V. Bibliographie

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ANNEXE 1

<table><thead><tr><th>Nom de l'amorce</th><th>Séquence 5' -> 3'</th><th>Utilisation(s)</th></tr></thead><tbody><tr><td>mcaS_Fwd</td><td>TATCTCGAGTTCATGTTACATCCTCCCGC</td><td>pTOPO McaS et mcaS::GFP</td></tr><tr><td>mcaS_Prom</td><td>TATGAATTCGCGCCGGTGACTGTGTTATA</td><td>mcaS::GFP</td></tr><tr><td>mcsA_Rev</td><td>CGGCTATCTGCAAAGTTAAAAC</td><td>pTOPO McaS et mcaS::GFP</td></tr><tr><td>omrA_Fwd</td><td>TATCTCGAGGCCGGTCATCAATCTGTAAC</td><td>omrA::GFP</td></tr><tr><td>omrA_Prom</td><td>TATGAATTCCTCTGGGATCTTGATTGTG</td><td>omrA::GFP</td></tr><tr><td>omrB_Fwd</td><td>TATCTCGAGTCAGTGTTCGGGAAACGCC</td><td>omrB::GFP</td></tr><tr><td>omrB_Prom</td><td>TATGAATTCCTCTGGGATCACCACTTTA</td><td>omrB::GFP</td></tr><tr><td>rprA_Fwd</td><td>TATCTCGAGAATTTCTCATCAGGCGGCTC</td><td>rprA::GFP</td></tr><tr><td>rprA_Prom</td><td>TATGAATTCCCGTGAGCTAATAGTAGGCATAC</td><td>rprA::GFP</td></tr><tr><td>gcvB_Fwd</td><td>TATCTCGAGTGAAACTTAAATGGCGTGC</td><td>pTOPO GcvB et gcvB::GFP</td></tr><tr><td>gcvB_Prom</td><td>TATGAATTCGCCGCCACTATAGGTATTTG</td><td>gcvB::GFP</td></tr><tr><td>gcvB_Rev</td><td>CGTGAAAGAGATGGTCGAAC</td><td>pTOPO GcvB</td></tr><tr><td>arcZ_Fwd</td><td>TATCTCGAGCAACACCGCTTCATGAATTT</td><td>pTOPO ArcZ et arcZ::GFP</td></tr><tr><td>arcZ_Rev</td><td>TAGAAGTGCTGAAAGCGTGG</td><td>pTOPO ArcZ</td></tr><tr><td>arcZ_Prom</td><td>TATGAATTCGCCGCACGCAGTTAAGATAG</td><td>arcZ::GFP</td></tr><tr><td>rybB_Fwd</td><td>TATCTCGAGATACAGCTCGCAGTAACATC</td><td>rybB::GFP</td></tr><tr><td>rybB_Prom</td><td>TATGAATTCTCAAAGAAAAGCAGTGGCAC</td><td>rybB::GFP</td></tr><tr><td>MicC_Fwd</td><td>TATCTCGAGGCCTTTTATCCCCATTTCGG</td><td>micC::GFP</td></tr><tr><td>MicC_Prom</td><td>TATGAATTCCCCGCGCAGAATAACGTATAG</td><td>micC::GFP</td></tr><tr><td>X5Tpke11</td><td>AAACTGCTCGAGAAGGTGAAGAC</td><td>tpke11::GFP et pTOPO tpke11</td></tr><tr><td>E3_Tpke11</td><td>ATCTCGAATTCATCTTGCTTAGCC</td><td>pTOPO tpke11</td></tr><tr><td>E3p_Tpke11</td><td>TCAGTAGAATTCCCCGTTTATAGGGC</td><td>tpke11::GFP</td></tr><tr><td>X5_C0465</td><td>GCTGAACGACTCGAGTTAATGC</td><td>C0465::GFP et pTOPO C0465</td></tr><tr><td>E3_C0465</td><td>AAGAGAATTCGCTGTTAGATAGC</td><td>pTOPO C0465</td></tr><tr><td>E3p_C0465</td><td>GCATCAGCAATAAGAATTCCC</td><td>C0465::GFP</td></tr><tr><td>X5p_IG1105</td><td>GCGGCCTCGAGTAATTTTCGAGTTGTTAAA</td><td>IG1105::GFP</td></tr><tr><td></td><td>GCTACGATAAATATTATGTTTTTACGAATT</td><td></td></tr><tr><td></td><td>CAGGATG</td><td></td></tr><tr><td>E3P_IG1105</td><td>GATCCTGAATTCGTAAAAACATAATATTTA</td><td>IG1105::GFP</td></tr><tr><td></td><td>TCGTAGCTTTAACAACTCGAAATTACTCGA</td><td></td></tr><tr><td></td><td>GGCCGC</td><td></td></tr><tr><td>E3_IG1105</td><td>CACGATGAATTCATAGTTTCT</td><td>pTOPO IG1105</td></tr><tr><td>X5_IG1027</td><td>AACATGCTCGAGGATATTGCAGC</td><td>IG1027::GFP et pTOPO IG1027</td></tr><tr><td>E3_IG1027</td><td>GTAAGAATTCAGAACACCATTAAC</td><td>IG1027::GFP et pTOPO IG1027</td></tr><tr><td>X5_dsrA</td><td>AGTACTCGAGTTACCAGGATGATTC</td><td>dsrA::GFP</td></tr><tr><td>E3_dsrA</td><td>ACACCAGGAATTCTGATGTGTTCATCACC</td><td>dsrA::GFP</td></tr><tr><td>csgB_5IG_X</td><td>GACTTCATTCTCGAGGATGAAACCCCGC</td><td>csgB::GFP