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https://doi.org/10.1371/journal.pone.0111962
Title: | Characterization of the YdeO regulon in Escherichia coli | Authors: | Yamanaka Y. Oshima T. Ishihama A. Yamamoto K. |
Keywords: | antiporter bacterial protein transcription factor transcription factor DctR transcription factor GadE transcription factor GadW transcription factor NhaR unclassified drug Escherichia coli protein glutamic acid transcription factor YdeO protein, E coli anaerobic respiration Article bacterial gene bacterial genome bacterial metabolism binding site breathing cellular stress response chromatin immunoprecipitation DNA footprinting Escherichia coli gel mobility shift assay gene function gene identification genetic regulation in vivo study luciferase assay metabolic regulation nonhuman operon quantitative analysis regulon reverse transcription polymerase chain reaction YdeO gene anaerobic growth Escherichia coli gene expression profiling gene expression regulation genetics metabolism operon physiological stress physiology Escherichia coli Anaerobiosis Binding Sites Escherichia coli Escherichia coli Proteins Gene Expression Profiling Gene Expression Regulation, Bacterial Glutamic Acid Operon Stress, Physiological Transcription Factors |
Issue Date: | 2014 | Citation: | Yamanaka Y., Oshima T., Ishihama A., Yamamoto K. (2014). Characterization of the YdeO regulon in Escherichia coli. PLoS ONE 9 (11) : e111962. ScholarBank@NUS Repository. https://doi.org/10.1371/journal.pone.0111962 | Rights: | Attribution 4.0 International | Abstract: | Enterobacteria are able to survive under stressful conditions within animals, such as acidic conditions in the stomach, bile salts during transfer to the intestine and anaerobic conditions within the intestine. The glutamate-dependent (GAD) system plays a major role in acid resistance in Escherichia coli, and expression of the GAD system is controlled by the regulatory cascade consisting of EvAS > YdeO> GadE. To understand the YdeO regulon in vivo, we used ChIP-chip to interrogate the E. coli genome for candidate YdeO binding sites. All of the seven operons identified by ChIP-chip as being potentially regulated by YdeO were confirmed as being under the direct control of YdeO using RT-qPCR, EMSA, DNaseI-footprinting and reporter assays. Within this YdeO regulon, we identified four stress-response transcription factors, DctR, NhaR, GadE, and GadW and enzymes for anaerobic respiration. Both GadE and GadW are involved in regulation of the GAD system and NhaR is an activator for the sodium/proton antiporter gene. In conjunction with co-transcribed Slp, DctR is involved in protection against metabolic endoproducts under acidic conditions. Taken all together, we suggest that YdeO is a key regulator of E. coli survival in both acidic and anaerobic conditions. © 2014 Yamanaka et al. | Source Title: | PLoS ONE | URI: | https://scholarbank.nus.edu.sg/handle/10635/161760 | ISSN: | 19326203 | DOI: | 10.1371/journal.pone.0111962 | Rights: | Attribution 4.0 International |
Appears in Collections: | Elements Staff Publications |
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