TABLE 2.
| Strain no. | Serotypea | Sampleb |
E. coli pathogroup | Virulence gene subtype |
Profile no. | Total no. of genes detected | No. of genetic markers in the following groupc: |
Phylogroupa,d | STa (no. of strains) | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Type | Site | Date | Origin | stx1 | stx2 | eae | Adhesion (n = 20) | Type III secretion system (n = 30) | Toxin (n = 12) | Other function (n = 13) | OI-71 (n = 5) | OI-122 (n = 5) | OI-57 (n = 6) | OI-43/48 (n = 3) | HPI (n = 2) | EHEC markers (n = 4) | nle genes (n = 13) | |||||||
| 78 | O26:H11 | Shellfish | 1 | November 2013 | M1.2 | STEC | 1a | − | β1 | 1 | 47 | 8 | 25 | 3 | 9 | 5 | 4 | 6 | 3 | 2 | 4 | 12 | B1 | 21 |
| 95 | O91:H21 | Freshwater | 3 | May 2013 | W3.2 | STEC | 1a | 2a, 2c, 2d | − | 2 | 15 | 8 | 0 | 2 | 1 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | B1 | 442 |
| 59 | O130:H11 | Freshwater | 1 | December 2013 | W1.1 | STEC | 1a | 2a | − | 3 | 12 | 7 | 1 | 2 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | B1 | ND |
| 14 | ONT:H11 | Freshwater | 1 | May 2013 | W1.1 | STEC | 1a | 2a | − | 4 | 11 | 7 | 0 | 2 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | B1 | 295 |
| 163 | O63:H6 | Freshwater | 1 | November 2014 | W1.1 | STEC | − | 2a | − | 5 | 10 | 7 | 0 | 2 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | B1 | 2105 |
| 124 | ONT:H10 | Freshwater | 2 | April 2014 | W2.1 | STEC | 1a | − | − | 6 | 9 | 4 | 0 | 3 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | B1 | 1258 |
| 88 | O185:H28 | Freshwater | 2 | April 2013 | W2.1 | STEC | 1a | 2a | − | 7 | 8 | 5 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | B2 | 658 |
| 72 | O2:H32 | Seawater | 1 | February 2014 | W1.5 | STEC | − | 2e | − | 8 | 6 | 2 | 0 | 1 | 2 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | A | 10 |
| 126 | O8:H19 | Freshwater | 3 | July 2014 | W3.1 | STEC | − | 2a, 2d | − | 9 | 5 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | B1 | 162 |
| 16 | O154:H31 | Shellfish | 1 | May 2013 | O1.1 | STEC | 1d | − | − | 10 | 5 | 3 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 1892 |
| 19 | O15:H16 | Shellfish | 1 | June 2013 | M1.1 | STEC | − | 2g | − | 11 | 5 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | 325 |
| 127 | O76:H19 | Freshwater | 2 | August 2014 | W2.3 | STEC | 1d | − | − | 12 | 5 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | B1 | 675 |
| LR2 | O100:H21 | Shellfish | 6 | January 2003 | M6.1 | STEC | 1d | − | − | 13 | 4 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ND | ND |
| 15 | O154:H31 | Freshwater | 1 | May 2013 | W1.1 | STEC | 1d | − | − | 14 | 4 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 1892 |
| 44 | O154:HNM | Shellfish | 1 | November 2013 | M1.1 | STEC | 1d | − | − | 14 | 4 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 1892 |
