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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">The Iron Stimulon of <italic>Xylella fastidiosa</italic> Includes Genes for Type IV Pilus and Colicin V-Like Bacteriocins<xref ref-type="fn" rid="fn3">▿</xref> <xref ref-type="fn" rid="fn1">†</xref> </title><author><name sortKey="Zaini, Paulo A" sort="Zaini, Paulo A" uniqKey="Zaini P" first="Paulo A." last="Zaini">Paulo A. Zaini</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Fogaca, Andrea C" sort="Fogaca, Andrea C" uniqKey="Fogaca A" first="Andréa C." last="Fogaça">Andréa C. Fogaça</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Lupo, Fernanda G N" sort="Lupo, Fernanda G N" uniqKey="Lupo F" first="Fernanda G. N." last="Lupo">Fernanda G. N. Lupo</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Nakaya, Helder I" sort="Nakaya, Helder I" uniqKey="Nakaya H" first="Helder I." last="Nakaya">Helder I. Nakaya</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Vencio, Ricardo Z N" sort="Vencio, Ricardo Z N" uniqKey="Vencio R" first="Ricardo Z. N." last="Vêncio">Ricardo Z. N. Vêncio</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Da Silva, Aline M" sort="Da Silva, Aline M" uniqKey="Da Silva A" first="Aline M." last="Da Silva">Aline M. Da Silva</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">18223091</idno><idno type="pmc">2293194</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293194</idno><idno type="RBID">PMC:2293194</idno><idno type="doi">10.1128/JB.01495-07</idno><date when="2008">2008</date><idno type="wicri:Area/Pmc/Corpus">000769</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">The Iron Stimulon of <italic>Xylella fastidiosa</italic> Includes Genes for Type IV Pilus and Colicin V-Like Bacteriocins<xref ref-type="fn" rid="fn3">▿</xref> <xref ref-type="fn" rid="fn1">†</xref> </title><author><name sortKey="Zaini, Paulo A" sort="Zaini, Paulo A" uniqKey="Zaini P" first="Paulo A." last="Zaini">Paulo A. Zaini</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Fogaca, Andrea C" sort="Fogaca, Andrea C" uniqKey="Fogaca A" first="Andréa C." last="Fogaça">Andréa C. Fogaça</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Lupo, Fernanda G N" sort="Lupo, Fernanda G N" uniqKey="Lupo F" first="Fernanda G. N." last="Lupo">Fernanda G. N. Lupo</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Nakaya, Helder I" sort="Nakaya, Helder I" uniqKey="Nakaya H" first="Helder I." last="Nakaya">Helder I. Nakaya</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Vencio, Ricardo Z N" sort="Vencio, Ricardo Z N" uniqKey="Vencio R" first="Ricardo Z. N." last="Vêncio">Ricardo Z. N. Vêncio</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Da Silva, Aline M" sort="Da Silva, Aline M" uniqKey="Da Silva A" first="Aline M." last="Da Silva">Aline M. Da Silva</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></analytic><series><title level="j">Journal of Bacteriology</title><idno type="ISSN">0021-9193</idno><idno type="eISSN">1098-5530</idno><imprint><date when="2008">2008</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><italic>Xylella fastidiosa</italic> is the etiologic agent of a wide range of plant diseases, including citrus variegated chlorosis (CVC), a major threat to citrus industry. The genomes of several strains of this phytopathogen were completely sequenced, enabling large-scale functional studies. DNA microarrays representing 2,608 (91.6%) coding sequences (CDS) of <italic>X. fastidiosa</italic> CVC strain 9a5c were used to investigate transcript levels during growth with different iron availabilities. When treated with the iron chelator 2,2′-dipyridyl, 193 CDS were considered up-regulated and 216 were considered down-regulated. Upon incubation with 100 μM ferric pyrophosphate, 218 and 256 CDS were considered up- and down-regulated, respectively. Differential expression for a subset of 44 CDS was further evaluated by reverse transcription-quantitative PCR. Several CDS involved with regulatory functions, pathogenicity, and cell structure were modulated under both conditions assayed, suggesting that major changes in cell architecture and metabolism occur when <italic>X. fastidiosa</italic> cells are exposed to extreme variations in iron concentration. Interestingly, the modulated CDS include those related to colicin V-like bacteriocin synthesis and secretion and to functions of pili/fimbriae. We also investigated the contribution of the ferric uptake regulator Fur to the iron stimulon of <italic>X. fastidiosa</italic>. The promoter regions of the strain 9a5c genome were screened for putative Fur boxes, and candidates were analyzed by electrophoretic mobility shift assays. Taken together, our data support the hypothesis that Fur is not solely responsible for the modulation of the iron stimulon of <italic>X. fastidiosa</italic>, and they present novel evidence for iron regulation of pathogenicity determinants.