OrangerV1, Pmc, Curation, bibRecord, 000727

Microarray Analyses of Xylella fastidiosa Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements

Identifieur interne : 000727 ( Pmc/Curation ); précédent : 000726; suivant : 000728

Microarray Analyses of Xylella fastidiosa Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements

Auteurs : Luiz R. Nunes [Brésil] ; Yoko B. Rosato [Brésil] ; Nair H. Muto [Brésil] ; Giane M. Yanai [Brésil] ; Vivian S. Da Silva [Brésil] ; Daniela B. Leite [Brésil] ; Edmilson R. Gonçalves [Brésil] ; Alessandra A. De Souza [Brésil] ; Helvécio D. Coletta-Filho [Brésil] ; Marcos A. Machado [Brésil] ; Silvio A. Lopes [Brésil] ; Regina Costa De Oliveira [Brésil]

Source :

Genome Research [ 1088-9051 ] ; 2003.

RBID : PMC:430171

Abstract

Genetically distinct strains of the plant bacterium Xylella fastidiosa (Xf) are responsible for a variety of plant diseases, accounting for severe economic damage throughout the world. Using as a reference the genome of Xf 9a5c strain, associated with citrus variegated chlorosis (CVC), we developed a microarray-based comparison involving 12 Xf isolates, providing a thorough assessment of the variation in genomic composition across the group. Our results demonstrate that Xf displays one of the largest flexible gene pools characterized to date, with several horizontally acquired elements, such as prophages, plasmids, and genomic islands (GIs), which contribute up to 18% of the final genome. Transcriptome analysis of bacteria grown under different conditions shows that most of these elements are transcriptionally active, and their expression can be influenced in a coordinated manner by environmental stimuli. Finally, evaluation of the genetic composition of these laterally transferred elements identified differences that may help to explain the adaptability of Xf strains to infect such a wide range of plant species.

[Supplemental material is available online at www.genome.org.]

Url:

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC430171

DOI: 10.1101/gr.930803
PubMed: 12670998
PubMed Central: 430171

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Alessandra A. De Souza

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<wicri:noCountry code="subfield">EMBRAPA</wicri:noCountry>
</affiliation>

