Fig. 3.

LuxR binding sites upstream of quorum sensing-regulated genes. The two-layered PWM-SVM approach confirmed the known LuxR binding sites upstream of luxR, aphA and luxC and predicted sites upstream of qrgB and qrr4 (positions on DNA are shown to scale). LuxR binding sites are indicated by red boxes, the VpsR binding site at aphA is shown in blue, and the LuxO-P binding site at qrr4 is shown in green. σ⁷⁰ −35 and −10 promoter sequences are shown as yellow arrows, while the −24 and −12 sequences at the qrr4 σ⁵⁴-dependent promoter are indicated by orange arrows.