Table 4.
Assignment of genetic profiles according to the different typing schemes for strains initially belonging to the lineage B.
| 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 |
|---|---|---|---|---|---|---|---|
| Camp038 | H | 2014 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp041 | V | 2014 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp040 | H | 2014 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp045 | V | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp043 | H | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp046 | V | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp042 | H | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp047 | H | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp044 | V | 2015 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp048 | H | 2016 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp051 | H | 2017 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp052 | H | 2018 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg2 |
| Camp049 | MA | 2016 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg7 |
| Camp053 | H | 2018 | 2254 – 9 – 1 | 51 | Ox2 | 19:49:4 | wg7 |
| Camp050 | H | 2017 | 2254 – 9 – 275 | 51 | Ox2 | 19:49:4 | wg8 |
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.