TABLE 1.
Summary of genome features of publicly available E. coli strains used in this study
| Organism | Pathotypea (host) | Size of chromosome (bp)b | GC content (%)b | No. of genesb | No. of pseudogenesb | No. of rRNAsb | No. of tRNAsb | No. of prophage regionsb | No. of plasmidsb | GenBank accession no. |
|---|---|---|---|---|---|---|---|---|---|---|
| E. coli OR:K1:H− strain VR50 | ABU (human) | 5,000,386 | 50.8 | 4,711 | 125 | 22 | 85 | 8 | 9 | CP011134 |
| E. coli O18:K1:H7 strain UTI89 | UPEC (human) | 5,065,741 | 50.6 | 5,066 | NAc | 22 | 88 | NA | 1 | CP000243.1 |
| E. coli O6:K15:H31 strain 536 | UPEC (human) | 4,938,920 | 50.5 | 4,685 | NA | 22 | 81 | 1 | 0 | CP000247.1 |
| E. coli OR:K5:H− strain ABU 83972 | ABU (human) | 5,131,397 | 50.6 | 4,793 | NA | 22 | 88 | 6 | 1 | CP001671 |
| E. coli O6:H1:K2 strain CFT073 | UPEC (human) | 5,231,428 | 50.5 | 5,379 | 94 | 21 | 89 | 5 | 0 | AE014075.1 |
| E. coli O7:K1 strain IAI39 | UPEC (human) | 5,132,068 | 50.6 | 5,132 | 80 | 22 | 88 | NA | 0 | CU928164.2 |
| E. coli O17:K52:H18 strain UMN026 | UPEC (human) | 5,202,090 | 50.7 | 4,918 | 45 | 22 | 88 | NA | 2 | CU928163.2 |
| E. coli O25b:H4-ST131 strain EC958 | UPEC (human) | 5,109,767 | 50.7 | 4,981 | 25 | 22 | 89 | 7 | 2 | HG941718.1 |
| E. coli O18:K1:H7 strain IHE3034 | NMEC (human) | 5,108,383 | 50.7 | 4,757 | NA | 21 | 97 | NA | 0 | CP001969 |
| E. coli O45:K1 strain S88 | NMEC (human) | 5,032,268 | 50.7 | 5,049 | 90 | 22 | 91 | NA | 1 | CU928161.2 |
| E. coli OR:H48 strain K-12 substrain W3110 | K-12 (human) | 4,646,332 | 50.8 | 4,227 | NA | 22 | 86 | NA | 0 | AP009048.1 |
| E. coli OR:H48 strain K-12 substrain MG1655 | K-12 (human) | 4,639,675 | 50.8 | 4,294 | 81 | 22 | 89 | 10 | 0 | U00096.2 |
| E. coli OR:H48 strain K-12 substrain DH10B | K-12 (human) | 4,686,137 | 50.8 | 4,200 | NA | 22 | 86 | 10 | 0 | CP000948.1 |
| E. coli OR:H48 strain K-12 substrain BW2952 | K-12 (human) | 4,578,159 | 50.8 | 4,098 | NA | 22 | 88 | NA | 0 | CP001396.1 |
| E. coli BL21(DE3) | Commensal (human) | 4,570,938 | 50.8 | 4,336 | 70 | 22 | 85 | NA | 0 | CP001509 |
| E. coli B strain REL606 | Commensal (human) | 4,629,812 | 50.8 | 4,383 | 67 | 22 | 85 | 10 | 2 | CP000819.1 |
| E. coli O152:H28 strain SE11 | Commensal (human) | 4,887,515 | 50.7 | 4,679 | NA | 22 | 86 | 7 | 6 | AP009240.1 |
| E. coli O8 strain IAI1 | Commensal (human) | 4,700,560 | 50.8 | 4,491 | 51 | 22 | 86 | NA | 0 | CU928160.2 |
| E. coli O9:H4 strain HS | Commensal (human) | 4,643,538 | 50.8 | 4,478 | 94 | 22 | 88 | NA | 0 | CP000802.1 |
| E. coli O81 strain ED1a | Commensal (human) | 5,209,548 | 50.7 | 4,915 | 95 | 22 | 91 | NA | 1 | CU928162.2 |
