Global gene expression under nitrogen starvation in Xylella fastidiosa: contribution of the σ54 regulon
Identifieur interne : 000C20 ( Ncbi/Checkpoint ); précédent : 000C19; suivant : 000C21Global gene expression under nitrogen starvation in Xylella fastidiosa: contribution of the σ54 regulon
Auteurs : José F. Da Silva Neto [Brésil] ; Tie Koide [Brésil] ; Suely L. Gomes [Brésil] ; Marilis V. Marques [Brésil]Source :
- BMC Microbiology [ 1471-2180 ] ; 2010.
Abstract
In this work, we performed a whole-genome microarray analysis of the
Together, these results show that nitrogen starvation causes intense changes in the
Url:
DOI: 10.1186/1471-2180-10-231
PubMed: 20799976
PubMed Central: 3224663
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Global gene expression under nitrogen starvation in <italic>Xylella fastidiosa</italic>: contribution of the σ<sup>54 </sup>regulon</title><author><name sortKey="Da Silva Neto, Jose F" sort="Da Silva Neto, Jose F" uniqKey="Da Silva Neto J" first="José F" last="Da Silva Neto">José F. Da Silva Neto</name><affiliation wicri:level="4"><nlm:aff id="I1">Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Koide, Tie" sort="Koide, Tie" uniqKey="Koide T" first="Tie" last="Koide">Tie Koide</name><affiliation wicri:level="4"><nlm:aff id="I2">Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="I3">Departamento de Bioquímica e Imunologia, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, Av. dos Bandeirantes 3900, 14049-900 Ribeirão Preto, SP, Brasil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica e Imunologia, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, Av. dos Bandeirantes 3900, 14049-900 Ribeirão Preto, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Gomes, Suely L" sort="Gomes, Suely L" uniqKey="Gomes S" first="Suely L" last="Gomes">Suely L. Gomes</name><affiliation wicri:level="4"><nlm:aff id="I2">Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Marques, Marilis V" sort="Marques, Marilis V" uniqKey="Marques M" first="Marilis V" last="Marques">Marilis V. Marques</name><affiliation wicri:level="4"><nlm:aff id="I1">Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. 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Da Silva Neto</name><affiliation wicri:level="4"><nlm:aff id="I1">Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Koide, Tie" sort="Koide, Tie" uniqKey="Koide T" first="Tie" last="Koide">Tie Koide</name><affiliation wicri:level="4"><nlm:aff id="I2">Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="I3">Departamento de Bioquímica e Imunologia, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, Av. dos Bandeirantes 3900, 14049-900 Ribeirão Preto, SP, Brasil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica e Imunologia, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, Av. dos Bandeirantes 3900, 14049-900 Ribeirão Preto, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Gomes, Suely L" sort="Gomes, Suely L" uniqKey="Gomes S" first="Suely L" last="Gomes">Suely L. Gomes</name><affiliation wicri:level="4"><nlm:aff id="I2">Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author><author><name sortKey="Marques, Marilis V" sort="Marques, Marilis V" uniqKey="Marques M" first="Marilis V" last="Marques">Marilis V. Marques</name><affiliation wicri:level="4"><nlm:aff id="I1">Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP, Brazil</nlm:aff><country xml:lang="fr">Brésil</country><wicri:regionArea>Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, Av. Prof. Lineu Prestes 1374, 05508-000 São Paulo, SP</wicri:regionArea><placeName><region type="state">État de São Paulo</region><settlement type="city">São Paulo</settlement></placeName><orgName type="university">Université de São Paulo</orgName></affiliation></author></analytic><series><title level="j">BMC Microbiology</title><idno type="eISSN">1471-2180</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p><italic>Xylella fastidiosa</italic>, a Gram-negative fastidious bacterium, grows in the xylem of several plants causing diseases such as citrus variegated chlorosis. As the xylem sap contains low concentrations of amino acids and other compounds, <italic>X. fastidiosa </italic>needs to cope with nitrogen limitation in its natural habitat.</p></sec><sec><title>Results</title><p>In this work, we performed a whole-genome microarray analysis of the <italic>X. fastidiosa </italic>nitrogen starvation response. A time course experiment (2, 8 and 12 hours) of cultures grown in defined medium under nitrogen starvation revealed many differentially expressed genes, such as those related to transport, nitrogen assimilation, amino acid biosynthesis, transcriptional regulation, and many genes encoding hypothetical proteins. In addition, a decrease in the expression levels of many genes involved in carbon metabolism and energy generation pathways was also observed. Comparison of gene expression profiles between the wild type strain and the <italic>rpoN </italic>null mutant allowed the identification of genes directly or indirectly induced by nitrogen starvation in a σ<sup>54</sup>-dependent manner. A more complete picture of the σ<sup>54 </sup>regulon was achieved by combining the transcriptome data with an <italic>in silico </italic>search for potential σ<sup>54</sup>-dependent promoters, using a position weight matrix approach. One of these σ<sup>54</sup>-predicted binding sites, located upstream of the <italic>glnA </italic>gene (encoding glutamine synthetase), was validated by primer extension assays, confirming that this gene has a σ<sup>54</sup>-dependent promoter.</p></sec><sec><title>Conclusions</title><p>Together, these results show that nitrogen starvation causes intense changes in the <italic>X. fastidiosa </italic>transcriptome and some of these differentially expressed genes belong to the σ<sup>54 </sup>regulon.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Hopkins, Dl" uniqKey="Hopkins D">DL Hopkins</name></author><author><name sortKey="Purcell, Ah" uniqKey="Purcell A">AH Purcell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chatterjee, S" uniqKey="Chatterjee S">S Chatterjee</name></author><author><name sortKey="Almeida, Rpp" uniqKey="Almeida R">RPP Almeida</name></author><author><name 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uniqKey="Britto D">DT Britto</name></author><author><name sortKey="Siddiqi, My" uniqKey="Siddiqi M">MY Siddiqi</name></author><author><name sortKey="Glass, Adm" uniqKey="Glass A">ADM Glass</name></author><author><name sortKey="Kronzucker, Hj" uniqKey="Kronzucker H">HJ Kronzucker</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Schjoerring, Jk" uniqKey="Schjoerring J">JK Schjoerring</name></author><author><name sortKey="Husted, S" uniqKey="Husted S">S Husted</name></author><author><name sortKey="Mack, G" uniqKey="Mack G">G Mack</name></author><author><name sortKey="Mattsson, M" uniqKey="Mattsson M">M Mattsson</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Brésil</li></country><region><li>État de São Paulo</li></region><settlement><li>São Paulo</li></settlement><orgName><li>Université de São Paulo</li></orgName></list><tree><country name="Brésil"><region name="État de São Paulo"><name sortKey="Da Silva Neto, Jose F" sort="Da Silva Neto, Jose F" uniqKey="Da Silva Neto J" first="José F" last="Da Silva Neto">José F. Da Silva Neto</name></region><name sortKey="Gomes, Suely L" sort="Gomes, Suely L" uniqKey="Gomes S" first="Suely L" last="Gomes">Suely L. Gomes</name><name sortKey="Koide, Tie" sort="Koide, Tie" uniqKey="Koide T" first="Tie" last="Koide">Tie Koide</name><name sortKey="Koide, Tie" sort="Koide, Tie" uniqKey="Koide T" first="Tie" last="Koide">Tie Koide</name><name sortKey="Marques, Marilis V" sort="Marques, Marilis V" uniqKey="Marques M" first="Marilis V" last="Marques">Marilis V. Marques</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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