New Coffee Plant-Infecting Xylella fastidiosa Variants Derived via Homologous Recombination
Identifieur interne : 001E37 ( Ncbi/Merge ); précédent : 001E36; suivant : 001E38New Coffee Plant-Infecting Xylella fastidiosa Variants Derived via Homologous Recombination
Auteurs : Marie-Agnès Jacques [France] ; Nicolas Denancé [France] ; Bruno Legendre [France] ; Emmanuelle Morel [France] ; Martial Briand [France] ; Stelly Mississipi [France] ; Karine Durand [France] ; Valérie Olivier [France] ; Perrine Portier [France] ; Françoise Poliakoff [France] ; Dominique Crouzillat [France]Source :
- Applied and Environmental Microbiology [ 0099-2240 ] ; 2016.
Abstract
Url:
DOI: 10.1128/AEM.03299-15
PubMed: 26712553
PubMed Central: 4771316
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">New Coffee Plant-Infecting <named-content content-type="genus-species">Xylella fastidiosa</named-content>
Variants Derived via Homologous Recombination</title>
<author><name sortKey="Jacques, Marie Agnes" sort="Jacques, Marie Agnes" uniqKey="Jacques M" first="Marie-Agnès" last="Jacques">Marie-Agnès Jacques</name>
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<author><name sortKey="Morel, Emmanuelle" sort="Morel, Emmanuelle" uniqKey="Morel E" first="Emmanuelle" last="Morel">Emmanuelle Morel</name>
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<author><name sortKey="Briand, Martial" sort="Briand, Martial" uniqKey="Briand M" first="Martial" last="Briand">Martial Briand</name>
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<author><name sortKey="Mississipi, Stelly" sort="Mississipi, Stelly" uniqKey="Mississipi S" first="Stelly" last="Mississipi">Stelly Mississipi</name>
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<author><name sortKey="Durand, Karine" sort="Durand, Karine" uniqKey="Durand K" first="Karine" last="Durand">Karine Durand</name>
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<author><name sortKey="Olivier, Valerie" sort="Olivier, Valerie" uniqKey="Olivier V" first="Valérie" last="Olivier">Valérie Olivier</name>
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<author><name sortKey="Portier, Perrine" sort="Portier, Perrine" uniqKey="Portier P" first="Perrine" last="Portier">Perrine Portier</name>
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<author><name sortKey="Poliakoff, Francoise" sort="Poliakoff, Francoise" uniqKey="Poliakoff F" first="Françoise" last="Poliakoff">Françoise Poliakoff</name>
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<author><name sortKey="Crouzillat, Dominique" sort="Crouzillat, Dominique" uniqKey="Crouzillat D" first="Dominique" last="Crouzillat">Dominique Crouzillat</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">New Coffee Plant-Infecting <named-content content-type="genus-species">Xylella fastidiosa</named-content>
Variants Derived via Homologous Recombination</title>
<author><name sortKey="Jacques, Marie Agnes" sort="Jacques, Marie Agnes" uniqKey="Jacques M" first="Marie-Agnès" last="Jacques">Marie-Agnès Jacques</name>
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<author><name sortKey="Denance, Nicolas" sort="Denance, Nicolas" uniqKey="Denance N" first="Nicolas" last="Denancé">Nicolas Denancé</name>
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<author><name sortKey="Briand, Martial" sort="Briand, Martial" uniqKey="Briand M" first="Martial" last="Briand">Martial Briand</name>
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<author><name sortKey="Mississipi, Stelly" sort="Mississipi, Stelly" uniqKey="Mississipi S" first="Stelly" last="Mississipi">Stelly Mississipi</name>
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<author><name sortKey="Durand, Karine" sort="Durand, Karine" uniqKey="Durand K" first="Karine" last="Durand">Karine Durand</name>
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<wicri:noRegion>Beaucouzé</wicri:noRegion>
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<author><name sortKey="Olivier, Valerie" sort="Olivier, Valerie" uniqKey="Olivier V" first="Valérie" last="Olivier">Valérie Olivier</name>
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<author><name sortKey="Portier, Perrine" sort="Portier, Perrine" uniqKey="Portier P" first="Perrine" last="Portier">Perrine Portier</name>
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<author><name sortKey="Poliakoff, Francoise" sort="Poliakoff, Francoise" uniqKey="Poliakoff F" first="Françoise" last="Poliakoff">Françoise Poliakoff</name>
