The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish
Identifieur interne : 000A43 ( Pmc/Curation ); précédent : 000A42; suivant : 000A44The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish
Auteurs : Frédéric G. Brunet [France] ; Fiona W. Fraser ; Marley J. Binder ; Adam D. Smith ; Christopher Kintakas ; Carolyn M. Dancevic ; Alister C. Ward ; Daniel R. MccullochSource :
- BMC Evolutionary Biology [ 1471-2148 ] ; 2015.
Abstract
The
Using bioinformatics complemented with
Our data highlight the evolution of the
The online version of this article (doi:10.1186/s12862-015-0281-9) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12862-015-0281-9
PubMed: 25879701
PubMed Central: 4349717
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Fiona W. Fraser<affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation>Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish</title><author><name sortKey="Brunet, Frederic G" sort="Brunet, Frederic G" uniqKey="Brunet F" first="Frédéric G" last="Brunet">Frédéric G. Brunet</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Institut de Génomique Fonctionnelle de Lyon, Université de Lyon, Université Lyon 1, CNRS, Ecole Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon cedex 07, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Génomique Fonctionnelle de Lyon, Université de Lyon, Université Lyon 1, CNRS, Ecole Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon cedex 07</wicri:regionArea></affiliation></author><author><name sortKey="Fraser, Fiona W" sort="Fraser, Fiona W" uniqKey="Fraser F" first="Fiona W" last="Fraser">Fiona W. Fraser</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Binder, Marley J" sort="Binder, Marley J" uniqKey="Binder M" first="Marley J" last="Binder">Marley J. Binder</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Smith, Adam D" sort="Smith, Adam D" uniqKey="Smith A" first="Adam D" last="Smith">Adam D. Smith</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Kintakas, Christopher" sort="Kintakas, Christopher" uniqKey="Kintakas C" first="Christopher" last="Kintakas">Christopher Kintakas</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Dancevic, Carolyn M" sort="Dancevic, Carolyn M" uniqKey="Dancevic C" first="Carolyn M" last="Dancevic">Carolyn M. Dancevic</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Ward, Alister C" sort="Ward, Alister C" uniqKey="Ward A" first="Alister C" last="Ward">Alister C. Ward</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Mcculloch, Daniel R" sort="Mcculloch, Daniel R" uniqKey="Mcculloch D" first="Daniel R" last="Mcculloch">Daniel R. Mcculloch</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25879701</idno><idno type="pmc">4349717</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4349717</idno><idno type="RBID">PMC:4349717</idno><idno type="doi">10.1186/s12862-015-0281-9</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000A66</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000A66</idno><idno type="wicri:Area/Pmc/Curation">000A43</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000A43</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish</title><author><name sortKey="Brunet, Frederic G" sort="Brunet, Frederic G" uniqKey="Brunet F" first="Frédéric G" last="Brunet">Frédéric G. Brunet</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Institut de Génomique Fonctionnelle de Lyon, Université de Lyon, Université Lyon 1, CNRS, Ecole Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon cedex 07, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Génomique Fonctionnelle de Lyon, Université de Lyon, Université Lyon 1, CNRS, Ecole Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon cedex 07</wicri:regionArea></affiliation></author><author><name sortKey="Fraser, Fiona W" sort="Fraser, Fiona W" uniqKey="Fraser F" first="Fiona W" last="Fraser">Fiona W. Fraser</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Binder, Marley J" sort="Binder, Marley J" uniqKey="Binder M" first="Marley J" last="Binder">Marley J. Binder</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Smith, Adam D" sort="Smith, Adam D" uniqKey="Smith A" first="Adam D" last="Smith">Adam D. Smith</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Kintakas, Christopher" sort="Kintakas, Christopher" uniqKey="Kintakas C" first="Christopher" last="Kintakas">Christopher Kintakas</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Dancevic, Carolyn M" sort="Dancevic, Carolyn M" uniqKey="Dancevic C" first="Carolyn M" last="Dancevic">Carolyn M. Dancevic</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Ward, Alister C" sort="Ward, Alister C" uniqKey="Ward A" first="Alister C" last="Ward">Alister C. Ward</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author><author><name