Table 1 Strains and plasmids used in this study

V. cholerae strains

A1552

Wild-type, O1 El Tor Inaba, Rif^R

[52]

A1552-LacZ-Kan

A1552 strain with aph cassette in lacZ gene; Rif^R, Kan^R

[53],[54]

A1552-TntfoX

A1552 containing mini-Tn7-araC-P _BAD -tfoX; Rif^R, Gent^R

[10]

ΔhapR

A1552ΔVC0583, Rif^R

[4]

ΔhapR-TntfoX

A1552ΔhapR containing mini-Tn7-araC-P _BAD -tfoX; Rif^R, Gent^R

[10]

ΔcomEA

A1552ΔVC1917 (=A1552VC1917 in (Ref)), Rif^R

[4]

ΔcomEA-TntfoX

A1552ΔcomEA containing mini-Tn7-araC-P _BAD -tfoX; Rif^R, Gent^R

[22]

ΔqstR

A1552ΔVC0396, Rif^R

[22]

ΔqstR-TntfoX

A1552ΔqstR containing mini-Tn7-araC-P _BAD -tfoX; Rif^R, Gent^R

[22]

ΔCRP-S

CRP-S site upstream of comEA deleted in strain A1552-TntfoX using the TransFLP method; Rif^R, Gent^R

This study

CRP-S_inv

CRP-S site upstream of comEA inverted in strain A1552-TntfoX using the TransFLP method; Rif^R, Gent^R

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; Rif^R, Gent^R

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; Rif^R, Gent^R

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; Rif^R, Gent^R

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; Rif^R, Gent^R

This study

ΔHapR-site_qstR

HapR-binding site determined in vitro[22] deleted from strain A1552-TntfoX using the TransFLP method; Rif^R, Gent^R

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; Rif^R, Gent^R

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; Rif^R, Gent^R

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; Rif^R, Gent^R

This study

Plasmids

pBR322

Amp^R, Tc^R

[56]

pBAD/Myc-HisA

pBR322-derived expression vector; araBAD promoter (P_BAD); Amp^R

Invitrogen

p_qstR

qstR gene cloned into pBAD/Myc-HisA; arabinose inducible; Amp^R

[22]

pUX-BF13

ori R6K, helper plasmid with Tn7 transposition function; Amp^R

[57]

pGP704::Tn7

pGP704 with mini-Tn7

[58]

pGP704-mTn7-araC-tfoX

pGP704 with mini-Tn7 carrying araC and P _BAD -driven tfoX; Amp^R

[10]

pBR-Tet_MCSI

pBR322 derivative deleted for Tet promoter and part of tet ^R gene; new MCS included; Amp^R

[10]

pBR-Tet_MCSII

pBR322 derivative deleted for Tet promoter and part of tet ^R gene; new MCS included; Amp^R

[22]

pBR-[own]comEA

comEA gene preceded by 900 bp of upstream region cloned into pBR-Tet_MCSII; Amp^R

[22]

pBR-[−700]comEA

comEA gene preceded by 700 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; Amp^R

This study

pBR-[−500]comEA

comEA gene preceded by 500 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; Amp^R

This study

pBR-[−300]comEA

comEA gene preceded by 300 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; Amp^R

This study

pBR-[−134]comEA

comEA gene preceded by 134 bp of upstream region cloned into Not I site of pBR-Tet_MCSII; Amp^R

This study

pBR-[−100]comEA

comEA gene preceded by 100 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; Amp^R

This study

pBR-[−40]comEA

comEA gene preceded by 40 bp of upstream region; plasmid generated by inverse PCR of pBR-[own]comEA; Amp^R

This study