TABLE 3.
A‐B Relation between the four clusters from model‐based clustering and outcome indicators as proposed by ECDC, EFSA and EMA(4): pan‐susceptibility (Pan‐S), resistant to three or more classes (>=3), and ciprofloxacin resistance (CIP‐R), shown as proportions of commensal E. coli isolates (N = 12,986) of broilers, dairy cows, slaughter pigs and veal calves from the Netherlands, 2007–2018, shown for the dataset overall (Table 3A) and stratified per animal species (Table 3B)
| Table 3 | ||||||
|---|---|---|---|---|---|---|
| Animal species | Indicator | Proportion per animal species e | Cluster 1 | Cluster 2 | Cluster 3 | Cluster 4 |
| Table 3A | ||||||
| Total (n = 12,986) | Indicator | Overall proportion a | Cluster 1 | Cluster 2 | Cluster 3 | Cluster 4 |
| Pan‐S b | 0.46 | 0.46 | 0.00 | 0.00 | 0.00 | |
| >=3 c | 0.33 | 0.00 | 0.01 | 0.21 | 0.11 | |
| CIP‐R d | 0.16 | 0.00 | 0.05 | 0.00 | 0.11 | |
| Table 3B | ||||||
| Broilers (n = 3,602) | Pan‐S f | 0.20 | 0.20 | 0.00 | 0.00 | 0.00 |
| >=3 g | 0.55 | 0.00 | 0.05 | 0.19 | 0.31 | |
| CIP‐R h | 0.49 | 0.00 | 0.18 | 0.00 | 0.31 | |
| Dairy cows (n = 2,958) | Pan‐S | 0.95 | 0.95 | 0.00 | 0.00 | 0.00 |
| >=3 | 0.02 | 0.00 | 0.00 | 0.02 | 0.01 | |
| CIP‐R | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | |
| Slaughter pigs (n = 3,491) | Pan‐S | 0.33 | 0.33 | 0.00 | 0.00 | 0.00 |
| >=3 | 0.38 | 0.00 | 0.00 | 0.36 | 0.01 | |
| CIP‐R | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | |
| Veal calves (n = 2,935) | Pan‐S | 0.46 | 0.46 | 0.00 | 0.00 | 0.00 |
| >=3 | 0.33 | 0.00 | 0.01 | 0.24 | 0.08 | |
| CIP‐R | 0.09 | 0.00 | 0.01 | 0.00 | 0.08 | |
Overall proportion of isolates from the total number of isolates (N = 12,986), belonging to this outcome indicator by ECDC, EFSA and EMA (4). Note: these indicators are not mutually exclusive.
Proportion of pan‐susceptible isolates per cluster.
Proportion of isolates resistant to three or more classes per cluster.
Proportion of ciprofloxacin resistant isolates per cluster.
Total proportion per animal species belonging to this outcome indicator.
Proportion of pan‐susceptible isolates per animal species per cluster.
Proportion of isolates resistant to three or more classes per animal species per cluster.
Proportion of ciprofloxacin resistant isolates per animal species per cluster.