Shotgun Redox Proteomics: Identification and Quantitation of Carbonylated Proteins in the UVB-Resistant Marine Bacterium, Photobacterium angustum S14
Identifieur interne : 001881 ( Pmc/Checkpoint ); précédent : 001880; suivant : 001882Shotgun Redox Proteomics: Identification and Quantitation of Carbonylated Proteins in the UVB-Resistant Marine Bacterium, Photobacterium angustum S14
Auteurs : Sabine Matallana-Surget [France] ; Ricardo Cavicchioli [Australie] ; Charles Fauconnier [France] ; Ruddy Wattiez [Belgique] ; Baptiste Leroy [Belgique] ; Fabien Joux [France] ; Mark J. Raftery [Australie] ; Philippe Lebaron [France]Source :
- PLoS ONE [ 1932-6203 ] ; 2013.
Abstract
UVB oxidizes proteins through the generation of reactive oxygen species. One consequence of UVB irradiation is carbonylation, the irreversible formation of a carbonyl group on proline, lysine, arginine or threonine residues. In this study, redox proteomics was performed to identify carbonylated proteins in the UVB resistant marine bacterium
Url:
DOI: 10.1371/journal.pone.0068112
PubMed: 23874515
PubMed Central: 3706606
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Biomolecular Sciences, The University of New South Wales, Sydney, Australia</addr-line></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Biotechnology and Biomolecular Sciences, The University of New South Wales, Sydney</wicri:regionArea><placeName><settlement type="city">Sydney</settlement><region type="état">Nouvelle-Galles du Sud</region></placeName></affiliation></author><author><name sortKey="Fauconnier, Charles" sort="Fauconnier, Charles" uniqKey="Fauconnier C" first="Charles" last="Fauconnier">Charles Fauconnier</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, 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xml:lang="fr">Belgique</country><wicri:regionArea>Department of Proteomics and Microbiology, Research Institute for Biosciences Interdisciplinary Mass Spectrometry Center (CISMa), University of Mons, Mons</wicri:regionArea><wicri:noRegion>Mons</wicri:noRegion></affiliation></author><author><name sortKey="Leroy, Baptiste" sort="Leroy, Baptiste" uniqKey="Leroy B" first="Baptiste" last="Leroy">Baptiste Leroy</name><affiliation wicri:level="1"><nlm:aff id="aff4"><addr-line>Department of Proteomics and Microbiology, Research Institute for Biosciences Interdisciplinary Mass Spectrometry Center (CISMa), University of Mons, Mons, Belgium</addr-line></nlm:aff><country xml:lang="fr">Belgique</country><wicri:regionArea>Department of Proteomics and Microbiology, Research Institute for Biosciences Interdisciplinary Mass Spectrometry Center (CISMa), University of Mons, Mons</wicri:regionArea><wicri:noRegion>Mons</wicri:noRegion></affiliation></author><author><name sortKey="Joux, Fabien" sort="Joux, Fabien" uniqKey="Joux F" first="Fabien" last="Joux">Fabien Joux</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer</wicri:regionArea><wicri:noRegion>Banyuls/mer</wicri:noRegion><wicri:noRegion>Banyuls/mer</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>CNRS, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>CNRS, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, 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Raftery</name><affiliation wicri:level="3"><nlm:aff id="aff5"><addr-line>Bioanalytical Mass Spectrometry Facility, The University of New South Wales, Sydney, Australia</addr-line></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>Bioanalytical Mass Spectrometry Facility, The University of New South Wales, Sydney</wicri:regionArea><placeName><settlement type="city">Sydney</settlement><region type="état">Nouvelle-Galles du Sud</region></placeName></affiliation></author><author><name sortKey="Lebaron, Philippe" sort="Lebaron, Philippe" uniqKey="Lebaron P" first="Philippe" last="Lebaron">Philippe Lebaron</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer</wicri:regionArea><wicri:noRegion>Banyuls/mer</wicri:noRegion><wicri:noRegion>Banyuls/mer</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>CNRS, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>CNRS, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer</wicri:regionArea><wicri:noRegion>Banyuls/mer</wicri:noRegion><wicri:noRegion>Banyuls/mer</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>UVB oxidizes proteins through the generation of reactive oxygen species. One consequence of UVB irradiation is carbonylation, the irreversible formation of a carbonyl group on proline, lysine, arginine or threonine residues. In this study, redox proteomics was performed to identify carbonylated proteins in the UVB resistant marine bacterium <italic>Photobacterium angustum</italic>. Mass-spectrometry was performed with either biotin-labeled or dinitrophenylhydrazide (DNPH) derivatized proteins. The DNPH redox proteomics method enabled the identification of 62 carbonylated proteins (5% of 1221 identified proteins) in cells exposed to UVB or darkness. Eleven carbonylated proteins were quantified and the UVB/dark abundance ratio was determined at both the protein and peptide levels. As a result we determined which functional classes of proteins were carbonylated, which residues were preferentially modified, and what the implications of the carbonylation were for protein function. As the first large scale, shotgun redox proteomics analysis examining carbonylation to be performed on bacteria, our study provides a new level of understanding about the effects of UVB on cellular proteins, and provides a methodology for advancing studies in other biological systems.