<?xml version="1.0" encoding="utf-8"?>
<TEI xmlns="http://www.tei-c.org/ns/1.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:hal="http://hal.archives-ouvertes.fr/" xmlns:gml="http://www.opengis.net/gml/3.3/" xmlns:gmlce="http://www.opengis.net/gml/3.3/ce" version="1.1" xsi:schemaLocation="http://www.tei-c.org/ns/1.0 http://api.archives-ouvertes.fr/documents/aofr-sword.xsd">
  <teiHeader>
    <fileDesc>
      <titleStmt>
        <title>HAL TEI export of hal-00857366</title>
      </titleStmt>
      <publicationStmt>
        <distributor>CCSD</distributor>
        <availability status="restricted">
          <licence target="https://creativecommons.org/publicdomain/zero/1.0/">CC0 1.0 - Universal</licence>
        </availability>
        <date when="2026-04-24T15:36:59+02:00"/>
      </publicationStmt>
      <sourceDesc>
        <p part="N">HAL API Platform</p>
      </sourceDesc>
    </fileDesc>
  </teiHeader>
  <text>
    <body>
      <listBibl>
        <biblFull>
          <titleStmt>
            <title xml:lang="en">Expression dynamics of RpoS/Crl-dependent genes in Escherichia coli</title>
            <author role="aut">
              <persName>
                <forename type="first">Omaya</forename>
                <surname>Dudin</surname>
              </persName>
              <idno type="halauthorid">731025-0</idno>
              <orgName ref="#struct-51016"/>
              <affiliation ref="#struct-56309"/>
              <affiliation ref="#struct-644"/>
            </author>
            <author role="crp">
              <persName>
                <forename type="first">Stéphan</forename>
                <surname>Lacour</surname>
              </persName>
              <email type="md5">44016fba9ff65ba3bf24145f47b61b8a</email>
              <email type="domain">ujf-grenoble.fr</email>
              <idno type="idhal" notation="numeric">945085</idno>
              <idno type="halauthorid" notation="string">731026-945085</idno>
              <orgName ref="#struct-51016"/>
              <affiliation ref="#struct-644"/>
              <affiliation ref="#struct-56309"/>
            </author>
            <author role="aut">
              <persName>
                <forename type="first">Johannes</forename>
                <surname>Geiselmann</surname>
              </persName>
              <email type="md5">145d455d459884c428471aff01bef48b</email>
              <email type="domain">ujf-grenoble.fr</email>
              <idno type="idhal" notation="numeric">838484</idno>
              <idno type="halauthorid" notation="string">142940-838484</idno>
              <orgName ref="#struct-51016"/>
              <affiliation ref="#struct-644"/>
              <affiliation ref="#struct-56309"/>
            </author>
            <editor role="depositor">
              <persName>
                <forename>Hidde</forename>
                <surname>De Jong</surname>
              </persName>
              <email type="md5">c63454b86cc30062e24406e2e525d8ca</email>
              <email type="domain">inria.fr</email>
            </editor>
          </titleStmt>
          <editionStmt>
            <edition n="v1" type="current">
              <date type="whenSubmitted">2013-09-03 14:08:02</date>
              <date type="whenModified">2025-09-27 18:43:47</date>
              <date type="whenReleased">2013-09-03 14:08:02</date>
              <date type="whenProduced">2013</date>
              <ref type="externalLink" target="https://api.istex.fr/ark:/67375/6H6-W32P4T9B-H/fulltext.pdf?sid=hal"/>
            </edition>
            <respStmt>
              <resp>contributor</resp>
              <name key="155445">
                <persName>
                  <forename>Hidde</forename>
                  <surname>De Jong</surname>
                </persName>
                <email type="md5">c63454b86cc30062e24406e2e525d8ca</email>
                <email type="domain">inria.fr</email>
              </name>
            </respStmt>
          </editionStmt>
          <publicationStmt>
            <distributor>CCSD</distributor>
            <idno type="halId">hal-00857366</idno>
            <idno type="halUri">https://inria.hal.science/hal-00857366</idno>
            <idno type="halBibtex">dudin:hal-00857366</idno>
            <idno type="halRefHtml">&lt;i&gt;Research in Microbiology&lt;/i&gt;, 2013, 164 (8), pp.838-847. &lt;a target="_blank" href="https://dx.doi.org/10.1016/j.resmic.2013.07.002"&gt;&amp;#x27E8;10.1016/j.resmic.2013.07.002&amp;#x27E9;&lt;/a&gt;</idno>
            <idno type="halRef">Research in Microbiology, 2013, 164 (8), pp.838-847. &amp;#x27E8;10.1016/j.resmic.2013.07.002&amp;#x27E9;</idno>
            <availability status="restricted"/>
          </publicationStmt>
          <seriesStmt>
            <idno type="stamp" n="UGA">HAL Grenoble Alpes</idno>
            <idno type="stamp" n="CNRS">CNRS - Centre national de la recherche scientifique</idno>
            <idno type="stamp" n="INRIA">INRIA - Institut National de Recherche en Informatique et en Automatique</idno>
            <idno type="stamp" n="UNIV-GRENOBLE1">Université Joseph Fourier - Grenoble I</idno>
            <idno type="stamp" n="INRIA-RHA">INRIA Grenoble - Rhône-Alpes</idno>