sortKey="Mcculloch, Daniel R" sort="Mcculloch, Daniel R" uniqKey="Mcculloch D" first="Daniel R" last="Mcculloch">Daniel R. Mcculloch</name><affiliation><nlm:aff id="Aff2">School of Medicine, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff3">Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</nlm:aff><wicri:noCountry code="subfield">VIC 3216 Australia</wicri:noCountry></affiliation></author></analytic><series><title level="j">BMC Evolutionary Biology</title><idno type="eISSN">1471-2148</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>The <italic>A D</italic>isintegrin-like and <italic>M</italic>etalloproteinase domain with <italic>T</italic>hrombo<italic>s</italic>pondin-1 motifs (ADAMTS) enzymes comprise 19 mammalian zinc-dependent metalloproteinases (metzincins) with homologues in a wide range of invertebrates. ADAMTS enzymes have a broad range of functions in development and diseases due to their extracellular matrix remodelling activity. Here, we report a detailed characterisation of their evolutionary conservation across vertebrates.</p></sec><sec><title>Results</title><p>Using bioinformatics complemented with <italic>de novo</italic> sequencing, gene sequences for ADAMTS enzymes were obtained from a variety of organisms. Detailed evolutionary analyses revealed a high level of conservation across vertebrates with evidence of <italic>ADAMTS</italic> gene expansion during two rounds of whole genome duplication (WGD) in vertebrates, while tandem duplication events and gene loss were also apparent. However, the additional round of teleost-specific WGD did not have a significant effect on <italic>ADAMTS</italic> gene family members suggesting their conserved roles have remained constant in teleost fish. Quantitative reverse-transcriptase polymerase chain reaction analysis revealed dynamic expression of <italic>adamts</italic> genes throughout zebrafish embryonic development reflecting the key conserved roles they play in vertebrate embryogenesis. Notably, several <italic>adamts</italic> mRNAs were maternally expressed with a dramatic increase in mRNA levels coinciding with zygotic expression and organogenesis. Broad <italic>adamts</italic> mRNA expression was also demonstrated in several adult organs indicating potential roles in adult homeostasis.</p></sec><sec><title>Conclusions</title><p>Our data highlight the evolution of the <italic>ADAMTS</italic> gene family through duplication processes across metazoans supplemented by a burst of amplification through vertebrate WGD events. It also strongly posits the zebrafish as a potential model species to further elucidate the function of ADAMTS enzymes during vertebrate development.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12862-015-0281-9) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Bode, W" uniqKey="Bode W">W Bode</name></author><author><name sortKey="Grams, F" uniqKey="Grams F">F Grams</name></author><author><name sortKey="Reinemer, P" uniqKey="Reinemer P">P Reinemer</name></author><author><name sortKey="Gomis Ruth, Fx" uniqKey="Gomis Ruth F">FX Gomis-Ruth</name></author><author><name sortKey="Baumann, U" uniqKey="Baumann U">U Baumann</name></author><author><name sortKey="Mckay, Db" uniqKey="Mckay D">DB McKay</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Stone, Al" 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<front><journal-meta><journal-id journal-id-type="nlm-ta">BMC Evol Biol</journal-id><journal-id journal-id-type="iso-abbrev">BMC Evol. Biol</journal-id><journal-title-group><journal-title>BMC Evolutionary Biology</journal-title></journal-title-group><issn pub-type="epub">1471-2148</issn><publisher><publisher-name>BioMed Central</publisher-name><publisher-loc>London</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">25879701</article-id><article-id pub-id-type="pmc">4349717</article-id><article-id pub-id-type="publisher-id">281</article-id><article-id pub-id-type="doi">10.1186/s12862-015-0281-9</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject></subj-group></article-categories><title-group><article-title>The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish</article-title></title-group><contrib-group><contrib contrib-type="author" corresp="yes"><name><surname>Brunet</surname><given-names>Frédéric G</given-names></name><address><email>frederic.brunet@ens-lyon.fr</email></address><xref ref-type="aff" rid="Aff1"></xref></contrib><contrib contrib-type="author"><name><surname>Fraser</surname><given-names>Fiona W</given-names></name><address><email>fiona.fraser@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Binder</surname><given-names>Marley J</given-names></name><address><email>mjbin@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Smith</surname><given-names>Adam