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Farman, Jc" uniqKey="Farman J">JC Farman</name></author><author><name sortKey="Gardiner, Bg" uniqKey="Gardiner B">BG Gardiner</name></author><author><name sortKey="Shanklin, Jd" uniqKey="Shanklin J">JD Shanklin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ravanat, Jl" uniqKey="Ravanat J">JL Ravanat</name></author><author><name sortKey="Douki, T" uniqKey="Douki T">T Douki</name></author><author><name sortKey="Cadet, J" uniqKey="Cadet J">J Cadet</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bertlett, Bs" uniqKey="Bertlett B">BS 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<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">23874515</article-id><article-id pub-id-type="pmc">3706606</article-id><article-id pub-id-type="publisher-id">PONE-D-13-15647</article-id><article-id pub-id-type="doi">10.1371/journal.pone.0068112</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>Microbiology</subject><subj-group><subject>Bacteriology</subject><subj-group><subject>Bacterial Biochemistry</subject></subj-group></subj-group><subj-group><subject>Microbial Ecology</subject></subj-group></subj-group><subj-group><subject>Molecular Cell Biology</subject><subj-group><subject>Cellular Stress Responses</subject></subj-group></subj-group><subj-group><subject>Proteomics</subject><subj-group><subject>Protein Abundance</subject><subject>Spectrometric Identification of Proteins</subject></subj-group></subj-group><subj-group><subject>Radiobiology</subject></subj-group></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Chemistry</subject><subj-group><subject>Chromatography</subject><subj-group><subject>Liquid Chromatography</subject></subj-group></subj-group></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Physics</subject><subj-group><subject>Electromagnetic Radiation</subject><subj-group><subject>Ultraviolet Radiation</subject><subj-group><subject>Ultraviolet B</subject></subj-group></subj-group></subj-group></subj-group></article-categories><title-group><article-title>Shotgun Redox Proteomics: Identification and Quantitation of Carbonylated Proteins in the UVB-Resistant Marine Bacterium, <italic>Photobacterium angustum</italic> S14</article-title><alt-title alt-title-type="running-head">Shotgun Redox Proteomics for Carbonyls Detection</alt-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Matallana-Surget</surname><given-names>Sabine</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><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>Cavicchioli</surname><given-names>Ricardo</given-names></name><xref ref-type="aff" rid="aff3"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Fauconnier</surname><given-names>Charles</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="aff" rid="aff2"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>Wattiez</surname><given-names>Ruddy</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref></contrib><contrib contrib-type="author"><name><surname>Leroy</surname><given-names>Baptiste</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref></contrib><contrib contrib-type="author"><name><surname>Joux</surname><given-names>Fabien</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="aff" rid="aff2"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>Raftery</surname><given-names>Mark J.</given-names></name><xref ref-type="aff" rid="aff5"><sup>5</sup></xref></contrib><contrib contrib-type="author"><name><surname>Lebaron</surname><given-names>Philippe</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="aff" rid="aff2"><sup>2</sup></xref></contrib></contrib-group><aff id="aff1"><label>1</label><addr-line>UPMC Univ Paris 06, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></aff><aff id="aff2"><label>2</label><addr-line>CNRS, UMR7621, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique, Banyuls/mer, France</addr-line></aff><aff id="aff3"><label>3</label><addr-line>School of Biotechnology and Biomolecular Sciences, The University of New South Wales, Sydney, Australia</addr-line></aff><aff id="aff4"><label>4</label><addr-line>Department of Proteomics and Microbiology, Research Institute for Biosciences Interdisciplinary Mass Spectrometry Center (CISMa), University of Mons, Mons, Belgium</addr-line></aff><aff id="aff5"><label>5</label><addr-line>Bioanalytical Mass Spectrometry Facility, The University of New South Wales, Sydney, Australia</addr-line></aff><contrib-group><contrib contrib-type="editor"><name><surname>Gasset</surname><given-names>Maria</given-names></name><role>Editor</role><xref ref-type="aff" rid="edit1"></xref></contrib></contrib-group><aff id="edit1"><addr-line>Consejo Superior de Investigaciones Cientificas, Spain</addr-line></aff><author-notes><corresp id="cor1">* E-mail: <email>sabine.matallana@obs-banyus.fr</email></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: SMS. Performed the experiments: SMS CF. Analyzed the data: SMS CF RW BL. Contributed reagents/materials/analysis tools: SMS RC RW MR PL. Wrote the paper: SMS RC. General idea of the paper: SMS FJ. Critically revising the paper for intellectual content: SMS RC RW BL FJ MR PL.