Recognition of overlapping nucleotides by AraC and the sigma subunit of RNA polymerase.

Abstract:

:The Escherichia coli promoter p(BAD), under the control of the AraC protein, drives the expression of mRNA encoding the AraB, AraA, and AraD gene products of the arabinose operon. The binding site of AraC at p(BAD) overlaps the RNA polymerase -35 recognition region by 4 bases, leaving 2 bases of the region not contacted by AraC. This overlap raises the question of whether AraC substitutes for the sigma subunit of RNA polymerase in recognition of the -35 region or whether both AraC and sigma make important contacts with the DNA in the -35 region. If sigma does not contact DNA near the -35 region, p(BAD) activity should be independent of the identity of the bases in the hexamer region that are not contacted by AraC. We have examined this issue in the p(BAD) promoter and in a second promoter where the AraC binding site overlaps the -35 region by only 2 bases. In both cases promoter activity is sensitive to changes in bases not contacted by AraC, showing that despite the overlap, sigma does read DNA in the -35 region. Since sigma and AraC are thus closely positioned at p(BAD), it is possible that AraC and sigma contact one another during transcription initiation. DNA migration retardation assays, however, showed that there exists only a slight degree of DNA binding cooperativity between AraC and sigma, thus suggesting either that the normal interactions between AraC and sigma are weak or that the presence of the entire RNA polymerase is necessary for significant interaction.

journal_name

J Bacteriol

journal_title

Journal of bacteriology

authors

Dhiman A,Schleif R

doi

10.1128/jb.182.18.5076-5081.2000

keywords:

subject

Has Abstract

pub_date

2000-09-01 00:00:00

pages

5076-81

issue

18

eissn

0021-9193

issn

1098-5530

journal_volume

182

pub_type

杂志文章
  • Bacillus subtilis phosphorylated PhoP: direct activation of the E(sigma)A- and repression of the E(sigma)E-responsive phoB-PS+V promoters during pho response.

    abstract::The phoB gene of Bacillus subtilis encodes an alkaline phosphatase (PhoB, formerly alkaline phosphatase III) that is expressed from separate promoters during phosphate deprivation in a PhoP-PhoR-dependent manner and at stage two of sporulation under phosphate-sufficient conditions independent of PhoP-PhoR. Isogenic st...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.187.15.5166-5178.2005

    authors: Abdel-Fattah WR,Chen Y,Eldakak A,Hulett FM

    更新日期:2005-08-01 00:00:00

  • Regulation of phospholipid synthesis in Escherichia coli by guanosine tetraphosphate.

    abstract::Phospholipid synthesis has been reported to be subject to stringent control in Escherichia coli. We present evidence that demonstrates a strict correlation between guanosine tetraphosphate accumulation and inhibition of phospholipid synthesis. In vivo experiments designed to examine the pattern of phospholipid labelin...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.116.1.355-366.1973

    authors: Merlie JP,Pizer LI

    更新日期:1973-10-01 00:00:00

  • MICROBIAL METABOLISM OF AROMATIC COMPOUNDS. I. DECOMPOSITION OF PHENOLIC COMPOUNDS AND AROMATIC HYDROCARBONS BY PHENOL-ADAPTED BACTERIA.

    abstract::Tabak, Henry H. (Robert A. Taft Sanitary Engineering Center, Cincinnati, Ohio), Cecil W. Chambers, and Paul W. Kabler. Microbial metabolism of aromatic carbon compounds. I. Decomposition of phenolic compounds and aromatic hydrocarbons by phenol-adapted bacteria. J. Bacteriol. 87:910-919. 1964.-Bacteria from soil and r...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.87.4.910-919.1964

    authors: TABAK HH,CHAMBERS CW,KABLER PW

    更新日期:1964-04-01 00:00:00

  • Bacterial plasmids that carry two functional centromere analogs are stable and are partitioned faithfully.

    abstract::The par genes of unit-copy plasmids P1 and F promote equitable distribution of plasmid copies to daughter cells and can be considered to be functional analogs of eucaryotic centromeres. Composite plasmids were constructed which carry either two functional P1 par regions or one F and one P1 region. Unlike dicentric chr...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.158.2.742-745.1984

    authors: Austin SJ

    更新日期:1984-05-01 00:00:00

  • Effect of netropsin on the derepression of enzymes during growth and sporulation of Bacillus subtilis.

    abstract::Netropsin, a polypeptide antibiotic which binds specifically to adenylate-thymidylate-rich regions of deoxyribonucleic acid, inhibitis sporulation at about stage II, but does not inhibit growth of Bacillys subtilis. An analysis of the sporulation-associated enzymes aconitase, alkaline phosphatase, and glucose dehydrog...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.128.1.80-85.1976

    authors: Keilman GR,Brutis K,Tanimoto B,Doi RH

    更新日期:1976-10-01 00:00:00

  • Novel genomic rearrangement that affects expression of the Streptococcus pyogenes streptolysin O (slo) gene.

