Neuropeptides encoded by the genomes of the Akoya pearl oyster Pinctata fucata and Pacific oyster Crassostrea gigas: a bioinformatic and peptidomic survey
Identifieur interne : 001E66 ( Ncbi/Merge ); précédent : 001E65; suivant : 001E67Neuropeptides encoded by the genomes of the Akoya pearl oyster Pinctata fucata and Pacific oyster Crassostrea gigas: a bioinformatic and peptidomic survey
Auteurs : Michael J. Stewart ; Pascal Favrel [France] ; Bronwyn A. Rotgans ; Tianfang Wang ; Min Zhao ; Manzar Sohail ; Wayne A. O Onnor [Australie] ; Abigail Elizur ; Joel Henry [France] ; Scott F. CumminsSource :
- BMC Genomics [ 1471-2164 ] ; 2014.
Abstract
Oysters impart significant socio-ecological benefits from primary production of food supply, to estuarine ecosystems via reduction of water column nutrients, plankton and seston biomass. Little though is known at the molecular level of what genes are responsible for how oysters reproduce, filter nutrients, survive stressful physiological events and form reef communities. Neuropeptides represent a diverse class of chemical messengers, instrumental in orchestrating these complex physiological events in other species.
By a combination of
Our analysis demonstrates that oysters possess conserved molluscan neuropeptide domains and overall precursor organization whilst highlighting many previously unrecognized bivalve idiosyncrasies. This genomic analysis provides a solid foundation from which further studies aimed at the functional characterization of these molluscan neuropeptides can be conducted to further stimulate advances in understanding the ecology and cultivation of oysters.
The online version of this article (doi:10.1186/1471-2164-15-840) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/1471-2164-15-840
PubMed: 25277059
PubMed Central: 4200219
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PMC:4200219Le document en format XML
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a bioinformatic and peptidomic survey</title>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Neuropeptides encoded by the genomes of the Akoya pearl oyster <italic>Pinctata fucata</italic>
and Pacific oyster <italic>Crassostrea gigas:</italic>
a bioinformatic and peptidomic survey</title>
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<author><name sortKey="Wang, Tianfang" sort="Wang, Tianfang" uniqKey="Wang T" first="Tianfang" last="Wang">Tianfang Wang</name>
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<author><name sortKey="Cummins, Scott F" sort="Cummins, Scott F" uniqKey="Cummins S" first="Scott F" last="Cummins">Scott F. Cummins</name>
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<series><title level="j">BMC Genomics</title>
<idno type="eISSN">1471-2164</idno>
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<front><div type="abstract" xml:lang="en"><sec><title>Background</title>
<p>Oysters impart significant socio-ecological benefits from primary production of food supply, to estuarine ecosystems via reduction of water column nutrients, plankton and seston biomass. Little though is known at the molecular level of what genes are responsible for how oysters reproduce, filter nutrients, survive stressful physiological events and form reef communities. Neuropeptides represent a diverse class of chemical messengers, instrumental in orchestrating these complex physiological events in other species.</p>
</sec>
<sec><title>Results</title>
<p>By a combination of <italic>in silico</italic>
data mining and peptide analysis of ganglia, 74 putative neuropeptide genes were identified from genome and transcriptome databases of the Akoya pearl oyster, <italic>Pinctata fucata</italic>
and the Pacific oyster, <italic>Crassostrea gigas</italic>
, encoding precursors for over 300 predicted bioactive peptide products, including three newly identified neuropeptide precursors PFGx8amide, RxIamide and Wx3Yamide. Our findings also include a gene for the gonadotropin-releasing hormone (GnRH) and two egg-laying hormones (ELH) which were identified from both oysters. Multiple sequence alignments and phylogenetic analysis supports similar global organization of these mature peptides. Computer-based peptide modeling of the molecular tertiary structures of ELH highlights the structural homologies within ELH family, which may facilitate ELH activity leading to the release of gametes.</p>
</sec>
<sec><title>Conclusion</title>
<p>Our analysis demonstrates that oysters possess conserved molluscan neuropeptide domains and overall precursor organization whilst highlighting many previously unrecognized bivalve idiosyncrasies. This genomic analysis provides a solid foundation from which further studies aimed at the functional characterization of these molluscan neuropeptides can be conducted to further stimulate advances in understanding the ecology and cultivation of oysters.</p>
