Table 2.
Origin of samples, and main characteristics of the Escherichia coli collection analyzed in this study.
| Samples and isolates | Commensal E. coli | Pathogenic E. coli: No. isolates and main characteristics | Pathotypes | Main colonization factors | Other VF | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Production stage (approx. age range) No. animals sampled |
No. isolates | No. isolates | Phylogroups (No.; %) | ||||||||||||||
| No. isolates | Phylogroups (No.; %) | ETEC No. (%) |
STEC No. (%) |
ETEC /STEC No. (%) |
aEPEC No. (%) |
F4 (K88) No. (%) |
F18 No. (%) |
||||||||||
| Lactation-pre weaning stage (1 day-4 weeks) n = 38 |
41 | 25 | A (10; 40%) B1 (11; 44%) C (2; 8%) D (1; 4%) E (1; 4%) |
16 | A (4; 25%) B1 (7; 43.7%) D (2; 12.5%) E (3; 18.7%) |
13 (81.2%) |
0 | 0 | 1 (6.2%) |
4 ETEC (25%) | 1 ETEC (6.2%) |
2 (F41) |
|||||
| Transition-growing stage (>4–9 weeks) n = 49 |
56 | 16 | A (2; 12.5%) B1 (5; 31.2%) B2 (1; 6.2%) C (6; 37.5%) E (2; 12.5%) |
40 | A (21; 52.5%) B1 (5; 12.5%) C (1; 2.5%) D (1; 2.5%) E (12; 30%) |
32 (80.0%) |
4 (10.0%) |
3 (7.5%) |
1 (2.5%) |
11 ETEC (27.5%) |
22: 16 ETEC, 3 ETEC/STEC, 3 STEC (55%) |
0 | |||||
| Fattening-finishing stage (>9 weeks) n = 6 | 9 | 1 | A (1; 100%) | 8 | A (6; 75%) B1 (1; 12.5%) E (1; 12.5%) |
5 (62.5%) |
1 (12.5%) |
0 | 2 (25%) |
1 ETEC (12.5%) |
3 ETEC (37.5%) |
0 | |||||
| TOTAL | 93 | 106 | 42 |
B1 (16; 38.1%)
A (13; 30.9%) C (8; 19%) E (3; 7.1%) B2 (1; 2.4%) D (1; 2.4%) |
64 |
A (31; 48.4%)
E (16; 25%) B1 (13; 20.3%) D (3; 4.7%) C (1; 1.6%) |
50
(78.1%) |
5
(7.8%) |
3
(4.7%) |
4
(6.2%) |
16
(25.0%) |
26
(40.6%) |
2
(3.1%) |
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