Modeling feedback loops in the H-NS-mediated regulation of the Escherichia coli bgl operon

Radde, Nicole; Gebert, Jutta; Faigle, Ulrich; Schräder, Rainer; Schnetz, Karin

doi:10.1016/j.jtbi.2007.09.033

Cited by 5 publications

(4 citation statements)

References 29 publications

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“…Significant binding of YncC to the coding sequences tested so far was not observed (data not shown). YncC might help relieve H-NS silencing indirectly, by increasing the transcription initiation rate at pyciG STM and, thus, the transcription elongation rate across the H-NS binding region, in line with the situation reported at the bgl promoter (49). Further experiments will evaluate the effect of downstream sequences in H-NS silencing of pyciG STM .…”

Section: Discussionsupporting

confidence: 53%

A Proteomic Analysis Reveals Differential Regulation of the σS-Dependent yciGFE(katN) Locus by YncC and H-NS in Salmonella and Escherichia coli K-12

Beraud

Kolb

Monteil

et al. 2010

Molecular & Cellular Proteomics

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The stationary phase sigma factor S (RpoS) controls a regulon required for general stress resistance of the closely related enterobacteria Salmonella and Escherichia coli. In eubacteria, transcription depends on a multisubunit RNA polymerase (RNAP) consisting of a catalytically active core enzyme (E) with a subunit structure ␣ 2 ␤␤', that associates with any one of several factors to form different holoenzyme (E) species. The subunit is required for specific promoter binding, and different factors direct RNAP to different classes of promoters, thereby modulating gene expression patterns (1). The RNA polymerase holoenzyme containing the 70 subunit is responsible for the transcription of most genes during exponential growth (1). When cells enter stationary phase or are under specific stress conditions during exponential growth, S , encoded by the rpoS gene, becomes more abundant, associates with the core enzyme, and directs the transcription of genes essential for the general stress response (1-3). In the closely related Enterobacteria Salmonella and Escherichia coli, S is required for stationary phase survival, stress resistance, and biofilm formation. It is also involved in the virulence of Salmonella enterica serovar Typhimurium (S. Typhimurium) (4). Transcriptome analyses in S. Typhimurium and E. coli K-12 have shown that rpoS controls more than 300 genes, 40% of which are of unknown function (3,5,6). A large fraction of S -controlled genes encode putative regulators and signal transducing factors, suggesting that S controls a complex network with regulatory cascades and signal input at levels downstream of S itself. We previously used a bank of S.Typhimurium mutants to identify S -regulated genes (7). One of these genes, the yncC gene (7), encoded a putative DNA binding protein of the GntR/FadR family of bacterial regulators (8 -10). To further investigate the function of the yncC gene, we decided to characterize the proteome of the Salmonella yncC mutant by the surface-enhanced laser desorption/ionization-time of flight (SELDI-TOF 1 ) ProteinChip technology.The SELDI-TOF method is based on the selective protein retention on a solid-phase chromatographic chip surface and successive analysis by simple laser desorption/ionization mass spectrometry (11). Because of its high-throughput nature and experimental simplicity, this technology has been widely used for protein profiling of tissues and biomarker discovery (11) and unpublished work from our laboratory reFrom the §Institut Pasteur, Unité de Gé né tique molé culaire, Dé partement de Microbiologie

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Section: Discussionsupporting

confidence: 53%

A Proteomic Analysis Reveals Differential Regulation of the σS-Dependent yciGFE(katN) Locus by YncC and H-NS in Salmonella and Escherichia coli K-12

Beraud

Kolb

Monteil

et al. 2010

Molecular & Cellular Proteomics

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“…The Δ crp mutants were complemented with plasmids pDCRP, pDCRP-H159L, pKES324 (CRP-H19L), pKES328 (CRP-K101E) and the empty vector pDctrl as control (−) (right panel in A). The bgl-lacZ reporter fusion carries all elements required for repression by HNS, and a mutation of terminator t1 (t1 RAT ) to render expression independent of substrate-specific regulation by the operon encoded transcriptional antiterminator BglG (38,39). The standard deviation of β-galactosidase activities marked with an asterisk (*) is 40% .…”

Section: Resultsmentioning

confidence: 99%

Transcriptional regulation by BglJ–RcsB, a pleiotropic heteromeric activator in Escherichia coli

Salscheider¹,

Jahn²,

Schnetz³

2013

Nucleic Acids Research

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The bacterial Rcs phosphorelay signals perturbations of the bacterial cell envelope to its response regulator RcsB, which regulates transcription of multiple loci related to motility, biofilm formation and various stress responses. RcsB is unique, as its set of target loci is modulated by interaction with auxiliary regulators including BglJ. The BglJ–RcsB heteromer is known to activate the HNS repressed leuO and bgl loci independent of RcsB phosphorylation. Here, we show that BglJ–RcsB activates the promoters of 10 additional loci (chiA, molR, sfsB, yecT, yqhG, ygiZ, yidL, ykiA, ynbA and ynjI). Furthermore, we mapped the BglJ–RcsB binding site at seven loci and propose a consensus sequence motif. The data suggest that activation by BglJ–RcsB is DNA phasing dependent at some loci, a feature reminiscent of canonical transcriptional activators, while at other loci BglJ–RcsB activation may be indirect by inhibition of HNS-mediated repression. In addition, we show that BglJ–RcsB activates transcription of bgl synergistically with CRP where it shifts the transcription start by 20 bp from a position typical for class I CRP-dependent promoters to a position typical for class II CRP-dependent promoters. Thus, BglJ–RcsB is a pleiotropic transcriptional activator that coordinates regulation with global regulators including CRP, LeuO and HNS.

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“…4B). However, expression of this reporter is independent of regulatory elements for sugar-specific regulation, as it carries a mutation of terminator t1 (43,46). Note that sugar-specific regulation of the bgl operon is promoter independent and is mediated by the specific transcriptional antiterminator BglG, which allows transcription read-through at terminator t1.…”

Section: Mapping Of a Bglj-rcsb Box In The Bgl Regulatory Regionmentioning

confidence: 99%

BglJ-RcsB Heterodimers Relieve Repression of theEscherichia coli bglOperon by H-NS

et al. 2010

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Modeling feedback loops in the H-NS-mediated regulation of the Escherichia coli bgl operon

Cited by 5 publications

References 29 publications

A Proteomic Analysis Reveals Differential Regulation of the σS-Dependent yciGFE(katN) Locus by YncC and H-NS in Salmonella and Escherichia coli K-12

A Proteomic Analysis Reveals Differential Regulation of the σS-Dependent yciGFE(katN) Locus by YncC and H-NS in Salmonella and Escherichia coli K-12

Transcriptional regulation by BglJ–RcsB, a pleiotropic heteromeric activator in Escherichia coli

BglJ-RcsB Heterodimers Relieve Repression of theEscherichia coli bglOperon by H-NS

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