Le document en format XML

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 Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements</title>
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 Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements</title>
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<front><div type="abstract" xml:lang="en"><p>Genetically distinct strains of the plant bacterium <italic>Xylella fastidiosa</italic>
 (<italic>Xf</italic>
) are responsible for a variety of plant diseases, accounting for severe economic damage throughout the world. Using as a reference the genome of <italic>Xf</italic>
 9a5c strain, associated with citrus variegated chlorosis (CVC), we developed a microarray-based comparison involving 12 <italic>Xf</italic>
 isolates, providing a thorough assessment of the variation in genomic composition across the group. Our results demonstrate that <italic>Xf</italic>
 displays one of the largest flexible gene pools characterized to date, with several horizontally acquired elements, such as prophages, plasmids, and genomic islands (GIs), which contribute up to 18% of the final genome. Transcriptome analysis of bacteria grown under different conditions shows that most of these elements are transcriptionally active, and their expression can be influenced in a coordinated manner by environmental stimuli. Finally, evaluation of the genetic composition of these laterally transferred elements identified differences that may help to explain the adaptability of <italic>Xf</italic>
 strains to infect such a wide range of plant species.</p>
<p>[Supplemental material is available online at <ext-link ext-link-type="uri" xlink:href="http://www.genome.org">www.genome.org</ext-link>
.]</p>
</div>
</front>
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<pmc article-type="letter"><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">Genome Res</journal-id>
<journal-id journal-id-type="publisher-id">genome</journal-id>
<journal-title>Genome Research</journal-title>
<issn pub-type="ppub">1088-9051</issn>
<publisher><publisher-name>Cold Spring Harbor Laboratory Press</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">12670998</article-id>
<article-id pub-id-type="pmc">430171</article-id>
<article-id pub-id-type="publisher-id">15x</article-id>
<article-id pub-id-type="doi">10.1101/gr.930803</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Letters</subject>
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<title-group><article-title>Microarray Analyses of <italic>Xylella fastidiosa</italic>
 Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Nunes</surname>
<given-names>Luiz R.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
<xref ref-type="fn" rid="fn6">6</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Rosato</surname>
<given-names>Yoko B.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">2</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Muto</surname>
<given-names>Nair H.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Yanai</surname>
<given-names>Giane M.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>da Silva</surname>
<given-names>Vivian S.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Leite</surname>
<given-names>Daniela B.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Gonçalves</surname>
<given-names>Edmilson R.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">2</xref>
</contrib>
<contrib contrib-type="author"><name><surname>de Souza</surname>
<given-names>Alessandra A.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">3</xref>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">4</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Coletta-Filho</surname>
<given-names>Helvécio D.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">3</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Machado</surname>
<given-names>Marcos A.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">3</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Lopes</surname>
<given-names>Silvio A.</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">5</xref>
</contrib>
<contrib contrib-type="author"><name><surname>de Oliveira</surname>
<given-names>Regina Costa</given-names>
</name>
<xref ref-type="aff" rid="N0x98413b0.0x99d46e8">1</xref>
<xref ref-type="fn" rid="fn6">6</xref>
</contrib>
</contrib-group>
<aff id="N0x98413b0.0x99d46e8"><label>1</label>
Núcleo Integrado de Biotecnologia, Universidade de Mogi das Cruzes, Mogi das Cruzes, SP 08780-911, Brazil;<label>2</label>
 Centro de Biologia Molecular e Engenharia Genética, Universidade de Campinas, Caixa Postal 6010, Campinas, SP, Brazil;<label>3</label>
 Centro APTA de Citros Sylvio Moreira, Instituto Agronômico de Campinas, Caixa Postal 04, Cordeirópolis, SP 13490, 970, Brazil;<label>4</label>
Empresa Brasileira de Pesquisa Agropecuária, EMBRAPA;<label>5</label>
Unidade de Biotecnologia, Universidade de Ribeirão Preto, Ribeirão Preto, SP 14096-380, Brazil</aff>
<author-notes><fn id="fn6"><label>6</label>
<p>Corresponding authors.</p>
</fn>
</author-notes>
<pub-date pub-type="ppub"><day>1</day>
<month>4</month>
<year>2003</year>
</pub-date>
<volume>13</volume>
<issue>4</issue>
<fpage>570</fpage>
<lpage>578</lpage>
<history><date date-type="received"><day>24</day>
<month>10</month>
<year>2002</year>
</date>
<date date-type="accepted"><day>29</day>
<month>1</month>
<year>2003</year>
</date>
</history>
<copyright-statement>Copyright © 2003, Cold Spring Harbor Laboratory Press</copyright-statement>
<copyright-year>2003</copyright-year>
<abstract><p>Genetically distinct strains of the plant bacterium <italic>Xylella fastidiosa</italic>
 (<italic>Xf</italic>
) are responsible for a variety of plant diseases, accounting for severe economic damage throughout the world. Using as a reference the genome of <italic>Xf</italic>
 9a5c strain, associated with citrus variegated chlorosis (CVC), we developed a microarray-based comparison involving 12 <italic>Xf</italic>
 isolates, providing a thorough assessment of the variation in genomic composition across the group. Our results demonstrate that <italic>Xf</italic>
 displays one of the largest flexible gene pools characterized to date, with several horizontally acquired elements, such as prophages, plasmids, and genomic islands (GIs), which contribute up to 18% of the final genome. Transcriptome analysis of bacteria grown under different conditions shows that most of these elements are transcriptionally active, and their expression can be influenced in a coordinated manner by environmental stimuli. Finally, evaluation of the genetic composition of these laterally transferred elements identified differences that may help to explain the adaptability of <italic>Xf</italic>
 strains to infect such a wide range of plant species.</p>
<p>[Supplemental material is available online at <ext-link ext-link-type="uri" xlink:href="http://www.genome.org">www.genome.org</ext-link>
.]</p>
</abstract>
</article-meta>
<notes><fn-group><fn><p>E-MAIL <email>Lnunes@umc.br</email>
; FAX 55-11-4798-7104.</p>
</fn>
<fn><p>E-MAIL <email>reginaco@umc.br</email>
; FAX 55-11-4798-7106.</p>
</fn>
<fn><p>Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.930803.</p>
</fn>
</fn-group>
</notes>
</front>
</pmc>
</record>

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Microarray Analyses of Xylella fastidiosa Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements

Microarray Analyses of Xylella fastidiosa Provide Evidence of Coordinated Transcription Control of Laterally Transferred Elements

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