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AraC Transcription Factor (0):
Recent article
AraC Transcription Factor
Nucleic Acids Research (38)11 2010
Abstract
We successfully constructed a series of DNA plasmids that carry many tandem copies of a DNA-binding site for one sequence-specific DNA-binding protein, such as lambda O, LacI, GalR, CRP and AraC. In this case, the protein-induced Delta Lk was greatly amplified and can be measured experimentally. Ind...
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PMID: 20185570
PDF is available here.
PDF is available here.
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Journal of Bacteriology (192)1 2010
Abstract
We further investigated our previous finding that rhaS deletion resulted in a threefold increase in rhaSR promoter activity, suggesting RhaS negative autoregulation of rhaSR. We found that RhaS autoregulation required the cyclic AMP receptor protein (CRP) binding site at rhaSR and that RhaS was able...
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PMID: 19854903
PDF is available here.
PDF is available here.
Infection and Immunity (77)3 2009
Abstract
We report that the induction of plcH and pchP transcription by glycine betaine is mediated by GbdR, an AraC family transcription factor. Mutants that lack gbdR are unable to induce plcH and pchP in media containing glycine betaine or choline and in phosphatidylcholine-rich environments, such as lung...
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PMID: 19103776
PDF is available here.
PDF is available here.
Abstract
One of the two crystal structures of the arm-dimerization domain determined in the absence of arbinose fails to show the arm, whereas the other structure does show it. The two structures lead to different pictures for the regulatory behavior of the arms. Trypsin digestion, fluorescence anisotropy, a...
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PMID: 18561170
PDF is available here.
PDF is available here.
Abstract
We report the construction of a series of Escherichia-Pseudomonas broad-host-range expression vectors utilizing the P(BAD) promoter and the araC regulator for routine cloning, conditional expression, and analysis of tightly controlled and/or toxic genes in pseudomonads.
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PMID: 18849445
PDF is available here.
PDF is available here.
Infection and Immunity (76)12 2008
Abstract
We first examined the expression of the perA gene in the original PAI strain MMH594 and in an unrelated clinical isolate E99 by reverse transcription-PCR. Interestingly, expression analysis revealed no detectable perA transcript in MMH594, whereas a transcript was observed in strain E99. Nucleotide...
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PMID: 18824537
PDF is available here.
PDF is available here.
Molecular Microbiology (70)4 2008
Abstract
We show that gadW transcription occurs from two native promoters, which are affected by the transcription of the divergently transcribed and GadX-dependent gadY small RNA, and from the gadX promoter. The gadXW dicistronic transcript is subjected to post-transcriptional processing in which GadY is in...
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PMID: 18808381
PDF is available here.
PDF is available here.
Microbiology (154)Pt 9 2008
Abstract
We have developed a system for the induction of marker-free mutation of Bacillus subtilis. The system features both the advantages of the use of antibiotic-resistance markers for mutant selection, and the ability to efficiently remove the markers, leaving unmarked mutations in the genome. It utilize...
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PMID: 18757790
PDF is available here.
PDF is available here.
Cancer Research (68)9 2008
Abstract
We investigated the mechanism of apoptosis induction of obatoclax (GX15-070), a novel Bcl-2 homology domain-3 (BH3) mimetic, in acute myeloid leukemia (AML) cell lines and primary AML samples. Obatoclax inhibited cell growth of HL-60, U937, OCI-AML3, and KG-1 cell lines. Apoptosis induction contribu...
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PMID: 18451169
PDF is available here.
PDF is available here.
Abstract
We assigned a functional regulatory role for 75% of the TFs dataset. Of these, 33.7% regulate genes involved in carbon-source catabolism, 9.6% global metabolism, 8.3% nitrogen metabolism, 2.9% adaptation responses, 8.9% stress responses, and 11.7% virulence. The abundance of TFs involved in the regu...
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PMID: 17712603
PDF is available here.
PDF is available here.
Abstract
We describe maintains tight repression in the absence of effector. The presence of 100 mM L-arabinose does not influence the response of the reported mutants to D-arabinose, and the mutants are not induced by other sugars tested (D-xylose, D-fucose, D-lyxose). Co-expression of the FucP transporter i...
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PMID: 18355019
PDF is available here.
PDF is available here.
Metabolic Engineering (10)2 2008
Abstract
We report the integration of an expression cassette based on the Acinetobacter sp. chnB promoter and its cognate positive regulator chnR gene into a replicon derived from the broad-host-range plasmid RK2. Cyclohexanone was found to be the most efficient inducer of this system in Escherichia coli, us...