| 20 | O100:HNM | Shellfish | 2 | May 2013 | M2.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 24 | O100:HNM | Freshwater | 3 | May 2013 | W3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 31 | O100:HNM | Shellfish | 3 | May 2013 | O3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 32 | O100:HNM | Shellfish | 3 | May 2013 | M3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 33 | O100:HNM | Shellfish | 2 | May 2013 | C2.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 35 | O100:HNM | Shellfish | 3 | June 2013 | M3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 36 | O100:HNM | Sediment | 3 | June 2013 | S3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 122 | O100:HNM | Shellfish | 2 | March 2014 | M2.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| 125 | O100:HNM | Shellfish | 3 | June 2014 | O3.1 | STEC | − | + | − | 15 | 3 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | A | 993 |
| PB4 | O38:H26 | Shellfish | 5 | July 2003 | M5.1 | STEC | 1c | − | − | 16 | 3 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ND | ND |
| 1 | O149:H1 | Freshwater | 1 | April 2013 | W1.1 | STEC | 1d | − | − | 17 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 132 |
| 3 | O149:HNM | Freshwater | 1 | April 2013 | W1.1 | STEC | 1d | − | − | 17 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 132 |
| 73 | O28:H1 | Shellfish | 1 | March 2014 | C1.1 | STEC | 1d | − | − | 17 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | D | 132 |
| SP5 | O157:H7 | Shellfish | 4 | September 2003 | O4.1 | EPEC | − | − | γ1 | 1 | 50 | 8 | 30 | 3 | 8 | 5 | 5 | 5 | 3 | 0 | 3 | 13 | ND | ND |
| 77 | O145:H28 | Shellfish | 2 | June 2013 | C2.1 | EPEC | − | − | γ1 | 2 | 39 | 4 | 24 | 3 | 7 | 3 | 5 | 2 | 3 | 0 | 3 | 7 | D | ND |
| 79 | O145:H28 | Shellfish | 2 | June 2013 | M2.1 | EPEC | − | − | γ1 | 2 | 39 | 4 | 24 | 3 | 7 | 3 | 5 | 2 | 3 | 0 | 3 | 7 | D | ND |
| 121 | O103:H25 | Freshwater | 3 | March 2014 | W3.1 | EPEC | − | − | θ | 2 | 35 | 5 | 19 | 3 | 7 | 3 | 5 | 3 | 2 | 0 | 4 | 7 | B1 | 343 |
| 96 | O103:H2 | Freshwater | 2 | June 2013 | W2.3 | EPEC | − | − | θ | 3 | 35 | 5 | 19 | 3 | 7 | 3 | 5 | 3 | 2 | 0 | 4 | 7 | B1 | 343 |
| 120 | O153:H2 | Freshwater | 2 | March 2014 | W2.3 | EPEC | − | − | ε | 4 | 34 | 5 | 19 | 2 | 7 | 1 | 5 | 2 | 2 | 2 | 2 | 8 | B1 | 27 |
| 123 | O153:H2 | Shellfish | 3 | March 2014 | M3.1 | EPEC | − | − | ε | 4 | 34 | 5 | 19 | 2 | 7 | 1 | 5 | 2 | 2 | 2 | 2 | 8 | B1 | 27 |
| 81 | O26:H11 | Shellfish | 1 | November 2013 | M1.2 | EPEC | − | − | β1 | 5 | 34 | 5 | 20 | 3 | 5 | 5 | 4 | 3 | 1 | 2 | 0 | 10 | B1 | 29 |
| 84 | O26:H11 | Freshwater | 1 | November 2013 | W1.3 | EPEC | − | − | β1 | 5 | 34 | 5 | 20 | 3 | 5 | 5 | 4 | 3 | 1 | 2 | 0 | 10 | B1 | 29 |
| 85 | O26:H11 | Shellfish | 1 | November 2013 | C1.1 | EPEC | − | − | β1 | 5 | 34 | 5 | 20 | 3 | 5 | 5 | 4 | 3 | 1 | 2 | 0 | 10 | B1 | 29 |
| 102 | O23:H8 | Freshwater | 2 | August 2013 | W2.1 | EPEC | − | − | θ | 6 | 33 | 5 | 22 | 2 | 3 | 5 | 5 | 5 | 0 | 0 | 0 | 11 | B1 | 327 |
| 129 | O23:H8 | Shellfish | 2 | August 2014 | C2.1 | EPEC | − | − | θ | 7 | 32 | 5 | 22 | 2 | 2 | 5 | 4 | 5 | 0 | 0 | 0 | 11 | B1 | 327 |
| 80 | O26:H11 | Freshwater | 2 | August 2013 | W2.1 | EPEC | − | − | β1 | 8 | 27 | 4 | 17 | 2 | 3 | 2 | 4 | 2 | 1 | 2 | 0 | 8 | B1 | 29 |
| 64 | O39:HNM | Freshwater | 1 | January 2014 | W1.3 | EPEC | − | − | ι | 9 | 25 | 3 | 19 | 1 | 1 | 3 | 0 | 5 | 0 | 0 | 0 | 10 | B1 | 39 |
