Table 1.
Strains and plasmids used in this study
| Strains or plasmids | Genotype*/Description | Reference |
|---|---|---|
| V. cholerae strains | ||
| A1552 | Wild-type, O1 El Tor Inaba, RifR | [52] |
| A1552-LacZ-Kan | A1552 strain with aph cassette in lacZ gene; RifR, KanR | [53,54] |
| A1552-TntfoX | A1552 containing mini-Tn7-araC-PBAD-tfoX; RifR, GentR | [10] |
| ΔhapR | A1552ΔVC0583, RifR | [4] |
| ΔhapR-TntfoX | A1552ΔhapR containing mini-Tn7-araC-PBAD-tfoX; RifR, GentR | [10] |
| ΔcomEA | A1552ΔVC1917 (=A1552VC1917 in (Ref)), RifR | [4] |
| ΔcomEA-TntfoX | A1552ΔcomEA containing mini-Tn7-araC-PBAD-tfoX; RifR, GentR | [22] |
| ΔqstR | A1552ΔVC0396, RifR | [22] |
| ΔqstR-TntfoX | A1552ΔqstR containing mini-Tn7-araC-PBAD-tfoX; RifR, GentR | [22] |
| ΔCRP-S | CRP-S site upstream of comEA deleted in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| CRP-S_inv | CRP-S site upstream of comEA inverted in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| CRP-N | CRP-S site upstream of comEA changed for a CRP-N site (see scheme in Figure 4) in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| [frdA] site | CRP-S site upstream of comEA changed for the in silico predicted CRP-N site preceding the frdA gene in strain A1552-TntfoX (see scheme in Figure 4) using the TransFLP method; RifR, GentR | This study |
| CRP-0 | CRP-S site upstream of comEA changed in the 3′ conserved region (see scheme in Figure 4) in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| WT_qstR (FRT control) | Extended TransFLP scar [53,55] added upstream of qstR without changing the CRP-S site (control) in strain A1552-TntfoX; RifR, GentR | This study |
| ΔHapR-site_qstR | HapR-binding site determined in vitro [22] deleted from strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| ΔCRP-S_qstR | CRP-S site upstream of qstR deleted in strain A1552-TntfoX (see scheme in Figure 4) using the TransFLP method; RifR, GentR | This study |
| [frdA] site_qstR | CRP-S site upstream of qstR changed for the in silico predicted CRP-N site preceding the frdA gene (see scheme in Figure 4) in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| CRP-0_qstR | CRP-S site upstream of qstR changed in the 3′ conserved region (see scheme in Figure 4) in strain A1552-TntfoX using the TransFLP method; RifR, GentR | This study |
| Plasmids | ||
| pBR322 | AmpR, TcR | [56] |
| pBAD/Myc-HisA | pBR322-derived expression vector; araBAD promoter (PBAD); AmpR | Invitrogen |
| p_qstR | qstR gene cloned into pBAD/Myc-HisA; arabinose inducible; AmpR | [22] |
| pUX-BF13 | oriR6K, helper plasmid with Tn7 transposition function; AmpR | [57] |
| pGP704::Tn7 | pGP704 with mini-Tn7 | [58] |
| pGP704-mTn7-araC-tfoX | pGP704 with mini-Tn7 carrying araC and PBAD-driven tfoX; AmpR | [10] |
| pBR-Tet_MCSI | pBR322 derivative deleted for Tet promoter and part of tet R gene; new MCS included; AmpR | [10] |
| pBR-Tet_MCSII | pBR322 derivative deleted for Tet promoter and part of tet R gene; new MCS included; AmpR | [22] |
| pBR-[own]comEA | comEA gene preceded by 900 bp of upstream region cloned into pBR-Tet_MCSII; AmpR | [22] |
| pBR-[−700]comEA | comEA gene preceded by 700 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; AmpR | This study |
| pBR-[−500]comEA | comEA gene preceded by 500 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; AmpR | This study |
| pBR-[−300]comEA | comEA gene preceded by 300 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; AmpR | This study |
| pBR-[−134]comEA | comEA gene preceded by 134 bp of upstream region cloned into NotI site of pBR-Tet_MCSII; AmpR | This study |
| pBR-[−100]comEA | comEA gene preceded by 100 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; AmpR | This study |
| pBR-[−40]comEA | comEA gene preceded by 40 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; AmpR | This study |
*VC numbers according to [59].