TXN</td></tr><tr><td>ceg_E3p_csgB</td><td>ATTTGGAATTCATGTTGTCACCCTGGAC</td><td>csgB::GFP TXN</td></tr><tr><td>csgD_5IG_X</td><td>ATTTGTTCTCGAGGTTGTCACCCTGGAC</td><td>csgD::GFP (fwd)</td></tr><tr><td>Ju_E3_csgD</td><td>GACCATGAATTCTATGGACTTCATTAAAC</td><td>csgD IG::GFP (rev)</td></tr><tr><td>E3-PcsgD</td><td>TTTGAATTCGATTACATCTGATTTCAATC</td><td>csgD::GFP TXN (rev)</td></tr><tr><td>csgD_TRAD</td><td>ATGCGCATGCGGTAACCCCGCTTTTTTTAT</td><td>csgD::GFP TRAD UTR+ (rev)</td></tr><tr><td></td><td>TGATCGC</td><td></td></tr></tbody></table>
<table>
  <tr>
    <td>csgD_TRAD_UTR-</td>
    <td>ATGCGCATGCGGTAACCCCGCTTTTTTTAT<br>TGATCGCGATTACATCTGATTTCAATC</td>
    <td>csgD::GFP TRAD dUTR (rev)</td>
  </tr>
  <tr>
    <td>ryeB_X_fwd</td>
    <td>ATGCCTCGAGTTGATGATCCTAACAATCCC</td>
    <td>ryeB::GFP</td>
  </tr>
  <tr>
    <td>ryeB_EProm</td>
    <td>ATGCGAATTCCATCAGCTGAAATGTTAAAA<br>ACCGC</td>
    <td>ryeB::GFP</td>
  </tr>
  <tr>
    <td>ibsC_X_fwd</td>
    <td>ATGCCTCGAGCTTCTCCACACCGTTGCCGC</td>
    <td>ibsC::GFP</td>
  </tr>
  <tr>
    <td>ibsC_EProm</td>
    <td>ATGCGAATTCCCTTCGGTGAGGGCTTTACCG</td>
    <td>ibsC::GFP</td>
  </tr>
  <tr>
    <td>Xhol_fwd_ryeA</td>
    <td>AAACTCGAGTTGCGGCGCAACTGCTCAAG<br>ACAACC</td>
    <td>ryeA::GFP et pTOPO RyeA</td>
  </tr>
  <tr>
    <td>EcoRIProm_ryeA</td>
    <td>AAAGAATTCCTGACTTTATAGTCAACCATA<br>ACAC</td>
    <td>ryeA::GFP</td>
  </tr>
  <tr>
    <td>ryeA_rev</td>
    <td>TACCTAAAATAGCCTTTTGATTTCC</td>
    <td>pTOPO RyeA</td>
  </tr>
  <tr>
    <td>Xhol_fwd_sibC</td>
    <td>AAACTCGAGACCTTACAAAACTGGCAGCA<br>C</td>
    <td>sibC::GFP et pTOPO SibC</td>
  </tr>
  <tr>
    <td>EcoRIProm_sibC</td>
    <td>AAAGAATTCACCCTTACTCACTAAATTAGG<br>TC</td>
    <td>sibC::GFP</td>
  </tr>
  <tr>
    <td>sibC_rev</td>
    <td>AGGGCAGCATGGGGCTGTAACG</td>
    <td>pTOPO SibC</td>
  </tr>
  <tr>
    <td>gcvB_KO_fwd</td>
    <td>TGAGCTTCTACCAGCAAATACCTATAGTGG<br>ATTCCGGGGATCCGTCGACC</td>
    <td>mutant gcvB::Kn</td>
  </tr>
  <tr>
    <td>gcvB_KO_rev</td>
    <td>GCTACATTAATCACTATGGACAGACAGGG<br>TTGTAGGCTGGAGCTGCTTCG</td>
    <td>mutant gcvB::Kn</td>
  </tr>
  <tr>
    <td>mcaS_KO_fwd</td>
    <td>GTCACTGAAGAAAATTGGCAACTAAAGGT<br>TATTCCGGGGATCCGTCGACC</td>
    <td>mutant mcaS::Kn</td>
  </tr>
  <tr>
    <td>mcaS_KO_rev</td>
    <td>CTGTCGACATCCGCCAGACTCTACAGTACA<br>TGTAGGCTGGAGCTGCTTCG</td>
    <td>mutant mcaS::Kn</td>
  </tr>
  <tr>
    <td>[btn]-ARNcsgD</td>
    <td>[btn]TACTGACAGATGTTGCACTGCTGTGT<br>GTAG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]mcaS</td>
    <td>[btn]CCGCCAGACTCTACAGTACACAC</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]ryeB</td>
    <td>[btn]CCTTGCCCTTTAAGAATAGATGACG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]ibsC</td>
    <td>[btn]GAGTAACAGTACAATCAGTATGATG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]omrA</td>
    <td>[btn]TTGGTGCAAGAGACAGGGTACGAAG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]sibC</td>
    <td>[btn]CATCATACTGATTGTACTGTTACTC</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]ryeA</td>