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<country xml:lang="fr">France</country>
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<placeName><settlement type="city">Angers</settlement>
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<author><name sortKey="Crouzillat, Dominique" sort="Crouzillat, Dominique" uniqKey="Crouzillat D" first="Dominique" last="Crouzillat">Dominique Crouzillat</name>
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<country xml:lang="fr">France</country>
<wicri:regionArea>Nestlé R&D Tours, Tours</wicri:regionArea>
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<series><title level="j">Applied and Environmental Microbiology</title>
<idno type="ISSN">0099-2240</idno>
<idno type="eISSN">1098-5336</idno>
<imprint><date when="2016">2016</date>
</imprint>
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<front><div type="abstract" xml:lang="en"><p><named-content content-type="genus-species">Xylella fastidiosa</named-content>
is a xylem-limited phytopathogenic bacterium endemic to the Americas that has recently emerged in Asia and Europe. Although this bacterium is classified as a quarantine organism in the European Union, importation of plant material from contaminated areas and latent infection in asymptomatic plants have engendered its inevitable introduction. In 2012, four coffee plants (<named-content content-type="genus-species">Coffea arabica</named-content>
and <named-content content-type="genus-species">Coffea canephora</named-content>
) with leaf scorch symptoms growing in a confined greenhouse were detected and intercepted in France. After identification of the causal agent, this outbreak was eradicated. Three <named-content content-type="genus-species">X. fastidiosa</named-content>
strains were isolated from these plants, confirming a preliminary identification based on immunology. The strains were characterized by multiplex PCR and by multilocus sequence analysis/typing (MLSA-MLST) based on seven housekeeping genes. One strain, CFBP 8073, isolated from <named-content content-type="genus-species">C. canephora</named-content>
imported from Mexico, was assigned to <named-content content-type="genus-species">X. fastidiosa</named-content>
subsp. <italic>fastidiosa/X. fastidiosa</italic>
subsp. <named-content content-type="genus-species">sandyi</named-content>
. This strain harbors a novel sequence type (ST) with novel alleles at two loci. The two other strains, CFBP 8072 and CFBP 8074, isolated from <named-content content-type="genus-species">Coffea arabica</named-content>
imported from Ecuador, were allocated to <named-content content-type="genus-species">X. fastidiosa</named-content>
subsp. <italic>pauca</italic>
. These two strains shared a novel ST with novel alleles at two loci. These MLST profiles showed evidence of recombination events. We provide genome sequences for CFBP 8072 and CFBP 8073 strains. Comparative genomic analyses of these two genome sequences with publicly available <named-content content-type="genus-species">X. fastidiosa</named-content>
genomes, including the Italian strain CoDiRO, confirmed these phylogenetic positions and provided candidate alleles for coffee plant adaptation. This study demonstrates the global diversity of <named-content content-type="genus-species">X. fastidiosa</named-content>
and highlights the diversity of strains isolated from coffee plants.</p>
</div>
</front>
</TEI>
<pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Appl Environ Microbiol</journal-id>
<journal-id journal-id-type="iso-abbrev">Appl. Environ. Microbiol</journal-id>
<journal-id journal-id-type="hwp">aem</journal-id>
<journal-id journal-id-type="pmc">aem</journal-id>
<journal-id journal-id-type="publisher-id">AEM</journal-id>
<journal-title-group><journal-title>Applied and Environmental Microbiology</journal-title>
</journal-title-group>
<issn pub-type="ppub">0099-2240</issn>
<issn pub-type="epub">1098-5336</issn>
<publisher><publisher-name>American Society for Microbiology</publisher-name>
<publisher-loc>1752 N St., N.W., Washington, DC</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">26712553</article-id>
<article-id pub-id-type="pmc">4771316</article-id>
<article-id pub-id-type="publisher-id">03299-15</article-id>
<article-id pub-id-type="doi">10.1128/AEM.03299-15</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Plant Microbiology</subject>
</subj-group>
<subj-group subj-group-type="editorial-class"><subject>Spotlight</subject>
</subj-group>
</article-categories>
