Fig. 5

LpLttR binding sites analysis. A Detecting the conserved binding motif of LpLttR using the MEME online tool. The LttRs used as the MEME input included the LpLttR and cla operon regulated by LpLttR in Lactobacillus plantarum, catBCA regulated by CatR in Pseudomonas putida, clcABD operon on plasmid pAC27 regulated by ClcR, tcbCDEF on plasmid pP51 controlled by TcbR of Pseudomonas sp. strain P51, cbnABCD controlled by CbnR in Ralstonia eutropha, tfdA regulated by TfdR/S in R. eutropha JMP134, catBCIJFD regulated by CatM in Acinetobacter sp. benABCDE controlled by BenM in Acinetobacter, and linE-linD regulated by LinR in Sphingomonas. The motif count setting was searching for one motif. Motif width was between 6 and 50. B The predicted binding sites of LplttR on the target gene promoters. The operons of the differential genes were predicted by the website (http://www.microbesonline.org/operons/gnc220668.html). C Molecular interaction of LpLttR to the regulatory region of the target genes. Both the correspondence of the gene names annotated in KEGG database and that used in the transcriptome sequencing are listed. The interaction mainly contains two processes: association and dissociation. During the association process, the spectral interference shift increased, while the wavelength shift decreased during dissociation. Different colors represent different target gene promoters