D</given-names></name><address><email>damnitsham@hotmail.com</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Kintakas</surname><given-names>Christopher</given-names></name><address><email>cki@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Dancevic</surname><given-names>Carolyn M</given-names></name><address><email>cmdan@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref></contrib><contrib contrib-type="author"><name><surname>Ward</surname><given-names>Alister C</given-names></name><address><email>alister.ward@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref><xref ref-type="aff" rid="Aff3"></xref></contrib><contrib contrib-type="author" corresp="yes"><name><surname>McCulloch</surname><given-names>Daniel R</given-names></name><address><email>daniel.mcculloch@deakin.edu.au</email></address><xref ref-type="aff" rid="Aff2"></xref><xref ref-type="aff" rid="Aff3"></xref></contrib><aff id="Aff1"><label></label>Institut de Génomique Fonctionnelle de Lyon, Université de Lyon, Université Lyon 1, CNRS, Ecole Normale Supérieure de Lyon, 46, allée d’Italie, 69364 Lyon cedex 07, France</aff><aff id="Aff2"><label></label>School of Medicine, Deakin University, Geelong, VIC 3216 Australia</aff><aff id="Aff3"><label></label>Molecular and Medical Research Strategic Research Centre, Deakin University, Geelong, VIC 3216 Australia</aff></contrib-group><pub-date pub-type="epub"><day>15</day><month>2</month><year>2015</year></pub-date><pub-date pub-type="pmc-release"><day>15</day><month>2</month><year>2015</year></pub-date><pub-date pub-type="collection"><year>2015</year></pub-date><volume>15</volume><elocation-id>22</elocation-id><history><date date-type="received"><day>14</day><month>7</month><year>2014</year></date><date date-type="accepted"><day>5</day><month>1</month><year>2015</year></date></history><permissions><copyright-statement>© Brunet et al.; licensee BioMed Central. 2015</copyright-statement><license license-type="open-access"><license-p>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>The <italic>A D</italic>isintegrin-like and <italic>M</italic>etalloproteinase domain with <italic>T</italic>hrombo<italic>s</italic>pondin-1 motifs (ADAMTS) enzymes comprise 19 mammalian zinc-dependent metalloproteinases (metzincins) with homologues in a wide range of invertebrates. ADAMTS enzymes have a broad range of functions in development and diseases due to their extracellular matrix remodelling activity. Here, we report a detailed characterisation of their evolutionary conservation across vertebrates.</p></sec><sec><title>Results</title><p>Using bioinformatics complemented with <italic>de novo</italic> sequencing, gene sequences for ADAMTS enzymes were obtained from a variety of organisms. Detailed evolutionary analyses revealed a high level of conservation across vertebrates with evidence of <italic>ADAMTS</italic> gene expansion during two rounds of whole genome duplication (WGD) in vertebrates, while tandem duplication events and gene loss were also apparent. However, the additional round of teleost-specific WGD did not have a significant effect on <italic>ADAMTS</italic> gene family members suggesting their conserved roles have remained constant in teleost fish. Quantitative reverse-transcriptase polymerase chain reaction analysis revealed dynamic expression of <italic>adamts</italic> genes throughout zebrafish embryonic development reflecting the key conserved roles they play in vertebrate embryogenesis. Notably, several <italic>adamts</italic> mRNAs were maternally expressed with a dramatic increase in mRNA levels coinciding with zygotic expression and organogenesis. Broad <italic>adamts</italic> mRNA expression was also demonstrated in several adult organs indicating potential roles in adult homeostasis.</p></sec><sec><title>Conclusions</title><p>Our data highlight the evolution of the <italic>ADAMTS</italic> gene family through duplication processes across metazoans supplemented by a burst of amplification through vertebrate WGD events. It also strongly posits the zebrafish as a potential model species to further elucidate the function of ADAMTS enzymes during vertebrate development.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12862-015-0281-9) contains supplementary material, which is available to authorized users.</p></sec></abstract><kwd-group xml:lang="en"><title>Keywords</title><kwd>ADAMTS</kwd><kwd>Evolution</kwd><kwd>Whole genome duplications</kwd><kwd>Vertebrata</kwd><kwd>Metazoa</kwd><kwd>Zebrafish</kwd><kwd>Development</kwd><kwd>Gene expression</kwd></kwd-group><custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name><meta-value>© The Author(s) 2015</meta-value></custom-meta></custom-meta-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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