</p></fn></author-notes><pub-date pub-type="collection"><year>2013</year></pub-date><pub-date pub-type="epub"><day>9</day><month>7</month><year>2013</year></pub-date><volume>8</volume><issue>7</issue><elocation-id>e68112</elocation-id><history><date date-type="received"><day>16</day><month>4</month><year>2013</year></date><date date-type="accepted"><day>25</day><month>5</month><year>2013</year></date></history><permissions><copyright-year>2013</copyright-year><copyright-holder>Matallana-Surget et al</copyright-holder><license><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.</license-p></license></permissions><abstract><p>UVB oxidizes proteins through the generation of reactive oxygen species. One consequence of UVB irradiation is carbonylation, the irreversible formation of a carbonyl group on proline, lysine, arginine or threonine residues. In this study, redox proteomics was performed to identify carbonylated proteins in the UVB resistant marine bacterium <italic>Photobacterium angustum</italic>. Mass-spectrometry was performed with either biotin-labeled or dinitrophenylhydrazide (DNPH) derivatized proteins. The DNPH redox proteomics method enabled the identification of 62 carbonylated proteins (5% of 1221 identified proteins) in cells exposed to UVB or darkness. Eleven carbonylated proteins were quantified and the UVB/dark abundance ratio was determined at both the protein and peptide levels. As a result we determined which functional classes of proteins were carbonylated, which residues were preferentially modified, and what the implications of the carbonylation were for protein function. As the first large scale, shotgun redox proteomics analysis examining carbonylation to be performed on bacteria, our study provides a new level of understanding about the effects of UVB on cellular proteins, and provides a methodology for advancing studies in other biological systems.</p></abstract><funding-group><funding-statement>This work was supported by the European community project MAMBA (FP7-KBBE-2008-226977). Research in RC and MJRs laboratories was supported by the Australian Research Council. 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="15"></page-count></counts></article-meta></front></pmc><affiliations><list><country><li>Australie</li><li>Belgique</li><li>France</li></country><region><li>Nouvelle-Galles du Sud</li></region><settlement><li>Sydney</li></settlement></list><tree><country name="France"><noRegion><name sortKey="Matallana Surget, Sabine" sort="Matallana Surget, Sabine" uniqKey="Matallana Surget S" first="Sabine" last="Matallana-Surget">Sabine Matallana-Surget</name></noRegion><name sortKey="Fauconnier, Charles" sort="Fauconnier, Charles" uniqKey="Fauconnier C" first="Charles" last="Fauconnier">Charles Fauconnier</name><name sortKey="Fauconnier, Charles" sort="Fauconnier, Charles" uniqKey="Fauconnier C" first="Charles" last="Fauconnier">Charles Fauconnier</name><name sortKey="Joux, Fabien" sort="Joux, Fabien" uniqKey="Joux F" first="Fabien" last="Joux">Fabien Joux</name><name sortKey="Joux, Fabien" sort="Joux, Fabien" uniqKey="Joux F" first="Fabien" last="Joux">Fabien Joux</name><name sortKey="Lebaron, Philippe" sort="Lebaron, Philippe" uniqKey="Lebaron P" first="Philippe" last="Lebaron">Philippe Lebaron</name><name sortKey="Lebaron, Philippe" sort="Lebaron, Philippe" uniqKey="Lebaron P" first="Philippe" last="Lebaron">Philippe Lebaron</name><name sortKey="Matallana Surget, Sabine" sort="Matallana Surget, Sabine" uniqKey="Matallana Surget S" first="Sabine" last="Matallana-Surget">Sabine Matallana-Surget</name></country><country name="Australie"><region name="Nouvelle-Galles du Sud"><name sortKey="Cavicchioli, Ricardo" sort="Cavicchioli, Ricardo" uniqKey="Cavicchioli R" first="Ricardo" last="Cavicchioli">Ricardo Cavicchioli</name></region><name sortKey="Raftery, Mark J" sort="Raftery, Mark J" uniqKey="Raftery M" first="Mark J." last="Raftery">Mark J. Raftery</name></country><country name="Belgique"><noRegion><name sortKey="Wattiez, Ruddy" sort="Wattiez, Ruddy" uniqKey="Wattiez R" first="Ruddy" last="Wattiez">Ruddy Wattiez</name></noRegion><name sortKey="Leroy, Baptiste" sort="Leroy, Baptiste" uniqKey="Leroy B" first="Baptiste" last="Leroy">Baptiste Leroy</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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