Table 2.
Summary of MLST and AMR profiles of C. coli strains from humans and animals in Japan.
| Source | No. isolate | Clonal Complex*1 (No. isolate) | ST*2 | No. isolate | Antimicrobial resistance to*3 | Evolutional distance*4 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
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| TET | EM | NFLX | OFLX | CPFX | NA | ABPC | GM | Node | Distance | |||||
| Human | 42 | ST-828CC (42) | 860 | 18 | 13 (72%) | 0 (0%) | 14 (78%) | 12 (67%) | 12 (67%) | 16 (89%) | 6 (33%) | 0 (0%) | 0 | 0.00 |
| 1068 | 8 | 7 (88%) | 0 (0%) | 6 (75%) | 6 (75%) | 6 (75%) | 6 (75%) | 2 (25%) | 0 (0%) | 3 | 0.43 | |||
| 1593 | 4 | 2 (50%) | 0 (0%) | 4 (100%) | 3 (75%) | 4 (100%) | 4 (100%) | 1 (25%) | 1 (25%) | 4 | 0.57 | |||
| 827 | 2 | 1 (50%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (50%) | 0 (0%) | 3 | 0.43 | |||
| 829 | 2 | 0 (0%) | 0 (0%) | 2 (100%) | 2 (100%) | 2 (100%) | 2 (100%) | 0 (0%) | 0 (0%) | 2 | 0.29 | |||
| 830 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 1 | 0.14 | |||
| 1181 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 5 | 0.71 | |||
| 831 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 5 | 0.71 | |||
| 854 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 4 | 0.57 | |||
| 8795 | 1 | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 5 | 0.71 | |||
| 8796 | 1 | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 8797 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 8798 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (100%) | 0 (0%) | 4 | 0.57 | |||
|
| ||||||||||||||
| Poultry | 25 | ST-828CC (21) | 860 | 9 | 9 (100%) | 0 (0%) | 9 (100%) | 9 (100%) | 9 (100%) | 9 (100%) | 0 (0%) | 0 (0%) | 0 | 0.00 |
| 1767 | 4 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 | 0.14 | |||
| 1628 | 2 | 1 (50%) | 0 (0%) | 1 (50%) | 1 (50%) | 1 (50%) | 1 (50%) | 0 (0%) | 0 (0%) | 2 | 0.29 | |||
| 828 | 1 | 0 (0%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 830 | 1 | 0 (0%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 1 | 0.14 | |||
| 854 | 1 | 0 (0%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 4 | 0.57 | |||
| 855 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 2 | 0.29 | |||
| 1586 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 2273 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
|
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| UA (4) | 8799 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 4 | 0.57 | ||
| 8800 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 5 | 0.71 | |||
| 8801 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 6 | 0.86 | |||
| 8802 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 4 | 0.57 | |||
|
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| Swine | 25 | ST-828CC (24) | 1562 | 11 | 10 (91%) | 8 (73%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 10 (91%) | 0 (0%) | 4 | 0.57 |
| 1145 | 3 | 3 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 (100%) | 0 (0%) | 3 | 0.43 | |||
| 872 | 2 | 2 (100%) | 2 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 2 (100%) | 0 (0%) | 2 | 0.29 | |||
| 8807 | 2 | 2 (100%) | 2 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 2 (100%) | 0 (0%) | 3 | 0.43 | |||
| 1096 | 1 | 1 (100%) | 0 (0%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 4 | 0.57 | |||
| 828 | 1 | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 4969 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (100%) | 0 (0%) | 4 | 0.57 | |||
| 8803 | 1 | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (100%) | 0 (0%) | 4 | 0.57 | |||
| 8804 | 1 | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 1 (100%) | 0 (0%) | 5 | 0.71 | |||
| 8806 | 1 | 1 (100%) | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (100%) | 0 (0%) | 3 | 0.43 | |||
|
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| UA (1) | 8805 | 1 | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 1 (100%) | 0 (0%) | 1 (100%) | 0 (0%) | 5 | 0.71 | ||
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| Cattle | 25 | ST-828CC (25) | 1068 | 18 | 2 (11%) | 0 (0%) | 3 (17%) | 3 (17%) | 3 (17%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 |
| 827 | 4 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 1110 | 2 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 3 | 0.43 | |||
| 854 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 4 | 0.57 | |||
|
| ||||||||||||||
| Wild bird | 2 | UA (2) | 1243 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 1 (100%) | 0 (0%) | 6 | 0.86 |
| 8809 | 1 | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 7 | 1.00 | |||
*1
UA, Unassigned to any CCs.
*2
Novel STs are shown in bold.0
*3
No. (percentage) of isolates resistant to the three representative antimicrobials are shown.
Intermediate (I) data are omitted from this table. More detailed information is available in Table S1.
*4
Evolutional distance is calculated by the PHYLOViZ program based on MLST data with ST-860 as a reference (distance mean=0.00).