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To achieve an extended understanding of its gene regulatory network, we combined large-scale network inference and experimental verification of results obtained by a systems biology approach.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>22 new genes contained in two operons controlled by PdhR (previously only 20 regulatory targets in eight operons were known) were identified by analysing a large-scale dataset of <jats:italic>E. coli<\/jats:italic> from the Many Microbes Microarray Database and novel expression data from a <jats:italic>pdhR<\/jats:italic> knockout strain, as well as a PdhR overproducing strain. We identified a regulation of the glycolate utilization operon <jats:italic>glcDEFGBA<\/jats:italic> using chromatin immunoprecipitation and gel shift assays. We show that this regulation could be part of a cross-induction between genes necessary for acetate and pyruvate utilisation controlled through PdhR. Moreover, a link of PdhR regulation to the replication machinery of the cell via control of the transcription of the <jats:italic>dcw<\/jats:italic>-cluster was verified in experiments. This augments our knowledge of the functions of the PdhR-regulon and demonstrates its central importance for further cellular processes in <jats:italic>E. coli<\/jats:italic>.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusions<\/jats:title>\n            <jats:p>We extended the PdhR regulon by 22 new genes contained in two operons and validated the regulation of the <jats:italic>glcDEFGBA<\/jats:italic> operon for glycolate utilisation and the <jats:italic>dcw<\/jats:italic>-cluster for cell division proteins experimentally. Our results provide, for the first time, a plausible regulatory link between the nutritional status of the cell and cell replication mediated by PdhR.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1752-0509-5-197","type":"journal-article","created":{"date-parts":[[2011,12,14]],"date-time":"2011-12-14T19:28:01Z","timestamp":1323890881000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":34,"title":["More than just a metabolic regulator - elucidation and validation of new targets of PdhR in Escherichia coli"],"prefix":"10.1186","volume":"5","author":[{"given":"Anna-Katharina","family":"G\u00f6hler","sequence":"first","affiliation":[]},{"given":"\u00d6znur","family":"K\u00f6kpinar","sequence":"additional","affiliation":[]},{"given":"Wolfgang","family":"Schmidt-Heck","sequence":"additional","affiliation":[]},{"given":"Robert","family":"Geffers","sequence":"additional","affiliation":[]},{"given":"Reinhard","family":"Guthke","sequence":"additional","affiliation":[]},{"given":"Ursula","family":"Rinas","sequence":"additional","affiliation":[]},{"given":"Stefan","family":"Schuster","sequence":"additional","affiliation":[]},{"given":"Knut","family":"Jahreis","sequence":"additional","affiliation":[]},{"given":"Christoph","family":"Kaleta","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2011,12,14]]},"reference":[{"issue":"3","key":"833_CR1","doi-asserted-by":"publisher","first-page":"519","DOI":"10.1111\/j.1365-2958.1995.tb02265.x","volume":"15","author":"MA Quail","year":"1995","unstructured":"Quail MA, Guest JR: Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhR-aceEF-lpd operon of Escherichia coli. 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