</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">J Bacteriol</journal-id><journal-id journal-id-type="publisher-id">jb</journal-id><journal-title>Journal of Bacteriology</journal-title><issn pub-type="ppub">0021-9193</issn><issn pub-type="epub">1098-5530</issn><publisher><publisher-name>American Society for Microbiology (ASM)</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">18223091</article-id><article-id pub-id-type="pmc">2293194</article-id><article-id pub-id-type="publisher-id">1495-07</article-id><article-id pub-id-type="doi">10.1128/JB.01495-07</article-id><article-categories><subj-group subj-group-type="heading"><subject>Gene Regulation</subject></subj-group></article-categories><title-group><article-title>The Iron Stimulon of <italic>Xylella fastidiosa</italic> Includes Genes for Type IV Pilus and Colicin V-Like Bacteriocins<xref ref-type="fn" rid="fn3">▿</xref> <xref ref-type="fn" rid="fn1">†</xref> </article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Zaini</surname><given-names>Paulo A.</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Fogaça</surname><given-names>Andréa C.</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Lupo</surname><given-names>Fernanda G. N.</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Nakaya</surname><given-names>Helder I.</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Vêncio</surname><given-names>Ricardo Z. N.</given-names></name><xref ref-type="aff" rid="aff1">2</xref><xref ref-type="fn" rid="fn2">‡</xref></contrib><contrib contrib-type="author"><name><surname>da Silva</surname><given-names>Aline M.</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="corresp" rid="cor1">*</xref></contrib></contrib-group><aff id="aff1">Departamento de Bioquímica, Instituto de Química,<label>1</label> Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil<label>2</label></aff><author-notes><fn id="cor1"><label>*</label><p>Corresponding author. Mailing address: Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, Av. Prof. Lineu Prestes 748, 05508-000, São Paulo, SP, Brazil. Phone: 5511 3091-2182. Fax: 5511 3091-2186. E-mail: <email>almsilva@iq.usp.br</email></p></fn><fn id="fn2"><label>‡</label><p>Present address: Institute for Systems Biology, 1441 North 34th Street, Seattle, WA 98103-8904.</p></fn></author-notes><pub-date pub-type="ppub"><month>4</month><year>2008</year></pub-date><pub-date pub-type="epub"><day>25</day><month>1</month><year>2008</year></pub-date><volume>190</volume><issue>7</issue><fpage>2368</fpage><lpage>2378</lpage><history><date date-type="received"><day>17</day><month>9</month><year>2007</year></date><date date-type="accepted"><day>8</day><month>1</month><year>2008</year></date></history><permissions><copyright-statement>Copyright © 2008, American Society for Microbiology</copyright-statement></permissions><self-uri xlink:title="pdf" xlink:href="zjb00708002368.pdf"></self-uri><abstract><p><italic>Xylella fastidiosa</italic> is the etiologic agent of a wide range of plant diseases, including citrus variegated chlorosis (CVC), a major threat to citrus industry. The genomes of several strains of this phytopathogen were completely sequenced, enabling large-scale functional studies. DNA microarrays representing 2,608 (91.6%) coding sequences (CDS) of <italic>X. fastidiosa</italic> CVC strain 9a5c were used to investigate transcript levels during growth with different iron availabilities. When treated with the iron chelator 2,2′-dipyridyl, 193 CDS were considered up-regulated and 216 were considered down-regulated. Upon incubation with 100 μM ferric pyrophosphate, 218 and 256 CDS were considered up- and down-regulated, respectively. Differential expression for a subset of 44 CDS was further evaluated by reverse transcription-quantitative PCR. Several CDS involved with regulatory functions, pathogenicity, and cell structure were modulated under both conditions assayed, suggesting that major changes in cell architecture and metabolism occur when <italic>X. fastidiosa</italic> cells are exposed to extreme variations in iron concentration. Interestingly, the modulated CDS include those related to colicin V-like bacteriocin synthesis and secretion and to functions of pili/fimbriae. We also investigated the contribution of the ferric uptake regulator Fur to the iron stimulon of <italic>X. fastidiosa</italic>. The promoter regions of the strain 9a5c genome were screened for putative Fur boxes, and candidates were analyzed by electrophoretic mobility shift assays. Taken together, our data support the hypothesis that Fur is not solely responsible for the modulation of the iron stimulon of <italic>X. fastidiosa</italic>, and they present novel evidence for iron regulation of pathogenicity determinants.