Table 2.
Escherichia coli strains, plasmids and phages used in this study. The plasmids were derived by standard cloning procedures from vectors.
| E. coli strain, plasmid, or phage | description/genotype (insert size) | reference or source |
|---|---|---|
| strains | ||
| MC1061 | F− Δ(ara-leu)7697 [araD139]B/r Δ(codB-lacI)3 galK16 galE15 λ− e14− mcrA0 relA1 rpsL150(strR) spoT1 mcrB1 hsdR2(r−m+) | [38] |
| MC4100 | F− araD 139 Δ (argF-lac) U 169 ptsF25 deoCI selA1 fibB530 rpsL 150λ− | [39] |
| XL1-Blue MRF` | Δ(mcrA) 183 Δ(mcrCB-hsdSMR-mrr)173 endA1 supE44 thi-1 recA1 gyrA96 relA1 lac[F′proAB lacIqZΔM15 Tn10(Tetr)] | Stratagene, Amsterdam, The Netherlands |
| BL21(DE3)-CodonPlus-RIL | B F− ompT hsdS(rb− mB−) dcm+ Tetr gal λ (DE3) endA Hte [argU ileYleuW Cmr] | Statagene, Amsterdam, The Netherlands |
| LS4 | MC4100 λ RS_pRS551, carrying the promoter-less lacZ of pRS551 | this study |
| LS5 | MC4100 λ RS_P1625, carrying a chromosomal P1625–lacZ promoter fusion | this study |
| LS11 | MC4100 λ RS_P1455, carrying a chromosomal P1455–lacZ promoter fusion | this study |
| LS13 | MC4100 λ RS_P1624, carrying a chromosomal P1624–lacZ promoter fusion | this study |
| plasmids | ||
| pP1–P2a | AmpR, comprising complete intergenic region of cbdbA1624/1625 PCR-amplified with primer pair P1/P2 (269 bp) | this study |
| pP1–P3a | AmpR fragment of intergenic region of cbdbA1624/1625 PCR-amplified with primer pair P1/P3 (97 bp) | this study |
| pP4–P5a | AmpR fragment of intergenic region of cbdbA1624/1625 PCR-amplified with primer pair P4/P5 (106 bp) | this study |
| pIR-CBDBA84a | AmpR fragment of intergenic region of cbdbA83/84 PCR-amplified with primer pair CbdbA84-for/rev (350 bp) | this study |
| pIR-CBDBA1453a | AmpR fragment of intergenic region of cbdbA1454/1453 PCR-amplified with primer pair CbdbA1453-for/rev (475 bp) | this study |
| pCBDBA1625-IBA5b | AmpR, CmR, PCR-amplified cbdbA1625 cloned into BsaI site of pASK-IBA5 (482 bp) | this study |
| pCBDBA1625-IBA3b | AmpR, CmR, PCR-amplified cbdbA1625 cloned into BsaI site of pASK-IBA3 (485 bp) | this study |
| pRS551_P1624::lacZc | KanR, complete cbdbA1625–cbdbA1624 intergenic region (247 bp), cbdbA1624–lacZ promoter fusion | this study |
| pRS551_P1625::lacZc | KanR cbdbA1624–cbdbA1625 intergenic region, truncated 5′ by 14 bp (233 bp), cbdbA1625–lacZ promoter fusion | this study |
| pRS551_P1455::lacZc | KanR complete cbdbA1456–cbdbA1455 intergenic region (251 bp), cbdbA1455–lacZ promoter fusion | this study |
| pBAD1625d | AmpR, marR gene cbdbA1625 cloned into EcoRI/ HindIII restriction sites in front of arabinose inducible pBAD promoter | this study |
| phages | ||
| λ RS_lacZe | λ RS45 (lacZ) | this study |
| λ RS_P1624e | λ RS45 (P1624::lacZ), cbdbA1624–lacZ promoter fusion | this study |
| λ RS_P1625e | λ RS45 (P1625::lacZ), cbdbA1625–lacZ promoter fusion | this study |
| λ RS_P1455e | λ RS45 (P1455::lacZ), cbdbA1455–lacZ promoter fusion | this study |
The plasmids were derived by standard cloning procedures from vectors apGEM T-Easy (Promega), b661 pASK-IBA 3 and 5, respectively (IBA), cpRS551 [40] and dpBAD30 [41].
eThe phage variants were obtained by homologous recombination using λ RS45 [40].