| 111 | ONT:H31 | Freshwater | 1 | October 2014 | W1.3 | EPEC | − | − | θ | 10 | 24 | 3 | 16 | 3 | 1 | 1 | 3 | 2 | 0 | 0 | 0 | 6 | B1 | 40 |
| 131 | O15:H2 | Freshwater | 3 | August 2014 | W3.2 | EPEC | − | − | β1 | 11 | 23 | 3 | 17 | 1 | 1 | 2 | 5 | 2 | 0 | 0 | 0 | 8 | B1 | 20 |
| 153 | O28:HNM | Freshwater | 1 | June 2014 | W1.1 | EPEC | − | − | γ1 | 12 | 23 | 0 | 15 | 2 | 5 | 1 | 0 | 2 | 2 | 0 | 3 | 2 | D | 137 |
| 61 | O153:H21 | Freshwater | 1 | January 2014 | W1.1 | EPEC | − | − | θ | 13 | 22 | 3 | 17 | 1 | 0 | 2 | 3 | 1 | 0 | 0 | 0 | 7 | B1 | 40 |
| 115 | O108:H21 | Freshwater | 3 | November 2014 | W3.1 | EPEC | − | − | θ | 13 | 22 | 3 | 17 | 1 | 0 | 2 | 3 | 1 | 0 | 0 | 0 | 7 | B1 | 337 |
| 117 | O108:H21 | Shellfish | 3 | November 2014 | W3.2 | EPEC | − | − | θ | 13 | 22 | 3 | 17 | 1 | 0 | 2 | 3 | 1 | 0 | 0 | 0 | 7 | B1 | 337 |
| 118 | O108:H21 | Shellfish | 2 | January 2014 | C2.1 | EPEC | − | − | θ | 13 | 22 | 3 | 17 | 1 | 0 | 2 | 3 | 1 | 0 | 0 | 0 | 7 | B1 | 337 |
| 134 | O146:H21 | Shellfish | 3 | August 2014 | M3.1 | EPEC | − | − | θ | 14 | 22 | 3 | 17 | 1 | 0 | 2 | 3 | 1 | 0 | 0 | 0 | 7 | B1 | 442 |
| 65 | O40:HNM | Freshwater | 1 | February 2014 | W1.1 | EPEC | − | − | β1 | 15 | 22 | 0 | 16 | 1 | 4 | 3 | 0 | 1 | 1 | 2 | 2 | 6 | A | 10 |
| 162 | ONT:H8 | Freshwater | 1 | August 2014 | W1.2 | EPEC | − | − | θ | 16 | 21 | 4 | 15 | 1 | 0 | 1 | 3 | 1 | 0 | 0 | 0 | 5 | B1 | 327 |
| 49 | O98:H8 | Shellfish | 1 | November 2014 | M1.1 | EPEC | − | − | ι | 17 | 21 | 5 | 15 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 5 | B1 | 590 |
| 159 | O91:H10 | Shellfish | 1 | July 2014 | C1.1 | EPEC | − | − | β2 | 18 | 21 | 3 | 14 | 1 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 4 | B2 | 641 |
| 139 | O88:H25 | Shellfish | 3 | September 2014 | M3.1 | EPEC | − | − | β1 | 19 | 21 | 4 | 15 | 1 | 0 | 1 | 4 | 1 | 0 | 0 | 0 | 6 | B1 | 328 |
| 154 | ONT:H8 | Freshwater | 1 | April 2014 | W1.2 | EPEC | − | − | θ | 20 | 20 | 3 | 15 | 1 | 0 | 1 | 3 | 1 | 0 | 0 | 0 | 5 | B1 | 327 |
| 105 | O71:HNM | Freshwater | 1 | August 2014 | W1.2 | EPEC | − | − | η | 21 | 20 | 5 | 14 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 1 | 5 | A | 517 |
| 133 | O88:H8 | Shellfish | 3 | August 2014 | O3.1 | EPEC | − | − | ι | 22 | 20 | 2 | 17 | 0 | 0 | 3 | 0 | 1 | 0 | 0 | 1 | 7 | B1 | 590 |
| 136 | O146:H6 | Shellfish | 2 | September 2014 | C2.1 | EPEC | − | − | θ | 23 | 20 | 3 | 15 | 1 | 0 | 1 | 3 | 1 | 0 | 0 | 0 | 5 | B1 | 442 |
| 37 | O167:H3 | Freshwater | 1 | August 2013 | W1.1 | EPEC | − | − | β1 | 24 | 20 | 0 | 17 | 0 | 2 | 5 | 0 | 2 | 0 | 0 | 0 | 7 | D | 2558 |
| 113 | O128:H2 | Freshwater | 2 | November 2014 | W2.3 | EPEC | − | − | β1 | 25 | 19 | 3 | 13 | 0 | 2 | 1 | 0 | 0 | 0 | 2 | 1 | 3 | B1 | 20 |
| 132 | O113:H6 | Shellfish | 3 | August 2014 | O3.1 | EPEC | − | − | β2 | 26 | 19 | 0 | 14 | 2 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 4 | B2 | 121 |
| 160 | ONT:H6 | Freshwater | 1 | August 2014 | W1.1 | EPEC | − | − | β2 | 27 | 19 | 1 | 15 | 0 | 2 | 2 | 0 | 1 | 0 | 2 | 0 | 5 | B2 | 28 |
