TABLE 4.
In silico-predicted gene knockouts that lead to auxotrophy from the top-ranked discriminant genes in k-mer-based and SNP-based classifiers listed for each antibiotic
| Antibiotic | Gene(s) leading to specific auxotrophya |
|---|---|
| Ampicillin | |
| Aztreonam | |
| Cefepime | Pyrimidine compounds (pyrF) |
| Cefoxitin | |
| Ciprofloxacin | Phenylalanine (pheA), histidine (hisA, hisB*, hisD, hisF, hisG, hisI*, hisH*), pantothenate (panD), thiamine (iscS, thiD), proline (proC), nucleosides (purA), peptidoglycan precursors (dapE) |
| Levofloxacin | Histidine (hisF), thiamine (thiD*) |
| Gentamicin | Cysteine-derived compounds (cysH) |
| Meropenem | Histidine (hisA, hisB, hisD*, hisC*, hisF*, hisH*), S-methyl-l-methionine (metF), thiamine (iscS), pyridoxine (pdxA), cysteine (cysJ), peptidoglycan precursors (murC) |
| Tetracycline | |
| Tobramycin | Thiamine (iscS) |
| Trimethoprim |
a
Symbol: *, genes associated with the top 50 ranked features of the antibiotic AMR model.