Table 2 Overview of oligonucleotide markers for pathotyping and their categorisation.
Group | Intergenic | Virulence | Uncharacterised | Transcription | Adhesion | Extracellular | Metabolism | Transport | Miscellaneous | Probeset |
|---|---|---|---|---|---|---|---|---|---|---|
Yersinia | 4 | 0 | 11 | 0 | 0 | 0 | 4 | 0 | 1 | 20 |
Klebsiella | 7 | 0 | 5 | 1 | 1 | 0 | 4 | 2 | 0 | 20 |
Salmonella | 1 | 0 | 6 | 0 | 2 | 0 | 4 | 3 | 3 | 19 |
Shigella/E. coli | 1 | 0 | 3 | 4 | 0 | 1 | 7 | 0 | 0 | 16 |
Shigella | 1 | 4 | 0 | 0 | 1 | 0 | 0 | 0 | 4 | 10 |
Non- pathogenic | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 3 |
ExPEC | 0 | 0 | 4 | 0 | 0 | 2 | 2 | 0 | 0 | 8 |
UPEC | 0 | 0 | 2 | 0 | 1 | 0 | 0 | 0 | 0 | 3 |
IPEC | 0 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 2 |
EHEC | 4 | 0 | 10 | 0 | 1 | 1 | 0 | 0 | 0 | 16 |
EPEC | 0 | 0 | 16 | 1 | 1 | 0 | 1 | 0 | 1 | 20 |
EAEC | 1 | 0 | 17 | 0 | 1 | 0 | 0 | 0 | 1 | 20 |
In total | 20 | 5 | 75 | 6 | 7 | 5 | 23 | 6 | 10 | 157 |