            <idno type="stamp" n="INRIA_TEST">INRIA - Institut National de Recherche en Informatique et en Automatique</idno>
            <idno type="stamp" n="TESTALAIN1">TESTALAIN1</idno>
            <idno type="stamp" n="INRIA2">INRIA 2</idno>
            <idno type="stamp" n="INRIA-RENGRE">INRIA-RENGRE</idno>
            <idno type="stamp" n="TEST-UGA">TEST-UGA</idno>
          </seriesStmt>
          <notesStmt>
            <note type="audience" n="2">International</note>
            <note type="popular" n="0">No</note>
            <note type="peer" n="1">Yes</note>
          </notesStmt>
          <sourceDesc>
            <biblStruct>
              <analytic>
                <title xml:lang="en">Expression dynamics of RpoS/Crl-dependent genes in Escherichia coli</title>
                <author role="aut">
                  <persName>
                    <forename type="first">Omaya</forename>
                    <surname>Dudin</surname>
                  </persName>
                  <idno type="halauthorid">731025-0</idno>
                  <orgName ref="#struct-51016"/>
                  <affiliation ref="#struct-56309"/>
                  <affiliation ref="#struct-644"/>
                </author>
                <author role="crp">
                  <persName>
                    <forename type="first">Stéphan</forename>
                    <surname>Lacour</surname>
                  </persName>
                  <email type="md5">44016fba9ff65ba3bf24145f47b61b8a</email>
                  <email type="domain">ujf-grenoble.fr</email>
                  <idno type="idhal" notation="numeric">945085</idno>
                  <idno type="halauthorid" notation="string">731026-945085</idno>
                  <orgName ref="#struct-51016"/>
                  <affiliation ref="#struct-644"/>
                  <affiliation ref="#struct-56309"/>
                </author>
                <author role="aut">
                  <persName>
                    <forename type="first">Johannes</forename>
                    <surname>Geiselmann</surname>
                  </persName>
                  <email type="md5">145d455d459884c428471aff01bef48b</email>
                  <email type="domain">ujf-grenoble.fr</email>
                  <idno type="idhal" notation="numeric">838484</idno>
                  <idno type="halauthorid" notation="string">142940-838484</idno>
                  <orgName ref="#struct-51016"/>
                  <affiliation ref="#struct-644"/>
                  <affiliation ref="#struct-56309"/>
                </author>
              </analytic>
              <monogr>
                <idno type="halJournalId" status="VALID">8195</idno>
                <idno type="issn">0923-2508</idno>
                <idno type="eissn">0923-2508</idno>
                <title level="j">Research in Microbiology</title>
                <imprint>
                  <publisher>Elsevier</publisher>
                  <biblScope unit="volume">164</biblScope>
                  <biblScope unit="issue">8</biblScope>
                  <biblScope unit="pp">838-847</biblScope>
                  <date type="datePub">2013</date>
                </imprint>
              </monogr>
              <idno type="doi">10.1016/j.resmic.2013.07.002</idno>
              <idno type="pubmed">23867204</idno>
              <ref type="publisher">http://www.sciencedirect.com/science/article/pii/S0923250813001319</ref>
            </biblStruct>
          </sourceDesc>
          <profileDesc>
            <langUsage>
              <language ident="en">English</language>
            </langUsage>
            <textClass>
              <classCode scheme="halDomain" n="sdv.bibs">Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]</classCode>
              <classCode scheme="halDomain" n="info.info-bi">Computer Science [cs]/Bioinformatics [q-bio.QM]</classCode>
              <classCode scheme="halTypology" n="ART">Journal articles</classCode>
              <classCode scheme="halOldTypology" n="ART">Journal articles</classCode>
              <classCode scheme="halTreeTypology" n="ART">Journal articles</classCode>
            </textClass>
            <abstract xml:lang="en">
              <p>The alternative sigma factor RpoS is a central regulator of the stress response in many Proteobacteria, acting both during exponential growth and in stationary phase. The small protein Crl increases the interaction between RpoS and RNA polymerase and thereby activates certain RpoS-dependent promoters. However, the growth-phase dependence of the interaction of Crl with different forms of polymerase remains unknown. We use 41 GFP transcriptional fusions to study the dynamics of gene regulation by RpoS and Crl during growth transition from exponential to stationary phase in Escherichia coli. We confirm that RpoS can regulate gene expression in exponential phase, both positively and negatively. Crl slightly stimulates transcription by RpoS in exponential phase and controls a subset of RpoS-dependent genes in stationary phase. Growth temperature strongly affects induction of specific promoters by RpoS, whereas its impact on gene regulation by Crl is much less significant. In addition, we identify five new genes regulated by Crl (ada, cbpA, glgS, sodC and flgM) and demonstrate that Crl improves promoter binding and opening by RpoS-containing RNA polymerase at the hdeA promoter. Our study also shows that Crl is a cognate enhancer of RpoS activity under different growth conditions, since its deletion has no effect on genes transcribed by other sigma factors.</p>
