TABLE 2.
Bacterial strains and plasmids used in this work
| Escherichia coli isolates and plasmids | Description/relevant characteristic | Source or reference |
|---|---|---|
| IPEC isolates | ||
| EHEC | ||
| 4732/98 | O145:H− | Iwanagaa |
| 4602/97 | O26 | Iwanaga |
| EAggEC | ||
| O111-11 | O111:H21 | Iwanaga |
| O126-60 | O126:H16 | Iwanaga |
| O127a-3 | O127a:H21 | Iwanaga |
| O151-2 | O151:H2 | Iwanaga |
| O44-20 | O44:H16 | Iwanaga |
| ETEC | ||
| O115-23 | O115:H5 | Iwanaga |
| O126-4 | O126:H12 | Iwanaga |
| O128-15 | O128:H12 | Iwanaga |
| O128-37 | O128:H12 | Iwanaga |
| O136-1 | O1236:H5 | Iwanaga |
| EIEC | ||
| O136-5 | O136:H51 | Iwanaga |
| O146-2 | O146:H14 | Iwanaga |
| O146-9 | O146:H14 | Iwanaga |
| O164-16 | O164 | Iwanaga |
| O28ac-1 | O28ac:H7 | Iwanaga |
| EPEC | ||
| O111-2 | O111:H27 | Iwanaga |
| O111-5 | O111:H6 | Iwanaga |
| O111-23 | O111:H9 | Iwanaga |
| O119-4 | O119:H4 | Iwanaga |
| O124-12 | O124:H21 | Iwanaga |
| AIEC | ||
| LF82 | Crohn’s disease isolate | 84 |
| LF9 | Crohn’s disease isolate | 84 |
| LF15 | Crohn’s disease isolate | 84 |
| LF16 | Crohn’s disease isolate | 84 |
| LF31 | Crohn’s disease isolate | 84 |
| ExPEC isolates | ||
| UPEC | ||
| IHE1041 | Pyelonephritis isolate, O1:K1:H7 | 85 |
| IHE1049 | Pyelonephritis isolate, O1:K1:H7 | 85 |
| IHE1190 | Pyelonephritis isolate, O18:K5:H7 | 85 |
| IHE1268 | Pyelonephritis isolate, O18:K5:H7 | 85 |
| IHE1402 | Pyelonephritis isolate O6:K2:H1 | 85 |
| IHE1431 | Pyelonephritis isolate, O6:K2:H1 | 85 |
| CCUG 55212 | Cystitis isolate, O17:K52:H18 | CCUGb |
| CCUG 41427 | Cystitis isolate, O4:K3:H5 | CCUG |
| CCUG 24T | Cystitis isolate, O1:K1:H7 | CCUG |
| UTI89 | Cystitis isolate, O18:K1:H7 | 86 |
| NZ111 | UTI89/pHMG94 | This work |
| NZ112 | UTI89/pHMG94, pMMB66EH | This work |
| NZ113 | UTI89/pHMG94, pAES22 | This work |
| NMEC | ||
| IHE3034 | O18:K1:H7 | 85 |
| NZ73 | IHE3034/pMMB66EH | This work |
| AES153 | IHE3034ΔsfaY | This work |
| NZ76 | AES153/pMMB66EH | This work |
| NZ77 | AES153/pAES22 | This work |
| NZ105 | AES153/pHMG94 | This work |
| NZ106 | AES153/pHMG94, pMMB66EH | This work |
| NZ107 | AES153/pHMG94, pAES22 | This work |
| AES22 | IHE3034Δhns | This work |
| NZ108 | IHE3034Δhns/pHMG94 | This work |
| NZ109 | IHE3034Δhns/pHMG94, pMMB66EH | This work |
| NZ110 | IHE3034Δhns/pHMG94, pAES22 | This work |
| IHE3035 | O18ac:K1:H7 | 85 |
| IHE3039 | O18ac:K1H7 | 87 |
| IHE3040 | O18ac:K1:H7 | 85 |
| IHE3041 | O18acK−:H− | 85 |
| NZ128 | IHE3040/pHMG94 | This study |
| NZ129 | IHE3040/pHMG94, pMMB66EH | This study |
| NZ130 | IHE3040/pHMG94, pAES22 | This study |
| IHE3047 | O18ac:K1:H7 | 85 |
| IHE3070 (RK295) | R:K1:H7 | 87 |
| IHE3074 (RK299) | R:K1:H7 | 87 |
| IHE3079 (RK304) | O18ac:K1:H7 | 87 |
| IHE3080 | O18ac:K1:H7 | 85 |
| RS218 | O18:K1:H7 | 88 |
| NZ134 | RS218/pHMG94 | This study |
| NZ135 | RS218/pHMG94, pMMB66EH | This study |
| NZ136 | RS218/pHMG94, pAES22 | This study |
| NZ146 | RS218ΔsfaY | This study |
| NZ153 | RS218ΔsulA773::aph | This study |
| Plasmids | ||
| pMMB66EH | Cbr, cloning vector, ptac promoter | 89 |
| pBR322 | Cbr, Tcr, rep ori (pMB1), cloning vector | 90 |
| pKD3 | Cbr, Cmr FRT-cm-FRT | 91 |
| pKD4 | Cbr, Kmr FRT-kan-FRT | 91 |
| pSIM6 | Cbr, ori pSC101, temp sensitive, carries the α-red recombinase genes, induced at 42°C | 92 |
| pKM208 | Cbr, ori pSC101, temp sensitive, carries the α-red recombinase genes, IPTG inducible | 93 |
| pKO3 | Cmr, ori M13, sacB, repAts, suicide vector | 79 |
| pHMG94 (pSfaC)c | pBR322, papI clone | 59 |
| pAES22 (pSfaY) | pMMB66EH, sfaY gene from the sfa gene cluster | 94 |
| pCP20 | repA101, λ repressor, FLP | 95 |
a
From the laboratory collection of Masaaki Iwanaga, Department of Bacteriology, University of Ryukyus, Okinawa, Japan.
b
From Culture Collection, University of Göteborg (CCUG), Department of Clinical Bacteriology, Göteborg, Sweden.
c
PapI and SfaC are virtually identical and functionally exchangeable (53).