</p></abstract></article-meta></front><floats-wrap><fig position="float" id="f1"><label>FIG. 1.</label><caption><p>Summary of differentially expressed CDS according to iron availability. Diagrams show the numbers of CDS up- and down-regulated at either HIC or LIC, as well as the numbers of CDS differentially expressed under both conditions (underlined).</p></caption><graphic xlink:href="zjb0070876790001"></graphic></fig><fig position="float" id="f2"><label>FIG. 2.</label><caption><p>Growth curves of <italic>X. fastidiosa</italic> 9a5c in PW medium at different iron availabilities. (A) Cells were cultured in PW medium, and OD<sub>600</sub> was monitored every 24 h for 7 days, after which the culture was divided into three equal portions. (B) One portion received 200 μM 2,2′-dipyridyl (solid squares), the second received 100 μM ferric pyrophosphate (solid triangles), and the third was kept in regular PW medium as a control (solid circles). After 15, 60, 240, or 960 min, the OD for each culture was monitored. Curves show average OD readings from five independent experiments with standard deviations. Samples of cells under the three distinct conditions were taken at each time point shown and plated in solid PW medium in serial dilutions. After 7 days, growth was evaluated, and no difference was observed between samples under control, LIC, or HIC conditions (data not shown).</p></caption><graphic xlink:href="zjb0070876790002"></graphic></fig><fig position="float" id="f3"><label>FIG. 3.</label><caption><p>Microarray data validation. Shown are expression profiles of selected CDS by microarray (open squares) and RT-qPCR (solid squares) from cells treated with 100 μM ferric pyrophosphate (left) or with 200 μM 2,2′-dipyridyl (right). In all plots, M stands for the log<sub>2</sub> of normalized expression ratios (treatment/control).</p></caption><graphic xlink:href="zjb0070876790003"></graphic></fig><fig position="float" id="f4"><label>FIG. 4.</label><caption><p>Overall correlation of the microarray and RT-qPCR data. Both axes show the log<sub>2</sub> of normalized expression ratios (treatment/control). The methodologies showed a Pearson correlation of 0.77.</p></caption><graphic xlink:href="zjb0070876790004"></graphic></fig><fig position="float" id="f5"><label>FIG. 5.</label><caption><p>Functional categorization of differentially expressed CDS. Shaded and open bars show the percentage of up-regulated CDS in each functional category when <italic>X. fastidiosa</italic> cells were exposed to either HIC or LIC, respectively. Hatched bars indicate the percentages of down-regulated CDS. Letters above bars represent functional categories as follows: A, degradation of small molecules (33 CDS); B, central intermediary metabolism (58 CDS); C, energy metabolism (92 CDS); D, regulatory functions (77 CDS); E, biosynthesis of small molecules (226 CDS); F, DNA metabolism (111 CDS); G, RNA metabolism (183 CDS); H, protein metabolism (85 CDS); I, metabolism of other macromolecules (17 CDS); J, cell structure (145 CDS); K, transport (141 CDS); L, cell division (25 CDS); M, mobile genetic elements (144 CDS); N, pathogenicity, virulence, and adaptation (147 CDS); O, hypothetical (1,534 CDS); P, undefined (24 CDS). The 55 reannotated CDS are included in category O in order to follow the original classification by Simpson et al. (<xref ref-type="bibr" rid="r79">79</xref>).</p></caption><graphic xlink:href="zjb0070876790005"></graphic></fig><fig position="float" id="f6"><label>FIG. 6.</label><caption><p>Characterization of recombinant Fur<sub>Xf</sub>. (A) Alignment of Fur proteins from different bacteria (all from GenBank): Xf, <italic>Xylella fastidiosa</italic>; Xcc, <italic>Xanthomonas campestris</italic> pv. <italic>campestris</italic>; Pa, <italic>Pseudomonas aeruginosa</italic> PAO1; Eca, <italic>Erwinia carotovora</italic> subsp. <italic>atroseptica</italic> SCRI1043; Ec, <italic>Escherichia coli</italic> K-12. Numbers 1 and 2 above the sequences indicate domains important for DNA and Fe<sup>2+</sup> binding, respectively. (B) Purification of recombinant Fur<sub>Xf</sub> by Ni<sup>2+</sup> affinity chromatography. Lane 1, 10 μg of the soluble fraction of a noninduced culture; lane 2, 10 μg of the soluble fraction of a culture induced with IPTG; lane 3, 10 μg of flowthrough; lanes 4 to 6, fractions eluted with 75, 100, and 150 mM imidazole, respectively. Arrow indicates recombinant Fur<sub>Xf</sub>.</p></caption><graphic xlink:href="zjb0070876790006"></graphic></fig><fig position="float" id="f7"><label>FIG. 7.