<title-group><article-title>New Coffee Plant-Infecting <named-content content-type="genus-species">Xylella fastidiosa</named-content>
Variants Derived via Homologous Recombination</article-title>
<alt-title alt-title-type="running-head">Diversity and Variants of <named-content content-type="genus-species">X. fastidiosa</named-content>
in Coffee Plants</alt-title>
<alt-title alt-title-type="short-authors">Jacques et al.</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author" corresp="yes"><name><surname>Jacques</surname>
<given-names>Marie-Agnès</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Denancé</surname>
<given-names>Nicolas</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Legendre</surname>
<given-names>Bruno</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Morel</surname>
<given-names>Emmanuelle</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>c</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Briand</surname>
<given-names>Martial</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mississipi</surname>
<given-names>Stelly</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
<xref ref-type="aff" rid="aff3"><sup>c</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Durand</surname>
<given-names>Karine</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Olivier</surname>
<given-names>Valérie</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Portier</surname>
<given-names>Perrine</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>a</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Poliakoff</surname>
<given-names>Françoise</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>b</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Crouzillat</surname>
<given-names>Dominique</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>c</sup>
</xref>
</contrib>
<aff id="aff1"><label>a</label>
INRA, UMR1345 Institut de Recherche en Horticulture et Semences, SFR4207 QUASAV, Beaucouzé, France</aff>
<aff id="aff2"><label>b</label>
Anses Laboratoire de la Santé des Végétaux, Angers, France</aff>
<aff id="aff3"><label>c</label>
Nestlé R&D Tours, Tours, France</aff>
</contrib-group>
<contrib-group><contrib contrib-type="editor"><name><surname>Drake</surname>
<given-names>H. L.</given-names>
</name>
<role>Editor</role>
</contrib>
<aff>University of Bayreuth</aff>
</contrib-group>
<author-notes><corresp id="cor1">Address correspondence to Marie-Agnès Jacques, <email>marie-agnes.jacques@angers.inra.fr</email>
.</corresp>
<fn fn-type="equal"><p>N.D. and B.L. contributed equally to this article.</p>
</fn>
<fn fn-type="other"><p><bold>Citation</bold>
Jacques M-A, Denancé N, Legendre B, Morel E, Briand M, Mississipi S, Durand K, Olivier V, Portier P, Poliakoff F, Crouzillat D. 2016. New coffee plant-infecting <named-content content-type="genus-species">Xylella fastidiosa</named-content>
variants derived via homologous recombination. Appl Environ Microbiol 82:1556–1568. doi:<ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1128/AEM.03299-15">10.1128/AEM.03299-15</ext-link>
.</p>
</fn>
</author-notes>
<pub-date pub-type="epreprint"><day>28</day>
<month>12</month>
<year>2015</year>
</pub-date>
<pub-date pub-type="epub"><day>19</day>
<month>2</month>
<year>2016</year>
</pub-date>
<pub-date pub-type="collection"><day>1</day>
<month>3</month>
<year>2016</year>
</pub-date>
<volume>82</volume>
<issue>5</issue>
<fpage>1556</fpage>
<lpage>1568</lpage>
<history><date date-type="received"><day>8</day>
<month>10</month>
<year>2015</year>
</date>
<date date-type="accepted"><day>19</day>
<month>12</month>
<year>2015</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2016, American Society for Microbiology. All Rights Reserved.</copyright-statement>
<copyright-year>2016</copyright-year>
<copyright-holder>American Society for Microbiology</copyright-holder>
</permissions>
<self-uri content-type="pdf" xlink:href="zam00516001556.pdf"></self-uri>
<abstract><p><named-content content-type="genus-species">Xylella fastidiosa</named-content>
is a xylem-limited phytopathogenic bacterium endemic to the Americas that has recently emerged in Asia and Europe. Although this bacterium is classified as a quarantine organism in the European Union, importation of plant material from contaminated areas and latent infection in asymptomatic plants have engendered its inevitable introduction. In 2012, four coffee plants (<named-content content-type="genus-species">Coffea arabica</named-content>
and <named-content content-type="genus-species">Coffea canephora</named-content>