| 86 | O5:H40 | Shellfish | 2 | February 2014 | M2.1 | EPEC | − | − | θ | 28 | 19 | 1 | 17 | 0 | 0 | 3 | 2 | 0 | 0 | 0 | 0 | 7 | A | 10 |
| 128 | O86:H31 | Shellfish | 2 | August 2014 | C2.1 | EPEC | − | − | θ | 29 | 19 | 3 | 14 | 1 | 0 | 2 | 3 | 0 | 0 | 0 | 1 | 4 | D | 2569 |
| 135 | O125:H6 | Freshwater | 2 | September 2014 | W2.3 | EPEC | − | − | α2 | 30 | 19 | 1 | 15 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 1 | 4 | B2 | 583 |
| 152 | ONT:H6 | Seawater | 1 | December 2014 | W1.5 | EPEC | − | − | β2 | 31 | 18 | 1 | 13 | 0 | 3 | 1 | 0 | 1 | 1 | 2 | 0 | 4 | B2 | 28 |
| 54 | O125:H6 | Freshwater | 1 | November 2014 | W1.3 | EPEC | − | − | α2 | 32 | 18 | 1 | 15 | 1 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 4 | B2 | 583 |
| 116 | O113:H6 | Freshwater | 3 | November 2014 | W3.2 | EPEC | − | − | β2 | 33 | 18 | 0 | 14 | 1 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 4 | B2 | 121 |
| 138 | ONT:H6 | Freshwater | 3 | September 2014 | W3.2 | EPEC | − | − | β2 | 34 | 18 | 1 | 14 | 0 | 2 | 2 | 0 | 1 | 0 | 2 | 0 | 5 | B2 | 28 |
| 149 | O159:H7 | Freshwater | 1 | November 2014 | W1.3 | EPEC | − | − | ε | 35 | 18 | 3 | 14 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 1 | 4 | B1 | ND |
| 104 | O157:H16 | Freshwater | 1 | July 2014 | W1.4 | EPEC | − | − | ε | 36 | 18 | 0 | 17 | 0 | 0 | 3 | 0 | 4 | 0 | 0 | 0 | 10 | A | 10 |
| 58 | O63:H6 | Freshwater | 2 | November 2014 | W2.1 | EPEC | − | − | α2 | 37 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | B2 | 122 |
| 62 | O63:H6 | Freshwater | 1 | January 2014 | W1.2 | EPEC | − | − | α2 | 37 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | B2 | 122 |
| 142 | O63:H6 | Freshwater | 3 | October 2014 | W3.2 | EPEC | − | − | α2 | 37 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | B2 | 122 |
| 144 | O63:HNM | Freshwater | 3 | October 2014 | W3.2 | EPEC | − | − | α2 | 37 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | B2 | 122 |
| 141 | ONT:H6 | Freshwater | 3 | October 2014 | W3.2 | EPEC | − | − | α2 | 37 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | B2 | 122 |
| 43 | O51:HNM | Freshwater | 2 | October 2013 | W2.2 | EPEC | − | − | α1 | 38 | 17 | 1 | 14 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 4 | B2 | 589 |
| 51 | O113:H6 | Shellfish | 1 | November 2013 | M1.2 | EPEC | − | − | β2 | 39 | 17 | 0 | 14 | 0 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 4 | B2 | 121 |
| 60 | O2:H45 | Freshwater | 2 | December 2013 | W2.1 | EPEC | − | − | κ/δ | 40 | 17 | 2 | 13 | 1 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 3 | B2 | 1907 |
| 63 | O179:H31 | Freshwater | 1 | January 2014 | W1.2 | EPEC | − | − | ζ | 41 | 17 | 1 | 13 | 0 | 2 | 1 | 0 | 0 | 0 | 2 | 0 | 4 | B2 | 1092 |
| 107 | O25:H2 | Freshwater | 1 | September 2014 | W1.1 | EPEC | − | − | β1 | 42 | 17 | 2 | 14 | 0 | 0 | 1 | 0 | 2 | 0 | 0 | 0 | 5 | B1 | 20 |
| 38 | ONT:H2 | Freshwater | 1 | August 2013 | W1.2 | EPEC | − | − | β1 | 42 | 17 | 2 | 14 | 0 | 0 | 1 | 0 | 2 | 0 | 0 | 0 | 5 | B1 | 20 |
| 47 | O63:H6 | Freshwater | 1 | November 2013 | W1.4 | EPEC | − | − | α2 | 43 | 17 | 1 | 13 | 2 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 3 | B2 | 583 |
