TABLE 1.

Primers used in this study

Gene or regionPrimerSequence (5′→3′)Amplicon size (bp)Reference
cfrcfr-fwTGA AGT ATA AAG CAG GTT GGG AGT CA746This study
cfr-rvACC ATA TAA TTG ACC ACA AGC AGC
fexAfexA-fwGTA CTT GTA GGT GCA ATT ACG GCT GA1,27223
fexA-rvCGC ATC TGA GTA GGA CAT AGC GTC
tnpAtnpA-fwGGT TCA GAA AGT AAT TGT GGA GGA930This study
tnpA-rvTGT GGC ATG CGT ATG ACG TA
tnpBtnpB-fwGGA ACA GTG ATA AGC CGG ATG1,419This study
tnpB-rvACA TGG TCC TGC AAT TAC TGG TA
tnpCtnpC-fwCAG CTA GCT AAA GAC AAG TCG GA289This study
tnpC-rvGTT CAT TCT CTT CTT CTA ACG CCT T
tnpB-fexAtnpB-fex-fwCAC AGG CAC TTC CTA ATG GCT AT2,475This study
tnpB-fexA-rvGCA GGA AGT ATT GGT GTT GGA AC
Almost complete Tn558Tn558-fwACC AGA TTA ACA TCA GGC CAA G5,741This study
Tn558-rvTTA CGG TCA GAA GAA TGT ACC ACA
circcirc-fwCGG TGC CTA ATC ATT CGT ATG C87123
circ-rvCGC TTA ACC GGT TCT ATC ACT TCA