</sec>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1186/1471-2164-15-840) contains supplementary material, which is available to authorized users.</p>
</sec>
</div>
</front>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">BMC Genomics</journal-id>
<journal-id journal-id-type="iso-abbrev">BMC Genomics</journal-id>
<journal-title-group><journal-title>BMC Genomics</journal-title>
</journal-title-group>
<issn pub-type="epub">1471-2164</issn>
<publisher><publisher-name>BioMed Central</publisher-name>
<publisher-loc>London</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">25277059</article-id>
<article-id pub-id-type="pmc">4200219</article-id>
<article-id pub-id-type="publisher-id">6547</article-id>
<article-id pub-id-type="doi">10.1186/1471-2164-15-840</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>Neuropeptides encoded by the genomes of the Akoya pearl oyster <italic>Pinctata fucata</italic>
and Pacific oyster <italic>Crassostrea gigas:</italic>
a bioinformatic and peptidomic survey</article-title>
</title-group>
<contrib-group><contrib contrib-type="author" corresp="yes"><name><surname>Stewart</surname>
<given-names>Michael J</given-names>
</name>
<address><email>mstewar1@usc.edu.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author" corresp="yes"><name><surname>Favrel</surname>
<given-names>Pascal</given-names>
</name>
<address><email>pascal.favrel@unicaen.fr</email>
</address>
<xref ref-type="aff" rid="Aff2"></xref>
<xref ref-type="aff" rid="Aff3"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Rotgans</surname>
<given-names>Bronwyn A</given-names>
</name>
<address><email>bron.rotgans@gmail.com</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Wang</surname>
<given-names>Tianfang</given-names>
</name>
<address><email>twang@usc.edu.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Zhao</surname>
<given-names>Min</given-names>
</name>
<address><email>mzhao@usc.edu.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Sohail</surname>
<given-names>Manzar</given-names>
</name>
<address><email>manzar.sohail@gmail.com</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>O’Connor</surname>
<given-names>Wayne A</given-names>
</name>
<address><email>wayne.oconnor@dpi.nsw.gov.au</email>
</address>
<xref ref-type="aff" rid="Aff4"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Elizur</surname>
<given-names>Abigail</given-names>
</name>
<address><email>gaya.elizur@gmail.com</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Henry</surname>
<given-names>Joel</given-names>
</name>
<address><email>joel.henry@unicaen.fr</email>
</address>
<xref ref-type="aff" rid="Aff2"></xref>
</contrib>
<contrib contrib-type="author" corresp="yes"><name><surname>Cummins</surname>
<given-names>Scott F</given-names>
</name>
<address><email>scummins@usc.edu.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<aff id="Aff1"><label></label>
School of Science and Education, Genecology Research Center, University of the Sunshine Coast, Maroochydore DC, Queensland 4558 Australia</aff>
<aff id="Aff2"><label></label>
Université de Caen Basse-Normandie, Biologie des ORganismes et Ecosystèmes Aquatiques (BOREA), Caen, 14032 France</aff>
<aff id="Aff3"><label></label>
CNRS UMR 7208, BOREA, Caen, France</aff>
<aff id="Aff4"><label></label>
Port Stephens Fisheries Institute, Locked Bag 1, Nelson Bay, New South Wales, 2315 Australia</aff>
</contrib-group>
<pub-date pub-type="epub"><day>2</day>
<month>10</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>2</day>
<month>10</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="collection"><year>2014</year>
</pub-date>
<volume>15</volume>
<issue>1</issue>
<elocation-id>840</elocation-id>
<history><date date-type="received"><day>19</day>
<month>5</month>
<year>2014</year>
</date>
<date date-type="accepted"><day>3</day>
<month>9</month>
<year>2014</year>
</date>
</history>
<permissions><copyright-statement>© Stewart et al.; licensee BioMed Central Ltd. 2014</copyright-statement>
<license license-type="open-access"><license-p>This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/4.0">http://creativecommons.org/licenses/by/4.0</ext-link>
), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/publicdomain/zero/1.0/">http://creativecommons.org/publicdomain/zero/1.0/</ext-link>
) applies to the data made available in this article, unless otherwise stated.</license-p>
</license>
</permissions>
