TABLE 2.
Plasmids and their relevant features
Plasmids that were used or constructed are listed with their name, relevant features, and source or construction. For plasmids that were constructed by cloning of PCR fragments, the primers used for amplification of the fragment and the cloning vector are given. The PCR fragments were amplified from plasmids carrying the wild-type gene or from the E. coli K12 genome. Mutagenesis of rcsB was conducted by fusion PCR using oligonucleotide primers (listed in Table 3) that carry the specific mutation and flanking primers T106 and T358; the mutated nucleotides are indicated. Derivatives of plasmids pDP804 and pMS604 carry translational fusions of the indicated genes to lexA(1–87)WT and lexA(1–87)408, respectively.
| Plasmid | Features | Source/Construction |
|---|---|---|
| pCP20 | cI857 λ-PR flp pSC101 repts bla | Ref. 61 |
| pKD46 | araC Para γ-β-exo in pSC101 repts bla | Ref. 31 |
| pLDR8 | cI857 λ-PR int pSC101 repts neo | Ref. 29 |
| pKD3 | FRT cat FRT oriRγ bla | Ref. 31 |
| pKD13 | FRT neo FRT oriRγ bla | Ref. 31 |
| pKES263 | FRT neo FRT PL oriRγ bla in pKD13 | PCR T464/T465 from phage λ |
| pKES148 | MCS lacZ attP aadA p15A neo | Ref. 9 |
| pKES260 | Pwza lacZ attP aadA p15A neo | PCR T460/T461 in pKES148 |
| pKES299 | PrprA lacZ attP aadA p15A neo | PCR T563/T564 in pKES148 |
| pKES268 | PlacUV5 MCS lacZ attP aadA p15A neo | Ref. 18 |
| pKEDP49 | PmatA lacZ attP aadA p15A neo | PCR T908/T909 from CFT073 in pKES268 |
| pDP804 | PlacUV5 lexA(1–87)408-jun p15A bla | Ref. 40 |
| pKEAP28 | PlacUV5 lexA(1–87)408-rcsB in pDP804 | Ref. 9 |
| pKEAP29 | PlacUV5 lexA(1–87)408-bglJ in pDP804 | Ref. 9 |
| pKEDP58 | PlacUV5 lexA(1–87)408-dctR in pDP804 | PCR OA29/OA30 in pDP804 |
| pKEDP59 | PlacUV5 lexA(1–87)408-matA in pDP804 | PCR OA27/OA28 in pDP804 |
| pKEDP60 | PlacUV5 lexA(1–87)408-rcsA in pDP804 | PCR OA25/OA26 in pDP804 |
| pMS604 | PlacUV5 lexA(1–87)WT-fos ColE1 tet | Ref. 40 |
| pKEAP30 | PlacUV5 lexA(1–87)WT-bglJ | Ref. 9 |
| pKEMK17 | PlacUV5 lexA(1–87)WT-rcsB | Ref. 9 |
| pKES192 | PlacUV5 lexA(1–87)WT-rcsA | Ref. 9 |
| pKEAP27 | PlacUV5 lexA(1–87)WT-yjjQ | PCR S691/S692 in pMS604 |
| pKEMK1 | PlacUV5 lexA(1–87)WT-dctR | PCR S956/S957 in pMS604 |
| pKEMK2 | PlacUV5 lexA(1–87)WT-fimZ | PCR S960/S961 in pMS604 |
| pKEMK3 | PlacUV5 lexA(1–87)WT-malT | PCR S964/S965 in pMS604 |
| pKEMK4 | PlacUV5 lexA(1–87)WT-matA | PCR S966/S967 in pMS604 |
| pKEMK5 | PlacUV5 lexA(1–87)WT-narL | PCR S968/S969 in pMS604 |
| pKEMK6 | PlacUV5 lexA(1–87)WT-narP | PCR S970/S971 in pMS604 |
| pKEMK7 | PlacUV5 lexA(1–87)WT-sdiA | PCR S972/S973 in pMS604 |
| pKEMK8 | PlacUV5 lexA(1–87)WT-uhpA | PCR S974/S975 in pMS604 |
| pKEMK9 | PlacUV5 lexA(1–87)WT-uvrY | PCR S976/S977 in pMS604 |
| pKEMK10 | PlacUV5 lexA(1–87)WT-ygeK | PCR S978/S979 in pMS604 |
| pKEMK11 | PlacUV5 lexA(1–87)WT-yhjB | PCR S980/S981 in pMS604 |
| pKEMK12 | PlacUV5 lexA(1–87)WT-yahA | PCR S982/T10 in pMS604 |
| pKEMK15 | PlacUV5 lexA(1–87)WT-evgA | PCR S958/S959 in pMS604 |
| pKEMK16 | PlacUV5 lexA(1–87)WT-gadE | PCR S962/S963 in pMS604 |
| pKES177 | PlacUV5 lexA(1–87)WT-csgD | PCR S885/S886 in pMS604 |
| pBAD24 | araC PBAD pBR bla | Ref. 62 |
| pKEDP51 | araC PBAD matA | PCR T691/T692 in pBAD24 |
| pKEDP57 | araC PBAD dctR | PCR T694/T695 in pBAD24 |
| pKESK22 | lacIq Ptac p15A neo | Ref. 54 |
| pKETS6 | lacIq Ptac rcsB in pKESK22 | Ref. 9 |
| pKETS7 | lacIq Ptac rcsB-D56E (GAT → GAG) | Ref. 9 |
| pKES229 | lacIq Ptac rcsB-D66A (GAT → GCG) | This work |
| pKES230 | lacIq Ptac rcsB-H77A (CAT → GCG) | This work |
| pKES231 | lacIq Ptac rcsB-I14A (ATA → GCA) | This work |
| pKES232 | lacIq Ptac rcsB-M88A (ATG → GCG) | This work |
| pKES234 | lacIq Ptac rcsB-Y64A (TAC → GCC) | This work |
| pKES235 | lacIq Ptac rcsB-D56A (GAT → GCG) | This work |
| pKES271 | lacIq Ptac rcsB-D11A (GAC → GCC) | This work |
| pKES272 | lacIq Ptac rcsB-P60A (CCT → GCT) | This work |
| pKES273 | lacIq Ptac rcsB-G67A (GGC → GCC) | This work |
| pKES274 | lacIq Ptac rcsB-T87A (ACT → GCT) | This work |
| pKES275 | lacIq Ptac rcsB-K109A (AAA → GCA) | This work |
| pKES276 | lacIq Ptac rcsB-K180A (AAA → GCA) | This work |
| pKEDP47 | lacIq Ptac rcsB-D62G (GAT → GGT) | This work |
| pKESL111 | lacIq Ptac rcsB-L95A (CTT → GCT) | This work |
| pKESL112 | lacIq Ptac rcsB-L99A (TTG → GCG) | This work |
| pKESL113 | lacIq Ptac rcsB-D100A (GAT → GCT) | This work |
| pKESL114 | lacIq Ptac rcsB-E104A (GAA → GCA) | This work |
| pKESL115 | lacIq Ptac rcsB-I106A (ATC → GCC) | This work |
| pKESL116 | lacIq Ptac rcsB-L108A (CTG → GCG) | This work |
| pKESL117 | lacIq Ptac rcsB-T114A (ACC → GCC) | This work |
| pKESL118 | lacIq Ptac rcsB-K118A (AAA → GCA) | This work |
| pKESL119 | lacIq Ptac rcsB-S96A (AGT → GCT) | This work |
| pKESL120 | lacIq Ptac rcsB-D115A (GAT → GCT) | This work |