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PMID: 17950643
PDF is available here.
PDF is available here.
Abstract
We report that the AraC-family regulator GadX increases multidrug resistance in E. coli through activation of the MdtEF efflux pump. Screening of random fragments of genomic DNA for ability to increase beta-lactam resistance led to the isolation of a plasmid containing gadX, which codes for the regu...
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PMID: 18297445
PDF is available here.
PDF is available here.
Nucleic Acids Research (36)2 2008
Abstract
A new method for measuring distances between points in the AraC-DNA complex was developed and applied. It utilizes variable lengths of single-stranded DNA that connect double-stranded regions containing the two half-site binding sequences of AraC. These distances plus the protein interdomain linker...
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PMID: 18039712
PDF is available here.
PDF is available here.
Biochimica et Biophysica Acta (1784)2 2008
Abstract
We report here the purification and the characterization of a beta-galactosidase from this source, the cloning of its gene, and the expression and the characterization of the recombinant enzyme (Aabeta-gal).The enzyme was purified 46-fold from A. acidocaldarius extracts; the gene for Aabeta-gal enco...
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PMID: 18068682
PDF is available here.
PDF is available here.
Journal of Bacteriology (190)4 2008
Abstract
We found that, in wild-type cells grown in LB medium at pH 7.0 or pH 5.5, repression of hdeAB by MarA occurred only in stationary phase and was reduced in the absence of H-NS and GadE, the main regulators of hdeAB. Moreover, repression of hdeAB by MarA was greater in the absence of GadX or Lrp in ex...
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PMID: 18083817
PDF is available here.
PDF is available here.
Directed evolution of AraC for improved compatibility of arabinose- and lactose-inducible promoters.
Abstract
We demonstrate the directed evolution of AraC to construct an arabinose-inducible (P(BAD)) system that is more compatible with IPTG (isopropyl-beta-D-1-thiogalactopyranoside) induction of a lactose-inducible (P(lac)) system. The constructed system is 10 times more sensitive to arabinose and tolerate...
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PMID: 17644634
PDF is available here.
PDF is available here.
Microbiology (153)Pt 9 2007
Abstract
Enteric bacteria must survive the extreme acid of the stomach (pH 2 or less) before entering the intestine where they can colonize and cause disease. Escherichia coli is superior to most other Enterobacteriaceae in surviving pH 2 acid stress because it has four known acid-resistance systems, the mos...
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PMID: 17768258
PDF is available here.
PDF is available here.
Microbiology (153)Pt 8 2007
Abstract
Escherichia coli can survive pH 2 acid stress by using several acid resistance systems. The most efficient of these employs glutamate decarboxylase (GadA/GadB) to consume protons, and an antiporter (GadC) to exchange the intracellular decarboxylation product for external glutamic acid. Expression of...
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PMID: 17660422
PDF is available here.
PDF is available here.
Journal of Bacteriology (189)14 2007
Abstract
We examined the ability of the DNA-binding domains of RhaS (RhaS-CTD) and RhaR (RhaR-CTD) to bind to DNA and activate transcription. RhaS-CTD and RhaR-CTD were both shown by DNase I footprinting to be capable of binding specifically to the appropriate DNA sites. In vivo as well as in vitro transcrip...
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PMID: 17513476
PDF is available here.
PDF is available here.
Abstract
We found that the aggregation does not significantly occur at physiological concentrations of AraC. We also found that the Y31V mutation eliminates the self-association, but does not affect regulation properties of the protein. At the same time, the mutation allows crystallization of the dimerizatio...
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PMID: 17173282
PDF is available here.
PDF is available here.
Journal of Bacteriology (189)1 2007
Abstract
Substitutions within the interdomain linkers of the AraC/XylS family proteins RhaS and RhaR were tested to determine whether side chain identity or linker structure was required for function. Neither was found crucial, suggesting that the linkers do not play a direct role in activation, but rather si...
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PMID: 17071764
PDF is available here.
PDF is available here.
Protein Science (15)12 2006
Abstract
We investigated how the normal presence of the arm inhibits this self-association. One possibility is that arms can act as an entropic bristles to interfere with the approach of other macromolecules, thereby decreasing collision frequencies. We examined the repulsive effect of flexible arms by measu...
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PMID: 17132863
PDF is available here.
