To capture proteins that exhibit differential binding with PT- and non-PT-modified DNA in vivo, we performed pull-down assays using biotinylated DNA probes and the cell lysate of S. enterica serovar Cerro 87 that contains the dndBCDE-dndFGH module. For these experiments, we used two 30 bp DNA probes, B12 and B34, which share the same DNA sequences but possess PT-modified 5’-GPSAAC-3’/5’-GPSTTC-3’ and non-PT-modified 5’-GAAC-3’/5’-GTTC-3’ motifs, respectively.