TABLE 2.
Known AMR genes identified by the SNP-based AMR classifiersa
| Antibiotic | Known AMR genes to the antibioticb | Known AMR genes associated with other antibioticsb |
|---|---|---|
| Ciprofloxacin | gyrA**, parC**, parE*, typA*, hofN, valS, pnp, gyrB | speB**, yegU*, ugpB*, ampH*, fhuB*, poxB*, gss*, hybB*, phoE, speC, bglX, ftnA, pphA, yjfF, yjaB, yjjV, hofQ, yidC, prmB, hisF, plaP, truC, gcvP, mltC, rstB, mtlD, folA, metH, rnd, waaA, upp, putP, yohK, aidB, yegQ, uvrB, trmH, ulaG, yqjG, cpxA, proC, uvrA, recJ, hflX, tamB, cysK, metC, nrdB, mutM, mpl, osmF, mrcA, dcd, ravA, pepD, yejA, ribC, cstA, yeiQ, nusA, hemA, yaiZ, hybF, mglA, ysaA, potA, hemY, yjjP, recG, yebY, aroC |
| Levofloxacin | parC**, gyrA**, hemF*, recG*, mysB*, metC*, tktA*, aceF*, yicR*, blgX*, fabD*, mutS*, chaA*, msyB*, rbsA*, gcvP, glnE, pcnB, mdtB, hisF, purT, menD, nikC, ftnA, frwB, yjiN, nadR, cyoB, fumC, mdtD, citG, glgX, valS, ldcC, yebQ, adiA | |
| Meropenem | parC**, gyrA**, creC**, yrfF**, valS**, bglX**, fucI*, hisF*, parE*, plaP*, nikA*, pykF*, aidB*, yjjG*, gcvP*, yjfF*, dsbD*, lepA*, thrA*, hybB, yccS, mdtB, murC, yegR, ravA, yjjV, yjjK, mscM, menD, mutS, metF, mglA, yjcD, nuoL, nadR, rplL, dusB, yegU, sufB, nudI, ulaG, ccmD, rnr, tamB, pdxA, dld, asd, ychO, soxR, yebK, nrdB, argD, baeS, glgX, osmF, trmI, yegS, dnaX, yejH, waaC, fhuE, aroP, folA, ycbZ, rbbA, polA, recJ, speC |
a
Genes in the top 10% features, ranked according to their maximum contribution to the classifier, are presented.
b
Symbols: **, gene was associated with feature in the top 10% features; *, gene was associated with feature in the top 50% features.