Targeted gene Name   Sequence 5’ →3’ Amplicon size (bp) rpoB rpoBf Fa CGT CGC CTC CAT CAA GGA 68 rpoBr Ra GCG GGT TGT TCT GGT CCA T rpoBprobe Pa CTT CGG CAC CAG CCA  txtA txtAfor Fa TGC TCA ACT CCG TGA TCC AGT A 69 txtArev Ra GGG ACA CCT CGC GCA GTA txtAprobe Pa CCT CAG GCG ATT ACC TGT txtC txtCfor Fa ACC ATC TCG CTG TCC TTG GT 61 txtCrev Ra CGT GGA CGA CGG AGA ACT TC txtCprobe Pa TTA TGC ACT GCA GCC GG nec1 nec1for Fa GCT TGG GCC GGT ATG CT 54 nec1rev Ra TGC AGG CGA GGT GTT TTA AA nec1probe Pa CTT CCT GAA AGC GCC tomA tomAfor Fa CCA GAA GCT CGG ACT CGA AGT 67 tomArev Ra CTG CTG ATC CAC GTC GTA GGT tomAprobe Pa CGA TCA CCG AAC TCG ACG T

aF, forward primer; R, reverse primer; P, TaqMan probe

Table 1: Sequences of primers and TaqMan probes used in this study.