TABLE 2.

Primers used in this study

Purpose, relevant gene, or primer nameOligonucleotide sequence (5′ → 3′)Position (bp)
Probe generation
    slpA
        slpA-NB1GCT GCT CCT GTT TTT GCT+54/+71
        slpA-NBR1CTT CTT TTG CAT TTA TAA C+828/+810
    cwp66
        cwp66-R1AAT CCA TCA TCT GTA GCG+1818/+1801
        cwp66-NB1CTC AAA TTG GTG GCT TAG G+915/+933
        cwp66-NBR1ATG GCT CTT CAT CTG TTG G+1712/+1694
    cwp84
        cwp84-NB1CTC TAG ATG GAG TAG AAA CT+104/+123
        cwp84-NBR1GAC CAG CAT ATT CAA GTT G+1030/+1012
    gdh
        gdh-NB1GAT GTA AAT GTC TTC GAG ATG+13/+33
        gdh-NBR1GGT CCA TTA GCA GCC TCA C+974/+956
RT-PCR
    slpA
        orf6-RT1AGA TGG ACA AGT GTA TGC+1545/+1562
        slpA-RTR1CAG TCG TTT TTA ACT ACA G+115/+97
        slpA-RT1ATG GTG GAA CTA ACT TAG+2077/+2094
        orf7-RTR1TTG CTC ATC TGC TTT GTC+41/+24
    cwp66
        orf8-RT1AGT TGA ATT GAC AGT AAT AC+1824/+1843
        orf9-RTR1CTG TGC ATA ATA TGA CAT GT+60/+41
        orf9-RT1GCT ATA GGA TAT CAT TCA G+576/+594
        slpA-RTR1GAT AAA GCA TCT GCT ATG G+195/+177
Amplification of functional gene domains
    cwp84
        orfE-ATGGGG GTA AAC ATG AGA AAG−9/+9
        cwp84-TAAGGA ACT CCA TTT ACT ACT G+1178/+1150
    cwp66
        cwp66-1AGC AGT GGG TGT ATT AGC+805/+822
        cwp66-R1AAT CCA TCA TCT GTA GCG+1818/+1801
        cwp66-NB1CTC AAA TTG GTG GCT TAG G+915/+933
        cwp66-NBR1ATG GCT CTT CAT CTG TGG G+1712/+1694
        cwp66-ATGCGA AAG AAT TAG GAG GTA AGA−35/−15
        cwp66-TAATAT GTA TGT AAT GAT TGA TTT GC+1992/+1970