| 42 | O29:H19 | Freshwater | 2 | October 2013 | W2.1 | EPEC | − | − | ε | 44 | 16 | 3 | 12 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 2 | B1 | 517 |
| 46 | O116:H20 | Freshwater | 1 | November 2013 | W1.3 | EPEC | − | − | β1 | 45 | 16 | 1 | 14 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 5 | A | 10 |
| 50 | O28:H16 | Shellfish | 1 | November 2013 | M1.1 | EPEC | − | − | β1 | 45 | 16 | 1 | 14 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 5 | A | 10 |
| 52 | O113:H6 | Shellfish | 1 | November 2013 | C1.1 | EPEC | − | − | β2 | 46 | 16 | 0 | 13 | 0 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 3 | B2 | 1583 |
| 161 | O137:H6 | Freshwater | 1 | August 2014 | W1.1 | EPEC | − | − | β2 | 47 | 16 | 1 | 12 | 0 | 2 | 1 | 0 | 0 | 0 | 2 | 0 | 4 | B2 | 2678 |
| 39 | ONT:H6 | Freshwater | 1 | September 2013 | W1.3 | EPEC | − | − | β2 | 48 | 16 | 1 | 12 | 0 | 2 | 1 | 0 | 1 | 0 | 2 | 0 | 4 | B2 | 28 |
| 67 | O33:H6 | Freshwater | 1 | February 2014 | W1.3 | EPEC | − | − | β2 | 49 | 15 | 1 | 10 | 0 | 3 | 0 | 0 | 0 | 1 | 2 | 0 | 0 | B2 | 28 |
| 112 | O85:H31 | Freshwater | 1 | October 2014 | W1.3 | EPEC | − | − | ζ | 50 | 13 | 0 | 10 | 0 | 2 | 0 | 0 | 0 | 0 | 2 | 0 | 1 | B2 | 803 |
| 71 | O33:H6 | Freshwater | 1 | February 2014 | W1.3 | EPEC | − | − | β2 | 51 | 13 | 0 | 10 | 0 | 2 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | B2 | 28 |
| 158 | O20:HNT | Seawater | 1 | April 2014 | W1.5 | EPEC | − | − | θ | 52 | 12 | 0 | 10 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | 3747 |
| 164 | O98:H56 | Freshwater | 1 | December 2014 | W1.4 | EPEC | − | − | θ | 52 | 12 | 0 | 10 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | ND |
| 70 | O98:HNM | Seawater | 1 | February 2014 | W1.5 | EPEC | − | − | θ | 52 | 12 | 0 | 10 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | 3747 |
| 150 | O98:HNT | Freshwater | 1 | December 2014 | W1.4 | EPEC | − | − | θ | 52 | 12 | 0 | 10 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | 3747 |
| 40 | O71:H49 | Shellfish | 1 | October 2013 | C1.1 | EPEC | − | − | κ/δ | 53 | 12 | 0 | 11 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | B2 | 2813 |
| 41 | O71:H49 | Shellfish | 1 | October 2013 | M1.2 | EPEC | − | − | κ/δ | 53 | 12 | 0 | 11 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | B2 | 2813 |
| 48 | O8:H14 | Freshwater | 1 | November 2013 | W1.4 | EPEC | − | − | κ/δ | 53 | 12 | 0 | 11 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | B2 | 4178 |
| 106 | O85:HNM | Freshwater | 1 | August 2014 | W1.4 | EPEC | − | − | ζ | 54 | 12 | 0 | 9 | 0 | 2 | 0 | 0 | 0 | 0 | 2 | 0 | 1 | B2 | 803 |
| 74 | O98:HNM | Freshwater | 1 | March 2014 | W1.4 | EPEC | − | − | θ | 55 | 11 | 0 | 9 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | A | 3747 |
| 103 | O145:H34 | Freshwater | 1 | July 2014 | W1.3 | EPEC | − | − | ι | 56 | 11 | 0 | 10 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | B2 | 526 |
The serotype, phylogroup, and ST (MLST sequence type) were determined previously by Balière et al. (47) and Gourmelon et al. (48).