) with leaf scorch symptoms growing in a confined greenhouse were detected and intercepted in France. After identification of the causal agent, this outbreak was eradicated. Three <named-content content-type="genus-species">X. fastidiosa</named-content>
strains were isolated from these plants, confirming a preliminary identification based on immunology. The strains were characterized by multiplex PCR and by multilocus sequence analysis/typing (MLSA-MLST) based on seven housekeeping genes. One strain, CFBP 8073, isolated from <named-content content-type="genus-species">C. canephora</named-content>
imported from Mexico, was assigned to <named-content content-type="genus-species">X. fastidiosa</named-content>
subsp. <italic>fastidiosa/X. fastidiosa</italic>
subsp. <named-content content-type="genus-species">sandyi</named-content>
. This strain harbors a novel sequence type (ST) with novel alleles at two loci. The two other strains, CFBP 8072 and CFBP 8074, isolated from <named-content content-type="genus-species">Coffea arabica</named-content>
imported from Ecuador, were allocated to <named-content content-type="genus-species">X. fastidiosa</named-content>
subsp. <italic>pauca</italic>
. These two strains shared a novel ST with novel alleles at two loci. These MLST profiles showed evidence of recombination events. We provide genome sequences for CFBP 8072 and CFBP 8073 strains. Comparative genomic analyses of these two genome sequences with publicly available <named-content content-type="genus-species">X. fastidiosa</named-content>
genomes, including the Italian strain CoDiRO, confirmed these phylogenetic positions and provided candidate alleles for coffee plant adaptation. This study demonstrates the global diversity of <named-content content-type="genus-species">X. fastidiosa</named-content>
and highlights the diversity of strains isolated from coffee plants.</p>
</abstract>
<funding-group><funding-statement>The 6-month salary of Stelly Mississipi to participate in this study was provided by Nestlé.</funding-statement>
</funding-group>
<counts><fig-count count="4"></fig-count>
<table-count count="5"></table-count>
<equation-count count="0"></equation-count>
<ref-count count="75"></ref-count>
<page-count count="13"></page-count>
<word-count count="12034"></word-count>
</counts>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>France</li>
</country>
<settlement><li>Angers</li>
<li>Tours</li>
</settlement>
</list>
<tree><country name="France"><noRegion><name sortKey="Jacques, Marie Agnes" sort="Jacques, Marie Agnes" uniqKey="Jacques M" first="Marie-Agnès" last="Jacques">Marie-Agnès Jacques</name>
</noRegion>
<name sortKey="Briand, Martial" sort="Briand, Martial" uniqKey="Briand M" first="Martial" last="Briand">Martial Briand</name>
<name sortKey="Crouzillat, Dominique" sort="Crouzillat, Dominique" uniqKey="Crouzillat D" first="Dominique" last="Crouzillat">Dominique Crouzillat</name>
<name sortKey="Denance, Nicolas" sort="Denance, Nicolas" uniqKey="Denance N" first="Nicolas" last="Denancé">Nicolas Denancé</name>
<name sortKey="Denance, Nicolas" sort="Denance, Nicolas" uniqKey="Denance N" first="Nicolas" last="Denancé">Nicolas Denancé</name>
<name sortKey="Durand, Karine" sort="Durand, Karine" uniqKey="Durand K" first="Karine" last="Durand">Karine Durand</name>
<name sortKey="Legendre, Bruno" sort="Legendre, Bruno" uniqKey="Legendre B" first="Bruno" last="Legendre">Bruno Legendre</name>
<name sortKey="Mississipi, Stelly" sort="Mississipi, Stelly" uniqKey="Mississipi S" first="Stelly" last="Mississipi">Stelly Mississipi</name>
<name sortKey="Mississipi, Stelly" sort="Mississipi, Stelly" uniqKey="Mississipi S" first="Stelly" last="Mississipi">Stelly Mississipi</name>
<name sortKey="Mississipi, Stelly" sort="Mississipi, Stelly" uniqKey="Mississipi S" first="Stelly" last="Mississipi">Stelly Mississipi</name>
<name sortKey="Morel, Emmanuelle" sort="Morel, Emmanuelle" uniqKey="Morel E" first="Emmanuelle" last="Morel">Emmanuelle Morel</name>
<name sortKey="Olivier, Valerie" sort="Olivier, Valerie" uniqKey="Olivier V" first="Valérie" last="Olivier">Valérie Olivier</name>
<name sortKey="Poliakoff, Francoise" sort="Poliakoff, Francoise" uniqKey="Poliakoff F" first="Françoise" last="Poliakoff">Françoise Poliakoff</name>
<name sortKey="Portier, Perrine" sort="Portier, Perrine" uniqKey="Portier P" first="Perrine" last="Portier">Perrine Portier</name>
</country>
</tree>
</affiliations>
</record>
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