PDF is available here.
Journal of Bacteriology (188)23 2006
Abstract
We found that the AraC-like activators GadX and GadW share the same 44-bp binding sites in the gadA and gadBC regulatory regions. The common binding sites are centered at 110.5 bp and 220.5 bp upstream of the transcriptional start points of the gadA and gadBC genes, respectively. At the gadA promote...
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PMID: 16980449
PDF is available here.
PDF is available here.
Abstract
We have begun characterization of a gene found in the pdt gene cluster of Pseudomonas stutzeri KC predicted to have a regulatory role. That gene product is an AraC family transcriptional activator, PdtC. Quantitative reverse transcription-PCR and expression of transcriptional reporter fusions were u...
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PMID: 16936044
PDF is available here.
PDF is available here.
Journal of Bacteriology (188)16 2006
Abstract
We investigated compounds that induce the expression of the mdtEF genes and found that out of 20 drug exporter genes in E. coli, the expression of mdtEF is greatly induced by N-acetyl-d-glucosamine (GlcNAc). The induction of mdtEF by GlcNAc is not mediated by the evgSA, ydeO, gadX, and rpoS signalin...
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PMID: 16885453
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (280)49 2005
Abstract
We show that an AraC-type regulator, termed RipA for "regulator of iron proteins A," is involved in this type of regulation. A C. glutamicum DeltaripA mutant has a 2-fold higher aconitase activity than the wild type under iron limitation, but not under iron excess. Comparison of the mRNA profiles of...
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PMID: 16179344
PDF is available here.
PDF is available here.
Molecular Microbiology (58)2 2005
Abstract
We describe a novel virulence and QS modulator (VqsM) that positively regulates the QS systems in P. aeruginosa. Mutation in vqsM resulted in much reduced production of N-acylhomoserine lactones (AHLs) and extracellular enzymes. Sequence analysis revealed that vqsM encodes a transcriptional regulato...
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PMID: 16194239
PDF is available here.
PDF is available here.
Infection and Immunity (73)7 2005
Abstract
We characterized another regulator, EsrC, which showed significant sequence similarity to the AraC family of transcriptional regulators. Mutants with in-frame deletions of esrC increased the 50% lethal doses in blue gourami fish, reduced extracellular protein production, and failed to aggregate. Com...
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PMID: 15972502
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (280)22 2005
Abstract
We provide evidence that the nucleoid-associated protein H-NS directly functions as repressor of gadA, one of the structural genes, and gadX, a regulatory gene encoding one of the primary activators of the gad system. Band shift and DNase I footprints reveal that H-NS indeed binds to specific sites...
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PMID: 15795232
PDF is available here.
PDF is available here.
Tuberculosis (85)5-6 2005
Abstract
We had previously reported identification of the virS gene of Mycobacterium tuberculosis (Rv3082c) belonging to the AraC family of transcriptional regulators. The 7 genes (Rv3083-Rv3089) which are present divergently to virS (Rv3082c) constitute an operon designated as the mymA operon. Further inves...
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PMID: 16256440
PDF is available here.
PDF is available here.
Abstract
The allosteric mechanism by which the gene expression regulatory protein AraC regulates its DNA-binding activity is shown to be portable by grafting it to beta-galactosidase, generating an arabinose-regulated beta-galactosidase. A portion of the alpha-peptide sequence that complements the activity o...
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PMID: 15326589
PDF is available here.
PDF is available here.
Molecular Microbiology (54)2 2004
Abstract
A number of AraC family transcriptional activators bind low-molecular-weight ligands that modulate the activity of these proteins. Recently, it has become clear that the activity of several virulence-related AraC family members is regulated through the direct interaction of protein ligands. These in...
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PMID: 15469502
PDF is available here.
PDF is available here.
Journal of Bacteriology (186)20 2004
Abstract
We show that GadY exists in three forms, a long form consisting of 105 nucleotides and two processed forms, consisting of 90 and 59 nucleotides. The expression of this small RNA is highly induced during stationary phase in a manner that is dependent on the alternative sigma factor sigmaS. Overexpres...
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PMID: 15466020
PDF is available here.
PDF is available here.
Infection and Immunity (72)9 2004
Abstract
These results suggest that Rv1931c regulates genes important for virulence of M. tuberculosis....
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PMID: 15322050
PDF is available here.
PDF is available here.