</label><caption><p>EMSA of promoter regions and Fur<sub>Xf</sub>. In all assays, 10 nM labeled DNA was incubated with recombinant Fur<sub>Xf</sub> (0, 10 nM, 100 nM, 1 μM, 10 μM, and 10 μM in the presence of unlabeled DNA at a 60-fold excess [lanes 1 to 6, respectively]). The mobility shift seen with 10 μM Fur<sub>Xf</sub> (lane 5) was considered nonspecific, given that this amount caused some retardation of the DNA fragment from the 16S rRNA gene and of fragments from the promoter sequences of <italic>tonB</italic> (XF0009) and <italic>fur</italic> (XF2344), which show no evidence of Fur regulation based on microarray and RT-qPCR data plus in silico Fur box searches.</p></caption><graphic xlink:href="zjb0070876790007"></graphic></fig><fig position="float" id="f8"><label>FIG. 8.</label><caption><p>Sequence logo of the Fur box of <italic>X. fastidiosa</italic> 9a5c. Searches for Fur boxes in the <italic>Xylella</italic> genome were performed using 112 previously characterized Fur boxes listed in Table S2 in the supplemental material. The putative Fur<sub>Xf</sub> boxes that mapped to CDS down-regulated at HIC were selected, and a consensus was built from 36 putative <italic>Xylella</italic> Fur boxes similar to those found in the operator sequences of XF0599, <italic>fhuA</italic><sub>Ec</sub>, and <italic>pvdS</italic><sub>Pa</sub>. Base frequencies at each position were determined with WebLogo (<xref ref-type="bibr" rid="r13">13</xref>).</p></caption><graphic xlink:href="zjb0070876790008"></graphic></fig><table-wrap position="float" id="t1"><label>TABLE 1.</label><caption><p>Summary of microarray hybridization results<xref ref-type="table-fn" rid="t1fn1"><italic>a</italic></xref></p></caption><table frame="hsides" rules="groups"><thead><tr><th colspan="1" rowspan="2" align="center" valign="middle">Condition and time<xref ref-type="table-fn" rid="t1fn2"><italic>b</italic></xref></th><th colspan="2" rowspan="1" align="center" valign="bottom">No. of CDS differentially expressed (% of all CDS expressed under the same conditions)
<hr></hr></th></tr><tr><th colspan="1" rowspan="1" align="center" valign="bottom">Up-regulated CDS</th><th colspan="1" rowspan="1" align="center" valign="bottom">Down-regulated CDS</th></tr></thead><tbody><tr><td colspan="1" rowspan="1" align="left" valign="top">HIC</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 15 min</td><td colspan="1" rowspan="1" align="center" valign="top">69 (5.2)</td><td colspan="1" rowspan="1" align="center" valign="top">87 (6.6)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 60 min</td><td colspan="1" rowspan="1" align="center" valign="top">136 (10.2)</td><td colspan="1" rowspan="1" align="center" valign="top">160 (12.1)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 240 min</td><td colspan="1" rowspan="1" align="center" valign="top">149 (11.2)</td><td colspan="1" rowspan="1" align="center" valign="top">158 (11.9)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 960 min</td><td colspan="1" rowspan="1" align="center" valign="top">135 (10.2)</td><td colspan="1" rowspan="1" align="center" valign="top">173 (13)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> Total</td><td colspan="1" rowspan="1" align="center" valign="top">218 (16.4)</td><td colspan="1" rowspan="1" align="center" valign="top">256 (19.3)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">LIC</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 15 min</td><td colspan="1" rowspan="1" align="center" valign="top">23 (1.5)</td><td colspan="1" rowspan="1" align="center" valign="top">55 (3.9)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 60 min</td><td colspan="1" rowspan="1" align="center" valign="top">125 (8.1)</td><td colspan="1" rowspan="1" align="center" valign="top">134 (8.7)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 240 min</td><td colspan="1" rowspan="1" align="center" valign="top">74 (4.8)</td><td colspan="1" rowspan="1" align="center" valign="top">51 (3.3)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> After 960 min</td><td colspan="1" rowspan="1" align="center" valign="top">61 (4)</td><td colspan="1" rowspan="1" align="center" valign="top">46 (3)</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> Total</td><td colspan="1" rowspan="1" align="center" valign="top">193 (12.6)</td><td colspan="1" rowspan="1" align="center" valign="top">216 (14.1)</td></tr></tbody></table><table-wrap-foot><fn id="t1fn1"><label>a</label><p>A total of 2,608 CDS were represented on the microarray. Of these, 1,328 CDS were considered expressed under HIC and 1,534 were considered expressed under LIC.</p></fn><fn id="t1fn2"><label>b</label><p>Total, sum of the nonredundant CDS differentially expressed at all time points.</p></fn></table-wrap-foot></table-wrap><table-wrap position="float" id="t2"><label>TABLE 2.</label><caption><p>Transcript levels of selected CDS analyzed by RT-qPCR</p></caption><table frame="hsides" rules="groups"><thead><tr><th colspan="1" rowspan="2" align="center" valign="middle">Gene ID</th><th colspan="1" rowspan="2" align="center" valign="middle">Predicted product</th><th colspan="1" rowspan="2" align="center" valign="middle">Gene name</th><th colspan="2" rowspan="1" align="center" valign="bottom">Expression<xref ref-type="table-fn" rid="t2fn1"><italic>a</italic></xref> with:
