="editor"><name><surname>Voolstra</surname>
<given-names>Christian R.</given-names>
</name>
<role>Editor</role>
<xref ref-type="aff" rid="edit1"></xref>
</contrib>
</contrib-group>
<aff id="edit1"><addr-line>King Abdullah University of Science and Technology, Saudi Arabia</addr-line>
</aff>
<author-notes><corresp id="cor1">* E-mail: <email>oren.levy@biu.ac.il</email>
(OL); <email>zoccola@centrescientifique.mc</email>
(DZ)</corresp>
<fn fn-type="conflict"><p><bold>Competing Interests: </bold>
The authors have declared that no competing interests exist.</p>
</fn>
<fn fn-type="con"><p>Conceived and designed the experiments: SKL DZ OL. Performed the experiments: SKL DZ AB OL. Analyzed the data: SKL DZ MK ED MDS. Contributed reagents/materials/analysis tools: OHG ST DA OL. Wrote the paper: SKL DZ AB MK ST AB OHG DA OL.</p>
</fn>
</author-notes>
<pub-date pub-type="collection"><year>2014</year>
</pub-date>
<pub-date pub-type="epub"><day>13</day>
<month>2</month>
<year>2014</year>
</pub-date>
<volume>9</volume>
<issue>2</issue>
<elocation-id>e88615</elocation-id>
<history><date date-type="received"><day>21</day>
<month>6</month>
<year>2012</year>
</date>
<date date-type="accepted"><day>11</day>
<month>1</month>
<year>2014</year>
</date>
</history>
<permissions><copyright-year>2014</copyright-year>
<license><license-p>This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.</license-p>
</license>
</permissions>
<abstract><p>The principal architects of coral reefs are the scleractinian corals; these species are divided in two major clades referred to as “robust” and “complex” corals. Although the molecular diversity of the “complex” clade has received considerable attention, with several expressed sequence tag (EST) libraries and a complete genome sequence having been constructed, the “robust” corals have received far less attention, despite the fact that robust corals have been prominent focal points for ecological and physiological studies. Filling this gap affords important opportunities to extend these studies and to improve our understanding of the differences between the two major clades. Here, we present an EST library from <italic>Stylophora pistillata</italic>
(Esper 1797) and systematically analyze the assembled transcripts compared to putative homologs from the complete proteomes of six well-characterized metazoans: <italic>Nematostella vectensis, Hydra magnipapillata</italic>
, <italic>Caenorhabditis elegans, Drosophila melanogaster, Strongylocentrotus purpuratus</italic>
, <italic>Ciona intestinalis</italic>
and <italic>Homo sapiens</italic>
. Furthermore, comparative analyses of the <italic>Stylophora pistillata</italic>
ESTs were performed against several Cnidaria from the Scleractinia, Actiniaria and Hydrozoa, as well as against other stony corals separately. Functional characterization of <italic>S. pistillata</italic>
transcripts into KOG/COG categories and further description of Wnt and bone morphogenetic protein (BMP) signaling pathways showed that the assembled EST library provides sufficient data and coverage. These features of this new library suggest considerable opportunities for extending our understanding of the molecular and physiological behavior of “robust” corals.</p>
</abstract>
<funding-group><funding-statement>This study was conducted as part of the Centre Scientifique de Monaco Research Program, supported by the Government of the Principality of Monaco. It was partially funded by an Israeli Science Foundation (No. 243/10) grant to OL. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.</funding-statement>
</funding-group>
<counts><page-count count="11"></page-count>
</counts>
</article-meta>
</front>
</pmc>
</record>
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