    <td>[btn]AGAGCCATTTCCCTGGACCGAATAC</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]C5221</td>
    <td>[btn]AAGTGTAGCGAATGCCATCATTGCC</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn] MicC</td>
    <td>[btn]AAATCAGTGGCAATGCAATGGCCCA</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]RprA</td>
    <td>[btn]GATTTCCATGCTTATAAATCAATAT</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>[btn]DsrA</td>
    <td>[btn]GCACTTAAAAAATTCGTTACACCAGG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>5BIO-5S probe</td>
    <td>[btn]CGGCGCTACGGCGTTTCACTTCTG</td>
    <td>Northern Blot</td>
  </tr>
  <tr>
    <td>ecs066-f</td>
    <td>TAGGGAGTTGGAGTAAAACG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ecs066-r</td>
    <td>AGAACGAGTAAAAGGTCGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryhB-f</td>
    <td>TTCAAATGCGAGTCAAATGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryhB-r</td>
    <td>GATCAAAAAAAAAAGCCAGCAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>isrC-f</td>
    <td>CTGACTCTGAGTCTGCTCAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>isrC-r</td>
    <td>GTCGTTTCATCAGCTTTTCC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rdlc-f</td>
    <td>CAGGTCGTGCCAGAAAATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rdlc-r</td>
    <td>CATTGGTTGCTGGAAAGAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0614-f</td>
    <td>GTAATATCTTTTACCGGTTAG</td>
    <td>amplicon puce</td>
  </tr>
</table>
<table>
  <tr>
    <td>C0614-r</td>
    <td>TTGACTTGTGTTACATGAGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0343-f</td>
    <td>TAAGAGTCCACCCAATGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0343-r</td>
    <td>CTCACGATGCGACAATTTAATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0224-f</td>
    <td>GAAATCGTACAGTAAAAAGCG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0224-r</td>
    <td>CGGTGTTTCTCCAGATGTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ECS074-f</td>
    <td>ATTTCGGTTTTACTGTGTGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ECS074-r</td>
    <td>TCCCACTACCTCAAAACATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0042-f</td>
    <td>CTGCGCTGTAAAGATTTTC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0042-r</td>
    <td>AGGGAGTATCAGTTTTCATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>NC017-f</td>
    <td>GTGTTTTCATAAAAAACCTCTTTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>NC017-r</td>
    <td>GGTGTATGTCACGTATTTTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>oxyS-f</td>
    <td>ACGATAGTTCATGGCGATAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>oxyS-r</td>
    <td>GCAAAAAAAAGCGGATCCTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>IO41-f</td>
    <td>GAAATCATGAAGATTCACGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>IO41-r</td>
    <td>TGCGAAACATTCGAGGAAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybC-r</td>
    <td>TGTTGCGCTAAAAAAATGGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybC-f</td>
    <td>AAGCAAGCATACGCCTGATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA-f</td>
    <td>AAAAAATCGTCTGAGATGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA-r</td>
    <td>TGCTGGAAGATGAACAAAAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>5S fwd</td>
    <td>TTGCCTGGCGGCAGTAGCGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rev 5S</td>
    <td>CTGGCAGTTCCTACTCTCGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>arcZ_puce_rev</td>
    <td>AAAAAATGACCCCGGCTAGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>arcZ_puce_fwd</td>
    <td>GTGCGGCCTGAAAAACAGTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>gcvB_puce_fwd</td>
    <td>CAAATACCTATAGTGGCGGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>gcvB_puce_rev</td>
    <td>AAGGTAAAAAAAAGCACCGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>5s rev DB</td>
    <td>AGATAAAACGAAAGGCCCA</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>5S fwd DB</td>
    <td>ATTAAATCAGAACGCAGAAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybB_puce_fwd</td>
    <td>CACTGCTTTTCTTTGATGTC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybB_puce_rev</td>
    <td>CAAAAAACCCATCAACCTTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>dsrA_puce_fwd</td>
    <td>ACACATCAGATTTCCTGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>dsrA_puce_rev</td>
    <td>AAAAATCCCGACCCTGAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rprA_puce_fwd</td>
    <td>GCTCACGGTTATAAATCAAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rprA_puce_rev</td>
    <td>AAAAAAAGCCCATCGTGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>omrAB_puce_fwd</td>
    <td>CCAGAGGTATTGATTGGTGA</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>omrAB_puce_rev</td>
    <td>CGAAAAAAAACCTGCGCATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>sibC_puce_fwd</td>
    <td>TAAGGGTAAGGGAGGATTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryeAB_puce_fwd</td>
    <td>TAAAGTCAGCGAAGGAAATGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>micC_puce_fwd</td>
    <td>TTCTGCGCGGGTTATATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>micC_puce_rev</td>
    <td>TCTAAAAAAAAGCCCGGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>omrA DB f</td>
    <td>CGTCAGACCACAATCAAGA</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>omrA DB r</td>
    <td>GAGCGACAGTAAATTAGGTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>micC DB f</td>
    <td>CTATACGTTATTCTGCGCGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>micC DB r</td>
    <td>CTCTGGATAAGGATTATCCAAT</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rprA DB f</td>
    <td>TGATCGACGCAAAAAGTCC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rprA DB r</td>
    <td>GTAGCGAAGCGGAAAAATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>gcvB DB f</td>
    <td>GAGCTTCTACCAGCAAATAC</td>
    <td>amplicon puce</td>
  </tr>
</table>
<table>
  <tr>
    <td>gcvB DB r</td>
    <td>GATCGCAAGGTAAAAAAAAGCACC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA DB f</td>
    <td>CGGTGACATACAATTAAAGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA DB r</td>
    <td>GCTGGAAGATGAACAAAAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ecs066-f</td>
    <td>TAGGGAGTTGGAGTAAAACG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ecs066-r</td>
    <td>AGAACGAGTAAAAGGTCGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryhB-f</td>
    <td>TTCAAATGCGAGTCAAATGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryhB-r</td>
    <td>GATCAAAAAAAAAGCCAGCAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>isrC-f</td>
    <td>CTGACTCTGAGTCTGCTCAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>isrC-r</td>
    <td>GTCGTTTCATCAGCTTTTCC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rdIc-f</td>
    <td>CAGGTCGTGCCAGAAAATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rdIc-r</td>
    <td>CATTGGTTGCTGGAAAGAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0614-f</td>
    <td>GTAATATCTTTTACCGGTTAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0614-r</td>
    <td>TTGACTTGTGTTACATGAGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0343-f</td>
    <td>TAAGAGTCCACCCAATGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0343-r</td>
    <td>CTCACGATGCGACAATTTAATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0224-f</td>
    <td>GAAATCGTACAGTAAAAAGCG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0224-r</td>
    <td>CGGTGTTTCTCCAGATGTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ECS074-f</td>
    <td>ATTTCGGTTTTACTGTGTGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ECS074-r</td>
    <td>TCCCACTACCTCAAAACATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0042-f</td>
    <td>CTGCGCTGTAAAGATTTTC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>C0042-r</td>
    <td>AGGGAGTATCAGTTTTCATC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>NC017-f</td>
    <td>GTGTTTTCATAAAAACCTCTTTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>NC017-r</td>
    <td>GGTGTATGTCACGTATTTTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>oxyS-f</td>
    <td>ACGATAGTTCATGGCGATAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>oxyS-r</td>
    <td>GCAAAAAAAAGCGGATCCTG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>IO41-f</td>
    <td>GAAATCATGAAGATTCACGG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>IO41-r</td>
    <td>TGCGAAACATTCGAGGAAG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybC-r</td>
    <td>TGTTGCGCTAAAAAAAATGGC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>rybC-f</td>
    <td>AAGCAAGCATACGCCTGATG</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA-f</td>
    <td>AAAAAATCGTCTGAGATGAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>ryjA-r</td>
    <td>TGCTGGAAGATGAACAAAAC</td>
    <td>amplicon puce</td>
  </tr>
  <tr>
    <td>PUCE_McaS</td>
    <td>CTGTGTGTACTGTAGAGTCTGGCGGATGT</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_omrA</td>
    <td>GGTACGCTCTTCGTACCCTGTCTCTTGC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_omrB</td>
    <td>GGGTTGAGCACATGAATTACACCAGCCTG</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_rprA</td>
    <td>AGTGAAACAACGAATTGCTGTGTGTAGTC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_gcvB</td>
    <td>ATGGTAGCAAAGCTACCTTTTTTCACTTCC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_dsrA</td>
    <td>GCTTCTTGCTTAAGCAAGTTTCATCCCGAC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_arcZ</td>