<hr></hr></th></tr><tr><th colspan="1" rowspan="1" align="center" valign="bottom">HIC</th><th colspan="1" rowspan="1" align="center" valign="bottom">LIC</th></tr></thead><tbody><tr><td colspan="1" rowspan="1" align="left" valign="top">Iron uptake, use, and storage</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0932</td><td colspan="1" rowspan="1" align="left" valign="top">Ferrous iron transport protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>feoA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0933</td><td colspan="1" rowspan="1" align="left" valign="top">Ferrous iron transport protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>feoB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0599</td><td colspan="1" rowspan="1" align="left" valign="top">TonB-dependent receptor for iron</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>fiu</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0395</td><td colspan="1" rowspan="1" align="left" valign="top">Bacterioferritin</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>bfr</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0550</td><td colspan="1" rowspan="1" align="left" valign="top">TonB-dependent receptor for iron<xref ref-type="table-fn" rid="t2fn2"><italic>b</italic></xref></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1073</td><td colspan="1" rowspan="1" align="left" valign="top">Succinate dehydrogenase iron-sulfur protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>sdhB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1889</td><td colspan="1" rowspan="1" align="left" valign="top">Ferredoxin-NADP reductase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>fpr</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0557</td><td colspan="1" rowspan="1" align="left" valign="top">Electron transfer protein azurin I</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>az1</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0253</td><td colspan="1" rowspan="1" align="left" valign="top">Electron transfer flavoprotein alpha subunit</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>etfA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0287</td><td colspan="1" rowspan="1" align="left" valign="top">Regulator of pathogenicity factors</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>rpfB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2094</td><td colspan="1" rowspan="1" align="left" valign="top">Multidrug-efflux transporter</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>mexB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0908</td><td colspan="1" rowspan="1" align="left" valign="top">Cytochrome <italic>c</italic> oxidoreductase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>petA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1387</td><td colspan="1" rowspan="1" align="left" valign="top">Cytochrome <italic>o</italic> ubiquinol oxidase, subunit IV</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cyoD</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1388</td><td colspan="1" rowspan="1" align="left" valign="top">Cytochrome <italic>o</italic> ubiquinol oxidase, subunit III</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cyoC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1390</td><td colspan="1" rowspan="1" align="left" valign="top">Cytochrome <italic>o</italic> ubiquinol oxidase, subunit II</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cyoA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2306</td><td colspan="1" rowspan="1" align="left" valign="top">δ-Aminolevulinic acid dehydratase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>hemB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2344</td><td colspan="1" rowspan="1" align="left" valign="top">Ferric uptake regulator</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>fur</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1382</td><td colspan="1" rowspan="1" align="left" valign="top">Conserved hypothetical protein (DPS domain)</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">Cell division</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1320</td><td colspan="1" rowspan="1" align="left" valign="top">Cell