TABLE 1.
Strains and plasmids used
| Strain or plasmid | Descriptiona | Mutation siteb | Source or reference |
|---|---|---|---|
| Strains | |||
| 14028 | Wild-type ATCC strain of S. enterica serovar Typhimurium | 42 | |
| QW184 | pwzawza::kan | −478∼1140 (1140) | This study |
| QW119 | igaA* | 571 A'C | This study |
| QW200 | igaA* pwzawza::kan | This study | |
| QW220 | igaA* pflhD(g8t) | −196 G'T | This study |
| QW221 | igaA* pflhD(a9c) | −195 A'C | This study |
| QW222 | igaA* pflhD(g8t, a9c) | −196 G'T, −195 A'C | This study |
| QW226 | igaA* pflhD(g8t, a9c, c15a) | −196 G'T, −195 A'C, −189 C'A | This study |
| QW227 | igaA* pflhD(c15a) | −189 C'A | This study |
| QW228 | igaA* pflhD(g8t) pwzawza::kan | This study | |
| QW229 | igaA* pflhD(a9c) pwzawza::kan | This study | |
| QW230 | igaA* pflhD(g8t, a9c) pwzawza::kan | This study | |
| QW231 | igaA* pflhD(g8t, a9c, c15a) pwzawza::kan | This study | |
| QW233 | igaA* pflhD(c15a) pwzawza::kan | This study | |
| QW327 | ΔrcsA | 99∼539 (624) | This study |
| QW434 | ΔrcsB | 33∼715 (651) | This study |
| QW398 | ΔrcsC | 1∼2847 (2847) | This study |
| QW459 | ΔrcsD | 7∼2322 (2670) | This study |
| QW329 | ΔrcsAB | This study | |
| QW436 | ΔrcsCD | This sutdy | |
| QW441 | igaA* ΔrcsA | This study | |
| QW442 | igaA* ΔrcsB | This study | |
| QW556 | igaA* ΔRA(1-48) | See Fig. 3 | This study |
| TH341 | F::Tn10dCm | K. Hughes | |
| TH338 | F::Tn10dTc | K. Hughes | |
| TH1793 | dam::Tn10dTc | K. Hughes | |
| QW215 | flhDC::tetRA | −243 of flhD(351)∼579 of flhC(579) | This study |
| Phage/plasmids | |||
| P22 | HT12/4int103 | 42 | |
| pKD4 | Source for kanamycin cassette | 11 | |
| pKD46 | Lambda red recombinase | 11 | |
| pCP20 | FLP recombinase | 11 | |
| pNK972 | pBR322 origin, Tn10 transposase | K. Hughes |
Mutations indicated in parenthesis after pflhD refer to base changes within the RcsAB box in the promoter region of flhD. Δ and :: refer to deletion of or insertion/substitution within the indicated gene or F episome.
A minus refers to the nucleotides upstream of ATG, a tilde indicates the nucleotides included in the deletion (when the description indicates a deletion) or deletion/substitution (when the description indicates ::kan or ::tetRA), an apostrophe indicates mutation (i.e., 571 A'C means a mutation from A to C at nucleotide 571), and the number in parentheses is the total length of the gene from ATG to TAA. Positive values indicate residues after the start codon. For single-base-pair changes, the nucleotide at which the indicated change was introduced is shown. Note that deletions created by the Datsenko and Wanner method (11) leave behind a scar sequence of ∼80 bp.