            </abstract>
          </profileDesc>
        </biblFull>
      </listBibl>
    </body>
    <back>
      <listOrg type="structures">
        <org type="researchteam" xml:id="struct-56309" status="OLD">
          <idno type="RNSR">200919003W</idno>
          <orgName>Modeling, simulation, measurement, and control of bacterial regulatory networks</orgName>
          <orgName type="acronym">IBIS</orgName>
          <date type="start">2009-01-01</date>
          <date type="end">2021-10-31</date>
          <desc>
            <address>
              <addrLine>655 avenue de l'Europe, Montbonnot, 38334 Saint Ismier CEDEX, France</addrLine>
              <country key="FR"/>
            </address>
            <ref type="url">http://www.inria.fr/equipes/ibis</ref>
          </desc>
          <listRelation>
            <relation active="#struct-644" type="direct"/>
            <relation active="#struct-51016" type="indirect"/>
            <relation name="UMR5163" active="#struct-441569" type="indirect"/>
            <relation active="#struct-2497" type="direct"/>
            <relation active="#struct-300009" type="indirect"/>
            <relation active="#struct-301284" type="direct"/>
          </listRelation>
        </org>
        <org type="laboratory" xml:id="struct-644" status="OLD">
          <idno type="IdRef">184749549</idno>
          <idno type="ISNI">0000000403830747</idno>
          <idno type="RNSR">200311837H</idno>
          <orgName>Laboratoire Adaptation et pathogénie des micro-organismes [Grenoble]</orgName>
          <orgName type="acronym">LAPM</orgName>
          <date type="start">2003-01-01</date>
          <date type="end">2015-12-31</date>
          <desc>
            <address>
              <addrLine>Institut Jean Roget, Faculté de Médecine, BP 170, 38042 Grenoble cedex 09</addrLine>
              <country key="FR"/>
            </address>
            <ref type="url">http://merci-gscol1.ujf-grenoble.fr/</ref>
          </desc>
          <listRelation>
            <relation active="#struct-51016" type="direct"/>
            <relation name="UMR5163" active="#struct-441569" type="direct"/>
          </listRelation>
        </org>
        <org type="institution" xml:id="struct-51016" status="OLD">
          <idno type="IdRef">026404796</idno>
          <idno type="ROR">https://ror.org/02aj0kh94</idno>
          <orgName>Université Joseph Fourier - Grenoble 1</orgName>
          <orgName type="acronym">UJF</orgName>
          <date type="end">2015-12-31</date>
          <desc>
            <address>
              <addrLine>BP 53 - 38041 Grenoble Cedex 9</addrLine>
              <country key="FR"/>
            </address>
            <ref type="url">http://www.ujf-grenoble.fr/</ref>
          </desc>
        </org>
        <org type="regroupinstitution" xml:id="struct-441569" status="VALID">
          <idno type="IdRef">02636817X</idno>
          <idno type="ISNI">0000000122597504</idno>
          <idno type="ROR">https://ror.org/02feahw73</idno>
          <orgName>Centre National de la Recherche Scientifique</orgName>
          <orgName type="acronym">CNRS</orgName>
          <date type="start">1939-10-19</date>
          <desc>
            <address>
              <country key="FR"/>
            </address>
            <ref type="url">https://www.cnrs.fr/</ref>
          </desc>
        </org>
        <org type="laboratory" xml:id="struct-2497" status="VALID">
          <idno type="RNSR">199218244V</idno>
          <idno type="ROR">https://ror.org/00n8d6z93</idno>
          <orgName>Centre Inria de l'Université Grenoble Alpes</orgName>
          <desc>
            <address>
              <addrLine>Inovallée655 avenue de l'Europe38330 Montbonnot</addrLine>
              <country key="FR"/>
            </address>
            <ref type="url">http://www.inria.fr/centre/grenoble</ref>
          </desc>
          <listRelation>
            <relation active="#struct-300009" type="direct"/>
          </listRelation>
        </org>
        <org type="institution" xml:id="struct-300009" status="VALID">
          <idno type="ROR">https://ror.org/02kvxyf05</idno>
          <orgName>Institut National de Recherche en Informatique et en Automatique</orgName>
          <orgName type="acronym">Inria</orgName>
          <desc>
            <address>
              <addrLine>Domaine de VoluceauRocquencourt - BP 10578153 Le Chesnay Cedex</addrLine>
              <country key="FR"/>
            </address>
            <ref type="url">http://www.inria.fr/en/</ref>
          </desc>
        </org>
        <org type="institution" xml:id="struct-301284" status="VALID">
          <orgName>Institut Jean Roget</orgName>
          <desc>
            <address>
              <country key="FR"/>
            </address>
          </desc>
        </org>
      </listOrg>
    </back>
  </text>
</TEI>