Project description:Proteus mirabilis is a leading cause of catheter-associated urinary tract infections (UTIs) and urolithiasis. The transcriptional regulator MrpJ inversely modulates two critical aspects of P. mirabilis UTI progression: fimbria-mediated attachment to the urinary tract, and flagella-mediated motility. Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) was used for the first time in a CAUTI pathogen to probe for in vivo direct targets of MrpJ. ChIP-seq revealed 81 78 direct MrpJ targets, including genes for motility, fimbriae and a type VI secretion system (T6SS), and the putative MrpJ binding sequence ACnCnnnnnnnGnGT.
Project description:Swarming motility by the urinary tract pathogen Proteus mirabilis has been a long-studied, but little understood phenomenon. On agar, a P. mirabilis colony grows outward in a bullseye pattern formed by consecutive waves of rapid swarming followed by consolidation into shorter cells. To examine differential gene expression in these growth phases, a microarray, constructed based on the completed genome sequence and annotation, was undertaken. RNA from 1) broth-cultured, or 2) swarming cells was extracted to assess transcription during each of these growth states.
Project description:Swarming motility by the urinary tract pathogen Proteus mirabilis has been a long-studied, but little understood phenomenon. On agar, a P. mirabilis colony grows outward in a bullseye pattern formed by consecutive waves of rapid swarming followed by consolidation into shorter cells. To examine differential gene expression in these growth phases, a microarray, constructed based on the completed genome sequence and annotation, was undertaken. RNA from 1) broth-cultured, or 2) consolidation-phase cells was extracted to assess transcription during each of these growth states.
Project description:We identified genome-wide binding regions of NdgR in Streptomyces coelicolor using chromatin immunoprecipitation sequencing (ChIP-seq). We constructed 6×myc-tagged NdgR strain using homologous recombination with myc-tagging vector. Analysis of the sequencing data aligned to Streptomyces coelicolor genome database (NC_003888).