| E. coli O150:H5 strain SE15 | Commensal (human) | 4,717,338 | 50.7 | 4,338 | NA | 22 | 84 | 2 | 1 | AP009378 |
| E. coli W | W (human) | 4,900,968 | 50.8 | 4,764 | 91 | 22 | 87 | 7 | 2 | CP002185 |
| E. coli ATCC 8739 | C (human) | 4,746,218 | 50.9 | 4,409 | 82 | 22 | 87 | 8 | 0 | CP000946.1 |
| E. coli O19:H34 strain SMS-3-5 | Environmental | 5,068,389 | 50.5 | 4,743 | 78 | 22 | 90 | 4 | 4 | CP000970.1 |
| E. coli O178:H11 strain H10407 | ETEC (human) | 5,153,435 | 51.2 | 4,746 | NA | 22 | 87 | 9 | 4 | FN649414 |
| E. coli O139:H28 strain E24377A | ETEC (human) | 4,979,619 | 50.6 | 4,873 | 118 | 21 | 91 | NA | 6 | CP000800.1 |
| E. coli O55:H7 strain CB9615 | EPEC (human) | 5,386,352 | 50.5 | 5,028 | 69 | 22 | 101 | 19 | 1 | CP001846.1 |
| E. coli O127:H6 strain E2348/69 | EPEC (human) | 4,965,553 | 50.8 | 4,703 | 145 | 22 | 92 | 13 | 2 | FM180568.1 |
| E. coli O157:H7 strain EC4115 | EHEC (human) | 5,572,075 | 50.4 | 5,315 | NA | 22 | 110 | NA | 2 | CP001164.1 |
| E. coli O157:H7 strain TW14359 | EHEC (human) | 5,528,136 | 50.5 | 5,263 | NA | 22 | 106 | NA | 1 | CP001368.1 |
| E. coli O157:H7 strain Sakai | EHEC (human) | 5,498,450 | 50.5 | 5,361 | 247 | 22 | 105 | 18 | 1 | BA000007.2 |
| E. coli O157:H7 strain EDL933 | EHEC (human) | 5,528,445 | 50.4 | 5,349 | NA | 22 | 98 | 24 | 2 | AE005174.2 |
| E. coli O103:H2 strain 12009 | EHEC (human) | 5,449,314 | 50.6 | 5,054 | 209 | 22 | 98 | 15 | 1 | AP010958.1 |
| E. coli O26:H11 strain 11368 | EHEC (human) | 5,697,240 | 50.6 | 5,364 | 254 | 22 | 101 | 21 | 4 | AP010953.1 |
| E. coli O111:H− strain 11128 | EHEC (human) | 5,371,077 | 50.4 | 4,972 | 291 | 22 | 106 | 17 | 5 | AP010960.1 |
| E. coli O44:H18 strain 042 | EAEC (human) | 5,241,977 | 50.5 | 4,810 | 110 | 22 | 93 | 9 | 1 | FN554766 |
| E. coli 55989 | EAEC (human) | 5,154,862 | 50.7 | 4,969 | 79 | 22 | 94 | NA | 1 | CU928145.2 |
| E. coli O1:K1:H7 strain APECO1 | APEC (chicken) | 5,082,025 | 50.6 | 4,467 | NA | 22 | 93 | 10 | 4 | CP000468.1 |
| E. coli UM146 | AIEC (human) | 4,993,013 | 50.6 | 4,650 | NA | 22 | 86 | NA | 1 | CP002167 |
| E. coli O83:H1 strain NRG 857C | AIEC (human) | 4,747,819 | 50.7 | 4,431 | NA | 22 | 84 | 5 | 1 | CP001855 |
| E. coli O83:H1 strain LF82 | AIEC (human) | 4,773,108 | 49.9 | 4,376 | NA | 22 | 84 | 4 | 1 | CU651637 |
a
AIEC, adherent-invasive E. coli; APEC, avian pathogenic E. coli; EAEC, enteroaggregative E. coli; EHEC, enterohemorrhagic E. coli; EPEC, enteropathogenic E. coli; ETEC, enterotoxigenic E. coli; NMEC, neonatal meningitis E. coli; UPEC, uropathogenic E. coli.
b
Values are given according to information retrieved from the sequence annotation combined with data from the literature, when available.
c
NA, not available.