title: RNA polymerase trafficking in Bacillus subtilis cells.
abstract: To obtain insight into the in vivo dynamics of RNA polymerase (RNAP) on the Bacillus subtilis genome, we analyzed the distribution of the σ(A) and β' subunits of RNAP and the NusA elongation factor on the genome in exponentially growing cells using chromatin affinity precipitation coupled with gene chip mapping (ChAP-chip). In contrast to Escherichia coli RNAP, which often accumulates at the promoter-proximal region, B. subtilis RΝΑP is evenly distributed from the promoter to the coding sequences. This finding suggests that, in general, B. subtilis RNAP recruited to the promoter promptly translocates away from the promoter to form the elongation complex and proceeds without intragenic transcription attenuation. We detected RNAP accumulation in the promoter-proximal regions of some genes, most of which can be identified as transcription attenuation systems in the leader region. Our findings suggest that the differences in RNAP behavior between E. coli and B. subtilis during initiation and elongation steps might result in distinct strategies for postinitiation control of transcription. The E. coli mechanism involves trapping at the promoter and promoter-proximal pausing of RNAP in addition to transcription attenuation, whereas transcription attenuation in leader sequences is mainly employed in B. subtilis.
authors.affiliation: Graduate School of Information Science, Nara Institute of Science and Technology, 8916-5, Takayama, Ikoma, Nara 630-0192, Japan.
authors.forename: Shu
authors.initials: S
authors.lastname: Ishikawa
authors.forename: Taku
authors.initials: T
authors.lastname: Oshima
authors.forename: Ken
authors.initials: K
authors.lastname: Kurokawa
authors.forename: Yoko
authors.initials: Y
authors.lastname: Kusuya
authors.forename: Naotake
authors.initials: N
authors.lastname: Ogasawara
mesh_terms: D001412:Bacillus subtilis / Q000166:cytology* / Q000201:enzymology*; D012321:DNA-Directed RNA Polymerases / Q000378:metabolism*; D004926:Escherichia coli; D015964:Gene Expression Regulation, Bacterial / Q000502:physiology; D015971:Gene Expression Regulation, Enzymologic / Q000502:physiology; D016680:Genome, Bacterial; D020411:Oligonucleotide Array Sequence Analysis; D011401:Promoter Regions, Genetic; D011485:Protein Binding; D021381:Protein Transport / Q000502:physiology*; D014158:Transcription, Genetic
chemical_list: D012321:DNA-Directed RNA Polymerases
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