Journal of Bacteriology (186)18 2004
Abstract
We have identified genes induced by DsrA. Steady-state levels of mRNAs from many genes increased with DsrA overproduction, including multiple acid resistance genes of E. coli. Quantitative primer extension analysis verified the induction of individual acid resistance genes in the hdeAB, gadAX, and g...
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PMID: 15342588
PDF is available here.
PDF is available here.
Journal of Molecular Biology (340)4 2004
Abstract
Intact AraC protein is poorly soluble and difficult to purify, whereas its dimerization domain is the opposite. Unexpectedly, the DNA binding domain of AraC proved also to be soluble in cells when overproduced and is easily purified to homogeneity. The DNA binding affinity of the DNA binding domain...
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PMID: 15223316
PDF is available here.
PDF is available here.
Journal of Bacteriology (186)5 2004
Abstract
We characterize the transcriptional regulation of three genes encoding arabinan-degrading enzymes that are clustered with genes encoding enzymes that further catabolize arabinose. The abfA gene comprised in the metabolic operon araABDLMNPQ-abfA and the xsa gene located 23 kb downstream most probably...
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PMID: 14973026
PDF is available here.
PDF is available here.
Infection and Immunity (72)2 2004
Abstract
We investigate whether regulatory genes other than soxR/S and marA are active in response to oxidative stress in Salmonella and may function as virulence determinants. We identified a bacterial gene, which was designated ramA (342 bp) and mapped at 13.1 min on the Salmonella chromosome, that, when o...
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PMID: 14742546
PDF is available here.
PDF is available here.
Microbiology (150)Pt 1 2004
Abstract
In several Gram-positive and Gram-negative bacteria glutamate decarboxylases play an important role in the maintenance of cellular homeostasis in acid environments. Here, new insight is brought to the regulation of the acid response in Escherichia coli. Overexpression of yhiE, similarly to overexpre...
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PMID: 14702398
PDF is available here.
PDF is available here.
Journal of Bacteriology (185)23 2003
Abstract
We recently demonstrated that GadE, the essential activator of the genes, was itself acid induced. In this report we present evidence that there is a regulatory loop involving cross-repression of two AraC-like regulators, GadX and GadW, that can either assist or interfere with GadE activation of the...
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PMID: 14617649
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (278)36 2003
Abstract
We used comparative genomics and biochemical methods to show that Rv1395 is unique to the M. tuberculosis complex and that it encodes a protein that binds the region between two divergent genes, a member of the cytochrome P450 family (Rv1394c or cyp132) and Rv1395 itself. Rv1395 binds to this DNA re...
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PMID: 12826660
PDF is available here.
PDF is available here.
Molecular Microbiology (49)5 2003
Abstract
We report that the LuxR-like regulator GadE (formerly YhiE) is required for expression of gadA and gadBC regardless of media or growth conditions. This protein binds directly to the 20 bp GAD box sequence found in the control regions of both loci. Two previously identified AraC-like regulators, GadX...
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PMID: 12940989
PDF is available here.
PDF is available here.
Journal of Bacteriology (185)17 2003
Abstract
We identified two regulatory proteins, termed RtsA and RtsB, which are encoded in an operon located on an island integrated at tRNA(PheU) in S. enterica serovar Typhimurium. RtsA belongs to the AraC/XylS family of regulators, and RtsB is a helix-turn-helix DNA binding protein. In a random screen, we...
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PMID: 12923082
PDF is available here.
PDF is available here.
Cardiovascular Research (59)1 2003
Abstract
These results demonstrate that gp130 activation in human cardiac cells leads to cardiomyocyte hypertrophy. We discuss several hypotheses on the role of IL-6-type cytokines on cardiomyocyte functions....
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PMID: 12829178
PDF is available here.
PDF is available here.
Molecular Microbiology (48)3 2003
Abstract
We propose a model of the regulatory network of the acid resistance genes....
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PMID: 12694615
PDF is available here.
PDF is available here.
Journal of Bacteriology (185)10 2003
Abstract
Acid in the stomach is thought to be a barrier to bacterial colonization of the intestine. Escherichia coli, however, has three systems for acid resistance, which overcome this barrier. The most effective of these systems is dependent on transport and decarboxylation of glutamate. GadX regulates two...
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PMID: 12730179
PDF is available here.
PDF is available here.