division topological specificity factor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>minC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1321</td><td colspan="1" rowspan="1" align="left" valign="top">Septum site-determining protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>minD</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1322</td><td colspan="1" rowspan="1" align="left" valign="top">Cell division inhibitor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>minE</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0800</td><td colspan="1" rowspan="1" align="left" valign="top">Cell division protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>ftsZ</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0801</td><td colspan="1" rowspan="1" align="left" valign="top">Cell division protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>ftsA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0802</td><td colspan="1" rowspan="1" align="left" valign="top">Cell division protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>ftsQ</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">Energy metabolism</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1535</td><td colspan="1" rowspan="1" align="left" valign="top">Citrate synthase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>gltA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2596</td><td colspan="1" rowspan="1" align="left" valign="top">Isocitrate dehydrogenase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>icd</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0942</td><td colspan="1" rowspan="1" align="left" valign="top">Malate:quinone oxidoreductase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>yojH</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2547</td><td colspan="1" rowspan="1" align="left" valign="top">Succinyl-CoA synthetase, beta subunit</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>sucC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2548</td><td colspan="1" rowspan="1" align="left" valign="top">Succinyl-CoA synthetase, alpha subunit</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>sucD</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0290</td><td colspan="1" rowspan="1" align="left" valign="top">Aconitase</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>rpfA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">Pilus and fimbriae</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0029</td><td colspan="1" rowspan="1" align="left" valign="top">Pre-pilin leader sequence</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilV</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0033</td><td colspan="1" rowspan="1" align="left" valign="top">PilE protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilE</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1632</td><td colspan="1" rowspan="1" align="left" valign="top">Twitching motility protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilU</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1633</td><td colspan="1" rowspan="1" align="left" valign="top">Twitching motility protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilT</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1953</td><td colspan="1" rowspan="1" align="left" valign="top">Pilus biogenesis protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilJ</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1954</td><td colspan="1" rowspan="1" align="left" valign="top">Pilus biogenesis protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilI</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1955</td><td colspan="1" rowspan="1" align="left" valign="top">Pilus protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilG</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2544</td><td colspan="1" rowspan="1" align="left" valign="top">Pilus biogenesis protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF2545</td><td colspan="1" rowspan="1" align="left" valign="top">Two-component system, regulatory protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilR</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0370</td><td colspan="1" rowspan="1" align="left" valign="top">Fimbrial assembly membrane protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilN</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0371</td><td colspan="1" rowspan="1" align="left" valign="top">Fimbrial assembly membrane protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilO</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0372</td><td colspan="1" rowspan="1" align="left" valign="top">Fimbrial assembly protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>pilP</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0082</td><td