Table 5.
Assignment of genetic profiles according to the different typing schemes for strains initially belonging to the lineage C.
| Strain ID | Isolation Source | Year of isolation | ST – gyrA – porA – Extended MLST | CT – cgMLST SeqSphere+ | Genotype – cgMLST Oxford | L1:L2:L3 – cgMLST INNUENDO | Genotype – wgMLST INNUENDO |
|---|---|---|---|---|---|---|---|
| Camp059 | V | 2015 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp058 | H | 2015 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp067 | V | 2016 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp065 | H | 2016 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp064 | V | 2016 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp069 | MA | 2017 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp063 | V | 2016 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg3 |
| Camp060 | H | 2015 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg9 |
| Camp070 | H | 2017 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg10 |
| Camp055 | V | 2014 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg11 |
| Camp056 | H | 2014 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg11 |
| Camp066 | V | 2016 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg11 |
| Camp068 | H | 2017 | 464 – 8 – 1678 | 75 | Ox3 | 29:70:7 | wg11 |
| Camp054 | H | 2012 | 464 – 8 – 1678 | 75 | Ox5 | 29:70:7 | wg12 |
| Camp072 | H | 2018 | 464 – 8 – 1678 | 75 | Ox6 | 29:70:7 | wg13 |
In the column Isolation Source, H refers to clinical samples, MA to mammals (cattle and sheep), V to poultry, and SW to surface waters.
ST, Sequence Type; CT, Complex Type; MLST, Multi Locus Sequence Typing; cg, core genome; wg, whole genome.