Table 1 Bacterial strains and plasmids

C-1a

E. coli C, prototrophic

[40]

C-5691

Δpnp-751

[41]

C-5928

ΔbcsA::cat

by P1 HTF AM72 transduction into C-1a

C-5929

Δpnp-751 ΔbcsA::cat

by P1 HTF AM72 transduction into C-5691

C-5930

ΔcsgA::cat

by P1 HTF AM70 transduction into C-1a

C-5931

Δpnp-751 ΔcsgA::cat

by P1 HTF AM70 transduction into C-5691

C-5932

ΔpgaA::cat

by P1 HTF AM56 transduction into C-1a

C-5933

Δpnp-751 ΔpgaA::cat

by P1 HTF AM56 transduction into C-5691

C-5934

ΔwcaD::tet

by P1 HTF AM105 transduction into C-1a

C-5935

Δpnp-751 ΔwcaD::tet

by P1 HTF AM105 transduction into C-5691

C-5936

ΔpgaC::kan

by P1 HTF JW1007 transduction into C-1a

C-5937

Δpnp-751 ΔpgaC::kan

by P1 HTF JW1007 transduction into C-5691

C-5938

ΔcsrA::kan

From C-1a by λ Red-mediated recombination; primers: FG2624 and FG2625

C-5940

ΔcsrB::kan

From C-1a by λ Red-mediated recombination; primers: FG2524 and FG2525

C-5942

Δpnp-751 ΔcsrB::kan

From C-5691 by λ Red-mediated recombination; primers: FG2524 and FG2525.

C-5944

ΔcsrC::cat

From C-1a by λ Red-mediated recombination; primers: FG2585 and FG2586.

C-5946

Δpnp-751 ΔcsrC::cat

From C-5691 by λ Red-mediated recombination; primers: FG2585 and FG2586.

C-5948

ΔcsrB::kan ΔcsrC::cat

by P1 HTF C-5940 transduction into C-5944

C-5950

Δpnp-751 ΔcsrB::kan ΔcsrC::cat

by P1 HTF C-5940 transduction into C-5946

C-5952

ΔcsrD::cat

From C-1a by λ Red-mediated recombination; primers: PL674 and PL675.

C-5954

Δpnp-751 ΔcsrD::cat

From C-5691 by λ Red-mediated recombination; primers: PL674 and PL675.

C-5960

ΔmcaS::kan

From C-1a by λ Red-mediated recombination; primers: FG2755 and FG2756.

C-5962

Δpnp-751 ΔmcaS::kan

From C-5691 by λ Red-mediated recombination; primers: FG2755 and FG2756.

JW1007

BW25113 ΔpgaC::kan

[68]

AM56

MG1655 ΔpgaA::cat

[69]

AM70

MG1655 ΔcsgA::cat

[69]

AM72

MG1655 ΔbcsA::cat

[69]

AM105

MG1655 ΔwcaD::tet

From MG1655 by λ Red-mediated recombination with a DNA fragment obtained by PCR of tet10 cassette of EB 1.3 with primers PL372 and PL373.

EB 1.3

MG1655 rpoS::Tn10-tet

[33]

Plasmids and phage

Relevant characteristics

Reference

pBAD24

Amp^R, ColE1

[70]

pBAD24-Δ1

pBAD24 derivative with a modified polylinker; carries an unique Nco I site overlapping the araBp transcription start

this work

pBADpnp

pBAD24 derivative; harbours an EcoRI-HindIII fragment of pEJ01 that carries the pnp gene

this work

pBADrnb

pBAD24 derivative; harbours an HindIII-XbaI fragment of pFCT6.9 that carries the rnb gene

this work

pBADrnr

pBAD24-Δ1 derivative; harbours the rnr gene (obtained by PCR on MG1655 DNA with FG2474-FG2475 oligonucleotides) between NcoI-HindIII sites

this work

pΔLpga

pJAMA8 derivative, harbours the -116 to +32 region relative to the pgaABCD transcription start site cloned into the SphI/XbaI sites

this work

pEJ01

carries a His-tagged pnp allele

[71]

pFCT6.9

carries a His-tagged rnb allele

[72]; received from Cecilia Arraiano

pGZ119HE

ori V_ColD; Cam^R

[73]

pJAMA8

Amp^R, ColE1; luxAB based promoter-probe vector.

[37]

pLpga1

pJAMA8 derivative, harbours the -116 to +234 region relative to the pgaABCD transcription start site cloned into the SphI/XbaI sites.

this work

pLpga2

pJAMA8 derivative, harbours a translational fusion of pgaA promoter, regulatory region and first 5 codons of pgaA (-116 to +249 relative to transcription start site) with luxA ORF (Open Reading Frame).

this work

pTLUX

pJAMA8 derivative, harbours ptac promoter of pGZ119HE cloned into the SphI/XbaI sites.

this work

P1 HTF

High transduction frequency phage P1 derivative

[74]; received from Richard Calendar