Journal of Bacteriology (185)10 2003
Abstract
We fused the N-terminal end of XylS to the maltose-binding protein (MBP) in vitro and found in glutaraldehyde cross-linking assays that the protein dimerized. Experiments with a chimeric N-terminal XylS linked to a 'LexA protein showed that the dimer was stabilized in the presence of alkylbenzoates....
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PMID: 12730162
PDF is available here.
PDF is available here.
Journal of Molecular Biology (328)1 2003
Abstract
The previously isolated hemiplegic, induction-negative, repression-positive mutants, H80R and Y82C, were found to be defective in the binding of arabinose. Randomization of other residues close to arabinose in the three-dimensional structure of AraC or that make strong interactions with arabinose yi...
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PMID: 12683999
PDF is available here.
PDF is available here.
Biochimica et Biophysica Acta (1647)1-2 2003
Abstract
We provide a preliminary biochemical characterization of GadX, an activator of the Gad system belonging to the AraC/XylS family of bacterial transcriptional regulators. The GadX protein has been purified as a chimeric MalE-GadX with a yield of 15-20 mg/l of bacterial culture. The fusion protein is f...
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PMID: 12686161
PDF is available here.
PDF is available here.
Abstract
In the bacterium Escherichia coli, the AraC protein positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose. This essay describes how work from my laboratory on this system spanning more than thirty years has aided our understand...
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PMID: 12596232
PDF is available here.
PDF is available here.
Molecular Microbiology (47)3 2003
Abstract
We report that HilD and HilC can also activate expression of a subset of SPI1 genes independently of HilA. Our studies show that HilD and HilC activate transcription of invF from a promoter that is far upstream of its HilA-dependent promoter. This activation is most probably through direct binding o...
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PMID: 12535071
PDF is available here.
PDF is available here.
Journal of Bacteriology (184)24 2002
Abstract
An important feature of Escherichia coli pathogenesis is an ability to withstand extremely acidic environments of pH 2 or lower. This acid resistance property contributes to the low infectious dose of pathogenic E. coli species. One very efficient E. coli acid resistance system encompasses two isofo...
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PMID: 12446650
PDF is available here.
PDF is available here.
Journal of Bacteriology (184)21 2002
Abstract
A new Salmonella enterica serovar Typhimurium strain has been constructed to facilitate tightly regulated gene expression. Arabinose-inducible and glucose-repressible expression of a T7 RNA polymerase gene that has been integrated with an adjacent araC-P(BAD) control element into the bacterial chrom...
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PMID: 12374840
PDF is available here.
PDF is available here.
Journal of Bacteriology (184)20 2002
Abstract
Journal of Bacteriology (184)20 2002
Abstract
We characterized the pruR-putAP loci encoding the proline catabolic system of this strain. In contrast to the putA and putP (encoding proline permease) genes of other gram- negative bacteria, which are located at divergent or separate loci, Northern blotting demonstrated that the two genes form an o...
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PMID: 12270821
PDF is available here.
PDF is available here.
Archives of Microbiology (178)3 2002
Abstract
Wolinella succinogenes grows by polysulfide respiration with formate or hydrogen as electron donor. Polysulfide reduction is catalyzed by the membrane-bound polysulfide reductase complex encoded by the psrABC operon. An open reading frame, designated psrR, was found in close proximity upstream of th...
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PMID: 12189421
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (277)32 2002
Abstract
We observed effects that indicated that the imidazoline class of p38 MAPK inhibitors prevented nucleoside transport. Incubation of K562 cells with SB203580, SB203580-iodo, or SB202474, an analogue of SB203580 that does not inhibit p38 MAPK activity, inhibited the uptake of [3H]Ara C or [3H]uridine a...
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PMID: 12077112
PDF is available here.
PDF is available here.
Journal of Bacteriology (184)10 2002
Abstract
We demonstrate that transcription of both gadA and gadBC is positively controlled by gadX, a gene downstream of gadA, encoding a transcriptional regulator belonging to the AraC/XylS family. The gadX promoter encompasses the 67-bp region preceding the gadX transcription start site and contains both R...
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PMID: 11976288
PDF is available here.
PDF is available here.
Thrombosis Research (106)1 2002
Abstract
We investigated patients with APL receiving all-trans retinoic acid (ATRA) or arsenic trioxide (As(2)O(3)) treatment, contributing to the downregulation of the expression of annexin II on APL cells, and decreasing the generation of plasmin by tissue plasminogen activator (t-PA). Notably, the clinica...
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PMID: 12165291
PDF is available here.
PDF is available here.