Table 1. Summary of probes included in the PathoChip.
| Virulence factors | No. of HMMER confirmed sequence | Total probe | Covered CDS | Sequence-specific probe | No. of covered microbial species (strains) |
|---|---|---|---|---|---|
| Toxin | 1101 | 70 | 226 | 5 | 31 (75) |
| Hemolysin | 2511 | 620 | 1059 | 26 | 347 (495) |
| Capsule | 1510 | 385 | 613 | 38 | 199 (275) |
| Adhesin | 1214 | 113 | 316 | 7 | 30 (85) |
| Pilin | 2572 | 1037 | 1509 | 49 | 241 (348) |
| Fimbriae | 122 | 16 | 57 | 5 | 3 (5) |
| Colonization factor | 140 | 27 | 137 | 1 | 13 (38) |
| Siderophore | 1977 | 602 | 1708 | 57 | 243 (436) |
| Aerobactin | 490 | 125 | 188 | 7 | 41 (58) |
| Type III secretion | 1899 | 288 | 546 | 84 | 77 (143) |
| Invasin | 1128 | 64 | 131 | 12 | 34 (60) |
| Virulence protein | 454 | 73 | 96 | 11 | 35 (50) |
| Sortase | 1644 | 295 | 831 | 14 | 103 (268) |
Abbreviation: CDS, coding sequence.