TABLE 3.
Groupings of E. coli isolates into clusters by using REP PCR fingerprints
| Major clustera (total no. of isolates) | Subclusterb (>65% similarity) | Host group (no. of isolates) | Results for host-specific groups in each subclusterc
|
||
|---|---|---|---|---|---|
| % Similarity of groups | Major host (no. of isolates) | Minor host (no. of isolates) | |||
| I (15) | I A | Sewd (13), gull (2) | 88.7 | Gull (2) | |
| 90.7 | Sew (7) | ||||
| 74.0 | Sew (8) | ||||
| II (256) | II A | Sew (1), gull (3) | 92.8 | Gull (3) | |
| II B | Sew (9) | 74.3 | Sew (9) | ||
| 80.1 | Cow (9) | Sew (3) | |||
| II C | Sew (13), gull (7), cow (14) | 86.0 | Gull (4) | ||
| 73.6 | Sew (5) | ||||
| II D | Sew (1), gull (4) | 78.5 | Gull (3) | ||
| 95.1 | Sew (6) | ||||
| 94.4 | Cow (3) | ||||
| II E | Sew (27), gull (11), cow (8) | 82.4 | Sew (5) | ||
| 94.8 | Gull (2) | ||||
| 77.3 | Sew (6) | Gull (1) | |||
| II F | Gull (3) | 72.1 | Gull (3) | ||
| 87.9 | Gull (3) | ||||
| II G | Sew (2), gull (5) | 87.9 | Gull (3) | ||
| II H | Sew (3), gull (1) | 88.7 | Sew (2) | ||
| II I | Sew (5), gull (2) | 88.9 | Sew (4) | ||
| II J | Cow (3) | 71.5 | Cow (3) | ||
| 91.0 | Sew (5) | ||||
| II K | Sew (5), gull (7) | 91.6 | Gull (6) | ||
| II L | Sew (4), gull (4), cow (26) | 77.3 | Cow (13) | ||
| 84.2 | Cow (12) | Sew (3), gull (3) | |||
| II M | Sew (5) | 74.2 | Sew (5) | ||
| II N | Cow (3) | 68.7 | Cow (3) | ||
| II O | Cow (3) | 97.5 | Cow (3) | ||
| II P | Sew (1), gull (2), cow (20) | 74.2 | Cow (4) | Gull (1) | |
| 76.8 | Cow (16) | Sew (1), gull (1) | |||
| II Q | Sew (3), gull (5) | 74.0 | Gull (3) | ||
| II R | Sew (9), gull (2), cow (3) | 91.4 | Sew (8) | ||
| 97.2 | Cow (2) | ||||
| II Q | Gull (5), cow (2) | 77.9 | Gull (4) | Cow (1) | |
| III (9) | III A | Gull (4) | 87.6 | Gull (4) | |
| 90.3 | Sew (23) | Gull (6) | |||
| 92.1 | Sew (5) | ||||
| 96.4 | Cow (5) | ||||
| 94.0 | Gull (3) | ||||
| 90.7 | Cow (3) | Gull (1) | |||
| IV A | Sew (47), gull (18), cow (18) | 81.3 | Sew (4) | ||
| 81.3 | Gull (2) | ||||
| 86.3 | Gull (2) | ||||
| 96.8 | Cow (9) | ||||
| IV B | Sew (1), gull (2) | 79.3 | Gull (2) | ||
| IV (157) | IV C | Sew (4), gull (2) | 97.4 | Sew (4) | |
| 87.4 | Gull (4) | ||||
| IV D | Sew (4), gull (10) | 94.4 | Sew (2) | ||
| 72.3 | Gull (3) | ||||
| IV E | Sew (4) | 78.1 | Sew (4) | ||
| IV F | Sew (6), cow (14) | 83.9 | Cow (10) | ||
| 78.1 | Sew (5) | Cow (1) | |||
| IV G | Sew (14), gull (2), cow (2) | 72.9 | Sew (14) | Cow (2) | |
| IV H | Sew (1), gull (3) | 93.3 | Gull (3) | ||
a
Major clusters were identified by using the cluster cutoff method (see methods); the cutoff values for significant clusters were 33.0, 39.0, 43.7, and 38.9% similarity indices for clusters I, II, III, and IV, respectively. Three isolates did not fall into a significant cluster and are not shown in the table.
b
Subclusters with three or more isolates with >65% similarity indices are listed. Remaining isolates were either single isolates or pairs of isolates or isolates with <65% similarity to the other isolates in the dendrogram.
c
The host-specific group was defined as a group of isolates that contained a minimum of 75% of the members from a single host group.
d
Sew, sewage.