Sampling sites are coded as follows: 1, La Fresnaye, Brittany; 2, Regnéville sur mer, Normandy; 3, La Vanlée, Normandy; 4, Saint-Pol-de-Léon, Brittany; 5, Pirou, Normandy; 6, Sèvre, Poitou-Charente region. Freshwater samples are coded as follows: W1.1, Frémur (lat 48.3711280, long −2.208756); W1.2, Le Rat (lat 48.650571, long −2.1912390); W1.3, Le Clos (lat 48.3728867, long −2.1736788); W1.4, Kermiton (lat 48.3738516, long −2.1716267); W2.1, La Sienne (lat 49.0195333, long −1.5055472); W2.2, La Soulles (lat 49.0234806, long −1.4890194); W2.3, Regnéville sur mer (lat 48.9989694, long −1.5585417); W3.1, La Vanlée (lat 48.9147833, long −1.5498417); W3.2, Les Hardes (lat 48.9309028, long −1.5350306). Seawater samples are coded as W1.5 (Kermiton [lat 48.627192, long −2.291158]). Samples from cockles are coded as C1.1 (Cockles La Fresnaye [lat 48.3750614, long −2.1716026]) or C2.1 (Cockles Regnéville sur mer [lat 48.9716028, long −1.5648194]). Samples from mussels are coded as follows: M1.1, Mussels1 La Fresnaye (lat 48.3825912, long −2.1731444); M1.2, Mussels2 La Fresnaye (lat 48.3812179, long −2.175184); M2.1, Mussels Regnéville sur mer (lat 48.9716444, long −1.5748083); M3.1, Mussels La Vanlée (lat 48.9303583, long −1.5939472); M5.1, Mussels Pirou (lat 49.182884, long −1.6146958); M6.1, Mussels Sèvre (lat 46.29665, long −1.1457804). Samples from oysters are coded as follows: O1.1, Oysters 1 La Fresnaye (lat 48.3820423, long −2.1738512); O1.2, Oysters 2 La Fresnaye (lat 48.388116, long −2.1713438); O3.1, Oysters La Vanlée (lat 48.9303583, long −1.5939472); O4.1, Oysters Saint-Pol-de-Léon (lat 48.674128, long −3.970621). Sediment samples are coded as S3.1 (Sediment La Vanlée [lat 48.9147833, long −1.5498417]).
Genetic marker groups are as follows. The adhesion group includes eibG, iha, saa, toxB, orfA, orfB, paa, stcE, sab, efa1 or lifA, bfpA, espP, the F6/F987P gene (fasA), the F18/F107 gene (fedA), the F41 gene (fimF41a), lpfAO157, lpfAO26, lpfAO113, ehaA, and epeA. The type III secretion system group includes espB, espD, espA, tir, espZ, escC, espG, escD, escN, escV, escJ, nleB, nleE, nleF, nleG, nleH1-2, nleA, espM1, nleC, nleD, nleH1-1, nleG2, nleG5-1, nleG5-2, nleG6-2, espV, espK, espN, espJ, and espM2. The toxin group includes subA, ent, ehxA, cdt-I, cdt-III, cdt-V, sta (estla), lt (elt), hlyA, cnf1, cnf2, and astA. The “other function” group includes katP, ecf1, pagC, terE, ureD, aggR, pic, irp2, fyuA, Z2098, ECs1763, ECs1822, and etpD. The OI-71 pathogenicity island includes nleF, nleG, nleH1-2, nleA, and espM1; OI-122 includes efa1 or lifA, nleB, nleE, ent, and pagC; OI-57 includes nleG2, nleG5-1, nleG5-2, nleG6-2, Z2098, and ECs1763; OI-43/48 includes iha, terE, and ureD; the HPI includes irp2 and fyuA. EHEC markers include espV, espK, ureD, and Z2098. The nle gene group includes nleB, nleE, nleF, nleG, nleH1-2, nleA, nleC, nleD, nleH1-1, nleG2, nleG5-1, nleG5-2, and nleG6-2.
ND, not done.