TABLE 2.
SNP profiles from SEQ E. colia
| SEQ isolate(s) | No. of isolates in collection | fadD (234) | clpX (267) | uidA (138) | clpX (177) | clpX (234) | lysP (198) | icdA (177) | mdh (450) | SNP profile | SNP profile ID no. (assigned)b |
|---|---|---|---|---|---|---|---|---|---|---|---|
| hs8 | 1 | C | T | T | A | C | C | C | A | CTTACCCA | 1 |
| c69 | 1 | C | T | T | G | C | C | T | A | CTTGCCTA | 2 |
| c5, du145, du149, dg89 | 4 | C | C | C | G | C | C | C | G | CCCGCCCG | 3 |
| k126, k297 | 2 | C | C | C | A | C | T | T | G | CCCACTTG | 4 |
| dg97, dg101 | 2 | C | C | T | A | C | C | C | G | CCTACCCG | 5 |
| hs13, hs15 | 2 | A | T | T | G | C | C | T | A | ATTGCCTA | 6 |
| hs7, hs9, hs12, dg95, dg99, k3 | 6 | A | C | C | G | C | C | C | G | ACCGCCCG | 7 |
| dg93 | 1 | A | C | C | G | C | T | C | G | ACCGCTCG | 8 |
| c63, dg102 | 2 | T | C | T | A | C | C | C | G | TCTACCCG | 9 |
| hf7, hf8, hu2, hu15 | 4 | T | C | T | G | C | C | C | G | TCTGCCCG | 11 |
| hu1 | 1 | A | T | C | A | C | C | T | G | ATCACCTG | 12 |
| dg92 | 1 | C | T | T | G | C | C | T | G | CTTGCCTG | 13 |
| c72 | 1 | A | T | C | G | C | C | T | A | ATCGCCTA | 14 |
| dg91 | 1 | A | T | T | G | C | C | T | G | ATTGCCTG | 15 |
| k12 | 1 | C | T | T | G | C | C | C | A | CTTGCCCA | 17 |
| hs10, c32, du151 | 5 | A | T | C | A | C | C | C | G | ATCACCCG | 18 |
| hu7 | 1 | A | T | T | A | C | C | T | G | ATTACCTG | 19 |
| c34, k2, k4, k6, k7, k11, k15 | 8 | C | T | C | G | C | C | T | G | CTCACCTG | 20 |
| hs3, du78, du80, dg86, dg100 | 5 | C | C | C | G | C | C | T | G | CCCGCCTG | 21 |
| hf1, hs110, du81, dg88 | 4 | A | C | C | G | C | C | T | G | ACCGCCTG | 22 |
| c67, k8 | 2 | A | C | C | G | C | C | T | A | ACCGCCTA | 23 |
| c65, c66 | 2 | C | C | T | G | C | C | T | A | CCTGCCTA | 24 |
| hu31, c70 | 1 | C | C | C | A | C | T | C | G | CCCACTCG | 25 |
| hf20, hs2 | 2 | A | C | C | G | C | C | C | A | ACCGCCCA | 26 |
| c29, c30 | 2 | C | C | T | G | C | C | C | A | CCTGCCCA | 28 |
| hf2, hf3, hf6, hf18, hf22, hf23, hu3, hu4, hu8, hu9, hu11, hu12, hu13, hu14, hu16 | 15 | T | C | C | G | C | T | C | G | TCCGCTCG | 29 |
| du79 | 3 | C | C | C | A | C | C | T | G | CCCACCTG | 31 |
| hf17, hf35, hu43 | 3 | T | C | C | G | C | C | C | G | TCCGCCCG | 32 |
| hf24, hs16, k9 | 3 | C | T | C | G | C | C | T | G | CTCGCCTG | 34 |
| hu10 | 1 | A | T | C | G | C | C | T | G | ATCGCCTG | 35 |
| du150 | 1 | C | T | C | A | C | T | C | G | CTCACTCG | 37 |
| hf4 | 1 | C | C | C | G | C | C | C | A | CCCGCCCA | 40 |
| hu34 | 1 | T | C | C | A | C | T | C | G | TCCACTCG | 45 |
| dg94 | 3 | A | C | T | G | C | C | C | G | ACTGCCCG | 49 |
| c31 | 1 | A | C | C | A | C | C | T | G | ACCACCTG | 51 |
| c68, k1 | 2 | A | C | C | A | C | C | C | G | ACCACCCG | 55 |
| hs1 | 1 | A | C | C | A | C | T | C | G | ACCACTCG | 56 |
| hs18 | 1 | A | C | C | G | T | C | T | A | ACCGTCTA | 58 |
| du77 | 1 | A | C | C | G | T | T | C | G | ACCGTTCG | 59 |
| k13 | 1 | A | C | T | G | C | C | T | A | ACTGCCTA | 61 |
| du84 | 1 | A | C | T | G | C | T | C | G | ACTGCTCG | 62 |
| hs14 | 1 | A | T | C | G | C | T | T | G | ATCGCTTG | 64 |
| k127 | 1 | A | T | T | A | C | C | C | A | ATTACCCA | 65 |
| du147 | 1 | A | T | T | A | C | T | C | G | ATTACTCG | 67 |
| c74, du148 | 2 | C | C | C | A | C | C | C | G | CCCACCCG | 69 |
| hu5, hu6, dg90, dg103 | 4 | C | C | C | G | C | T | C | G | CCCGCTCG | 70 |
| hf19 | 1 | C | C | C | G | C | T | T | G | CCCGCTTG | 71 |
| k14 | 1 | C | C | T | G | C | C | C | G | CCTGCCCG | 73 |
| hf5 | 1 | T | C | C | G | C | C | C | A | TCCGCCCA | 81 |
| hs17 | 1 | T | C | C | G | C | C | T | G | TCCGCCTG | 82 |
a
Isolates originated from feces of horses (hs), cattle (c), ducks (du), dogs (dg), kangaroos (k), and human feces (hf) and human urine (hu).
b
ID, identification.