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Identification of binding sites for σ54 (RpoN) in Salmonella Typhimurium ATCC14028 [ChIP]

ABSTRACT: ChIP-chip analysis of DNA specifically bound to anti-σ54 from mid-exponentially growing Salmonella enterica sv Typhimurium ATCC14028 wild type and ΔrpoN mutant cultures containing plasmid pPBHP192 expressing protein DctD250

ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S Salmonella enterica subsp. enterica serovar Typhimurium str. ATCC 14028

PROVIDER: GSE75179 | GEO | 2017/03/27

SECONDARY ACCESSION(S): PRJNA302719

REPOSITORIES: GEO

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Identification of regulatory activities for σ54 (RpoN) in Salmonella Typhimurium ATCC14028 [expression]

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Identification of regulatory activities and binding sites for σ54 (RpoN) in Salmonella Typhimurium ATCC14028

Project description:Identification of regulatory activities and binding sites for σ54 (RpoN) in Salmonella Typhimurium ATCC14028

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Novel DNA Binding and Regulatory Activities for σ54 (RpoN) in Salmonella enterica Serovar Typhimurium 14028s.

Project description:The variable sigma (σ) subunit of the bacterial RNA polymerase (RNAP) holoenzyme, which is responsible for promoter specificity and open complex formation, plays a strategic role in the response to environmental changes. Salmonella enterica serovar Typhimurium utilizes the housekeeping σ70 and five alternative sigma factors, including σ54 The σ54-RNAP differs from other σ-RNAP holoenzymes in that it forms a stable closed complex with the promoter and requires ATP hydrolysis by an activated cognate bacterial enhancer binding protein (bEBP) to transition to an open complex and initiate transcription. In S. Typhimurium, σ54-dependent promoters normally respond to one of 13 different bEBPs, each of which is activated under a specific growth condition. Here, we utilized a constitutively active, promiscuous bEBP to perform a genome-wide identification of σ54-RNAP DNA binding sites and the transcriptome of the σ54 regulon of S. Typhimurium. The position and context of many of the identified σ54 RNAP DNA binding sites suggest regulatory roles for σ54-RNAP that connect the σ54 regulon to regulons of other σ factors to provide a dynamic response to rapidly changing environmental conditions.IMPORTANCE The alternative sigma factor σ54 (RpoN) is required for expression of genes involved in processes with significance in agriculture, bioenergy production, bioremediation, and host-microbe interactions. The characterization of the σ54 regulon of the versatile pathogen S. Typhimurium has expanded our understanding of the scope of the σ54 regulon and how it links to other σ regulons within the complex regulatory network for gene expression in bacteria.

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Project description:Investigation of whole genome gene expression level changes in a Salmonella enterica serovar Typhimurium 14028 delta GidA mutant The mutant described in this study is further analyzed in Shippy, D. C., N. M. Eakley, P. N. Bochsler, and A. A. Fadl. 2011. Biological and virulence characteristics of Salmonella enterica serovar Typhimurium following deletion of glucose-inhibited division (gidA) gene. Microb Pathog. A single chip study using three separate cultures of wild-type Salmonella enterica serovar Typhimurium 14028 and three separate cultures of a single mutant, delta GidA Salmonella enterica serovar Typhimurium 14028.

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