<abstract id="Abs1"><sec><title>Background</title>
<p>Oysters impart significant socio-ecological benefits from primary production of food supply, to estuarine ecosystems via reduction of water column nutrients, plankton and seston biomass. Little though is known at the molecular level of what genes are responsible for how oysters reproduce, filter nutrients, survive stressful physiological events and form reef communities. Neuropeptides represent a diverse class of chemical messengers, instrumental in orchestrating these complex physiological events in other species.</p>
</sec>
<sec><title>Results</title>
<p>By a combination of <italic>in silico</italic>
data mining and peptide analysis of ganglia, 74 putative neuropeptide genes were identified from genome and transcriptome databases of the Akoya pearl oyster, <italic>Pinctata fucata</italic>
and the Pacific oyster, <italic>Crassostrea gigas</italic>
, encoding precursors for over 300 predicted bioactive peptide products, including three newly identified neuropeptide precursors PFGx8amide, RxIamide and Wx3Yamide. Our findings also include a gene for the gonadotropin-releasing hormone (GnRH) and two egg-laying hormones (ELH) which were identified from both oysters. Multiple sequence alignments and phylogenetic analysis supports similar global organization of these mature peptides. Computer-based peptide modeling of the molecular tertiary structures of ELH highlights the structural homologies within ELH family, which may facilitate ELH activity leading to the release of gametes.</p>
</sec>
<sec><title>Conclusion</title>
<p>Our analysis demonstrates that oysters possess conserved molluscan neuropeptide domains and overall precursor organization whilst highlighting many previously unrecognized bivalve idiosyncrasies. This genomic analysis provides a solid foundation from which further studies aimed at the functional characterization of these molluscan neuropeptides can be conducted to further stimulate advances in understanding the ecology and cultivation of oysters.</p>
</sec>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1186/1471-2164-15-840) contains supplementary material, which is available to authorized users.</p>
</sec>
</abstract>
<kwd-group xml:lang="en"><title>Keywords</title>
<kwd><italic>Pinctada fucata</italic>
</kwd>
<kwd><italic>Crassostrea gigas</italic>
</kwd>
<kwd>Molluscs</kwd>
<kwd>Circular dichroism</kwd>
<kwd>Egg-laying hormone</kwd>
<kwd>Feed circuit activating peptide</kwd>
<kwd>Gonadotropin-releasing hormone</kwd>
<kwd>High-performance liquid chromatography</kwd>
<kwd>Mass spectrometry</kwd>
<kwd>Neuropeptides</kwd>
</kwd-group>
<custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name>
<meta-value>© The Author(s) 2014</meta-value>
</custom-meta>
</custom-meta-group>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>Australie</li>
<li>France</li>
</country>
<region><li>Basse-Normandie</li>
<li>Région Normandie</li>
</region>
<settlement><li>Caen</li>
</settlement>
<orgName><li>Université de Caen Basse-Normandie</li>
</orgName>
</list>
<tree><noCountry><name sortKey="Cummins, Scott F" sort="Cummins, Scott F" uniqKey="Cummins S" first="Scott F" last="Cummins">Scott F. Cummins</name>
<name sortKey="Elizur, Abigail" sort="Elizur, Abigail" uniqKey="Elizur A" first="Abigail" last="Elizur">Abigail Elizur</name>
<name sortKey="Rotgans, Bronwyn A" sort="Rotgans, Bronwyn A" uniqKey="Rotgans B" first="Bronwyn A" last="Rotgans">Bronwyn A. Rotgans</name>
<name sortKey="Sohail, Manzar" sort="Sohail, Manzar" uniqKey="Sohail M" first="Manzar" last="Sohail">Manzar Sohail</name>
<name sortKey="Stewart, Michael J" sort="Stewart, Michael J" uniqKey="Stewart M" first="Michael J" last="Stewart">Michael J. Stewart</name>
<name sortKey="Wang, Tianfang" sort="Wang, Tianfang" uniqKey="Wang T" first="Tianfang" last="Wang">Tianfang Wang</name>
<name sortKey="Zhao, Min" sort="Zhao, Min" uniqKey="Zhao M" first="Min" last="Zhao">Min Zhao</name>
</noCountry>
<country name="France"><region name="Région Normandie"><name sortKey="Favrel, Pascal" sort="Favrel, Pascal" uniqKey="Favrel P" first="Pascal" last="Favrel">Pascal Favrel</name>
</region>
<name sortKey="Favrel, Pascal" sort="Favrel, Pascal" uniqKey="Favrel P" first="Pascal" last="Favrel">Pascal Favrel</name>
<name sortKey="Henry, Joel" sort="Henry, Joel" uniqKey="Henry J" first="Joel" last="Henry">Joel Henry</name>
</country>
<country name="Australie"><noRegion><name sortKey="O Onnor, Wayne A" sort="O Onnor, Wayne A" uniqKey="O Onnor W" first="Wayne A" last="O Onnor">Wayne A. O Onnor</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>
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