colspan="1" rowspan="1" align="left" valign="top">Chaperone protein precursor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>fimC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0083</td><td colspan="1" rowspan="1" align="left" valign="top">Fimbrial subunit precursor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>fimA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1407</td><td colspan="1" rowspan="1" align="left" valign="top">Sigma-54 modulation protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>rpoX</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1408</td><td colspan="1" rowspan="1" align="left" valign="top">RNA polymerase sigma-54 factor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>rpoN</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↓</td><td colspan="1" rowspan="1" align="center" valign="top">↓</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1843</td><td colspan="1" rowspan="1" align="left" valign="top">Nitrogen regulatory protein P-II</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>glnB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1848</td><td colspan="1" rowspan="1" align="left" valign="top">Two-component system, regulatory protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>ntrC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1849</td><td colspan="1" rowspan="1" align="left" valign="top">Two-component system, sensor protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>ntrB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">Colicin V-like bacteriocins</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0261</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin immunity protein<xref ref-type="table-fn" rid="t2fn2"><italic>b</italic></xref></td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvi</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0262</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin V precursor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvaC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0263</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin V precursor</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvaC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0264</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin V precursor<xref ref-type="table-fn" rid="t2fn2"><italic>b</italic></xref></td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvaC</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1216</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin V secretion protein</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvaA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1220</td><td colspan="1" rowspan="1" align="left" valign="top">Colicin V secretion ABC transporter</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>cvaB</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top">Transcriptional regulators</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top"></td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0216</td><td colspan="1" rowspan="1" align="left" valign="top">MarR family</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>prsX</italic></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF0972</td><td colspan="1" rowspan="1" align="left" valign="top">LuxR/UhpA family</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>glpR</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1354</td><td colspan="1" rowspan="1" align="left" valign="top">MarR family</td><td colspan="1" rowspan="1" align="center" valign="top"><italic>yybA</italic></td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td><td colspan="1" rowspan="1" align="center" valign="top">↑</td></tr><tr><td colspan="1" rowspan="1" align="left" valign="top"> XF1490</td><td colspan="1" rowspan="1" align="left" valign="top">MarR/EmrR family</td><td colspan="1" rowspan="1" align="center" valign="top"></td><td colspan="1" rowspan="1" align="center" valign="top">↑</td><td colspan="1" rowspan="1" align="center" valign="top">⇆</td></tr></tbody></table><table-wrap-foot><fn id="t2fn1"><label>a</label><p>Arrows indicate up-regulation (↑), down-regulation (↓), or no change (⇆) in transcript levels.</p></fn><fn id="t2fn2"><label>b</label><p>Currently annotated as a conserved hypothetical protein in the <italic>Xylella</italic> genome databank. CDS categorization does not necessarily follow the genome categories assigned by Simpson et al. (<xref ref-type="bibr" rid="r79">79</xref>).</p></fn></table-wrap-foot></table-wrap></floats-wrap></pmc></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Wicri/Bois/explor/OrangerV1/Data/Pmc/Corpus
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