title: A novel regulator RcdA of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli.
abstract: The FixJ/LuxR family transcription factor CsgD is a master regulator of biofilm formation in Escherichia coli. Previously, we identified more than 10 transcription factors that participate in regulation of the csgD promoter. After genomic SELEX screening of regulation targets, an uncharacterized TetR-type transcription factor YbjK was found to be involved in regulation of the csgD promoter. In addition, a number of stress-response genes were found to be under the direct control of YbjK. Taken together, we propose to rename it to RcdA (regulator of csgD). One unique feature of RcdA is its mode of DNA binding. Gel shift, DNase-I footprinting, and atomic force microscopic (AFM) analyses indicated that RcdA is a DNA-binding protein with a high level of cooperativity, with which it covers the entire surface of probe DNA through protein-protein interaction and moreover it induces the formation of aggregates of DNA-RcdA complexes.
authors.affiliation: Department of Frontier Bioscience and Research Center for Micro-Nano Technology, Hosei University, Koganei, Tokyo, 184-8584, Japan.
authors.forename: Tomohiro
authors.initials: T
authors.lastname: Shimada
authors.forename: Yasunori
authors.initials: Y
authors.lastname: Katayama
authors.forename: Shuichi
authors.initials: S
authors.lastname: Kawakita
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Ogasawara
authors.forename: Masahiro
authors.initials: M
authors.lastname: Nakano
authors.forename: Kaneyoshi
authors.initials: K
authors.lastname: Yamamoto
authors.forename: Akira
authors.initials: A
authors.lastname: Ishihama
mesh_terms: D018441:Biofilms / Q000254:growth & development*; D015152:Blotting, Northern; D018983:DNA Footprinting; D004268:DNA-Binding Proteins / Q000235:genetics*; D024202:Electrophoretic Mobility Shift Assay; D004926:Escherichia coli / Q000235:genetics / Q000502:physiology*; D029968:Escherichia coli Proteins / Q000235:genetics*; D018625:Microscopy, Atomic Force; D011401:Promoter Regions, Genetic; D052156:SELEX Aptamer Technique; D015534:Trans-Activators / Q000235:genetics*; D014158:Transcription, Genetic / Q000502:physiology*
chemical_list: C499694:CsgD protein, E coli; D004268:DNA-Binding Proteins; D029968:Escherichia coli Proteins; D015534:Trans-Activators