    <td>AACTCATCATAATAATTTACGGCGCAGCCA</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_rybB</td>
    <td>TTTGATGTCCCCATTTTGTGGAGCCCATC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_5S</td>
    <td>CCCACCTGACCCCATGCCGAACTCAGAA</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>PUCE_MicC</td>
    <td>GGCCATTGCATTGCCACTGATTTTCCAAC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>5S 70mer</td>
    <td>GGCGCTACGGCGTTTCACTTCTGAGTTCGG</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td>16S-70mer(rrnB)</td>
    <td>CATGGGGTCAGGTGGGACCACCGCGCTAC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td></td>
    <td>TGCCGCCAGGC</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td></td>
    <td>GCTAGTAGGTGGGGTAACGGCTCACCTAG</td>
    <td>oligo puce</td>
  </tr>
  <tr>
    <td></td>
    <td>GCGACGATCCCTAGCTGGTCTGAGAGGAT</td>
    <td>oligo puce</td>
  </tr>
</table>
GACCAGCCACAC

<table><tr><td>5S-70mer(rrfB)</td><td>CGGTGGTCCCACCTGACCCCATGCCGAACT CAGAAGTGAAACGCCGTAGCGCCGATGGT AGTGTGGGGTC</td><td>oligo puce</td></tr><tr><td>rpoS-70mer</td><td>AGCAGAGCATCGTCAAATGGCTGTTCGAG CTGAACGCCAAACAGCGTGAAGTGCTGGC ACGTCGATTCGG</td><td>oligo puce</td></tr><tr><td>ryeA-70mer</td><td>GCAGGCTTAGTTGCCTTGCCCTTTAAGAAT AGATGACGACGCCAGGTTTTCCAGTTTGC GTGCAAAATGG</td><td>oligo puce</td></tr><tr><td>dsrA-full</td><td>CGCTTTTTATTGACCATTTTGCACGCAAACT GGAAAACCTGGCGTCGTCATCTATTCTTAA AGGGCAAGG</td><td>oligo puce</td></tr><tr><td>gcvB_70mer</td><td>TGCGTGTCTGGTGAACTTTTGGCTTACGG TTGTGATGTTGTGTTGTTGTGTTTGCAATT GGTCTGCGAT</td><td>oligo puce</td></tr></table>
Résumé

Les bactéries ont la capacité de s'adapter à leur environnement par une régulation fine de leur expression génique. Cette régulation génique s'opère par les facteurs sigma, sous-unités de l'ARN polymérase permettant la discrimination des promoteurs, et de l'aide éventuelle de cofacteurs pour permettre la transcription de sets de gènes spécifiques aux besoins de la bactérie. Les bactéries contrôlent également l'accumulation de leurs protéines, au niveau post-transcriptionnel, à l'aide notamment d'ARNnc permettant de moduler la traduction d'ARNm ciblés, par l'appariement : ARNm-ARNnc. Nous avons montré, grâce aux données obtenues en RNA-seq, ChIP-seq, Northern Blot et de fusions reportrices, que le facteur sigma RpoS induit ou module la transcription de ces ARNnc. Nous avons notamment observé que le facteur sigma RpoS est réprime (indirectement) la transcription de nombreux ARNnc et induisait celle d'au moins un ARNnc. Afin d'étudier un exemple de conséquences de la régulation transcriptionnelle d'ARNnc par RpoS, nous avons choisi d'étudier la régulation de l'expression des curli, appendices extracellulaires impliqués dans l'adhérence et la formation de biofilm. Nous avons observé que l'expression des gènes csg est régulée à la fois transcriptionnellement et traductionellement par le facteur sigma RpoS et les ARNnc. Nous avons également pu observer une thermorégulation de l'expression des gènes structuraux des curli qui pourrait impliquer ces deux types de régulateurs.

Mots clés : RpoS, ARNnc, Curli, Expression génique, RNA-seq, ChIP-seq.