    abstract::A RecA-independent chromosomal rearrangement in the upstream region of the streptolysin O (slo) gene of Streptococcus pyogenes which affects slo expression was identified. PCR analysis was used to demonstrate that this kind of rearrangement was found in several strains of different lineages. Chromosomal loci involved ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.185.6.1857-1869.2003

    authors: Savic DJ,Ferretti JJ

    更新日期:2003-03-01 00:00:00

  • The virulence regulator Sae of Staphylococcus aureus: promoter activities and response to phagocytosis-related signals.

    abstract::The two-component system SaeRS of Staphylococcus aureus is closely involved in the regulation of major virulence factors. However, little is known about the signals leading to saeRS activation. A total of four overlapping transcripts (T1 to T4) from three different transcription starting points are expressed in the sa...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.01927-07

    authors: Geiger T,Goerke C,Mainiero M,Kraus D,Wolz C

    更新日期:2008-05-01 00:00:00

  • Mechanistically novel iron(III) transport system in Serratia marcescens.

    abstract::A novel iron(III) transport system of Serratia marcescens, named SFU, was cloned and characterized in Escherichia coli. Iron acquisition by this system differed from that by E. coli and related organisms. No siderophore production and no receptor protein related to the SFU system could be detected. In addition, iron u...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.171.1.238-243.1989

    authors: Zimmermann L,Angerer A,Braun V

    更新日期:1989-01-01 00:00:00

  • Stimulation of cell division by croton oil in blue-green bacteria.

    abstract::The potent tumor-promoting agent croton oil, which has been shown previously to be strongly mitogenic in mammalian cells, stimulates cell division in snake mutants of the blue-green bacterium Agmenellum quadruplicatum. ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.114.2.874-875.1973

    authors: Ingram LO,Fisher WD

    更新日期:1973-05-01 00:00:00

  • Dual response regulators (NarL and NarP) interact with dual sensors (NarX and NarQ) to control nitrate- and nitrite-regulated gene expression in Escherichia coli K-12.

    abstract::Two sensor proteins, NarX and NarQ, mediate nitrate regulation of anaerobic respiratory gene expression. Either of these sensors is sufficient to signal the presence of nitrate to the response regulator protein, NarL, a transcriptional activator and repressor. Two observations suggested the existence of a second respo...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.175.11.3259-3268.1993

    authors: Rabin RS,Stewart V

    更新日期:1993-06-01 00:00:00

  • Paraquat regulation of hmp (flavohemoglobin) gene expression in Escherichia coli K-12 is SoxRS independent but modulated by sigma S.

    abstract::We report the first example of a gene, hmp, encoding a soluble flavohemoglobin in Escherichia coli K-12, which is up-regulated by paraquat in a SoxRS-independent manner. Unlike what is found for other paraquat-inducible genes, high concentrations of paraquat (200 microM) were required to increase the level of hmp expr...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.179.10.3164-3170.1997

    authors: Membrillo-Hernández J,Kim SO,Cook GM,Poole RK

    更新日期:1997-05-01 00:00:00

  • Alpha-alpha'-dipyridyl or ortho-phenanthroline stimulation of the soluble reduced nicotinamide adenine dinucleotide oxidase from Bacillus subtilis spores and dipicolinic acid inhibition of the stimulated enzymes.

    abstract::Soluble reduced nicotinamide adenine dinucleotide oxidase activity in extracts of Bacillus subtilis spores was stimulated by the addition of not only flavine mononucleotide (FMN) or flavine adenine dinucleotide (FAD) but also alpha-alpha'-dipyridyl or o-phenanthroline. These chelating agents showed stronger effect on ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.117.3.1017-1022.1974

    authors: Tochikubo K

    更新日期:1974-03-01 00:00:00

  • A bifunctional enzyme in Pseudomonas aeruginosa: a new pattern in the organization of enzymes concerned with phenylalanine and tyrosine biosynthesis.

    abstract::Two isozymes of chorismate mutase (CA mutase(1) and CA mutase(2)) and two isozymes of prephenate dehydratase (PPA dehydratase(1) and PPA dehydratase(2)) have been found in Pseudomonas aeruginosa. The activities CA mutase(2)-PPA dehydratase(2) catalyzing phenylalanine biosynthesis have been purified almost 40-fold and ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.115.1.205-212.1973

    authors: Ahmed SI,Campbell JJ

    更新日期:1973-07-01 00:00:00

  • Identification and characterization of IS1411, a new insertion sequence which causes transcriptional activation of the phenol degradation genes in Pseudomonas putida.

    abstract::A new insertion sequence (IS element), IS1411, was identified downstream of the phenol degradation genes pheBA that originated from plasmid DNA of Pseudomonas sp. strain EST1001. According to sequence analysis, IS1411 belongs to a new family of IS elements that has recently been named the ISL3 family (J. Mahillon and ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.180.20.5306-5312.1998

    authors: Kallastu A,Hõrak R,Kivisaar M

    更新日期:1998-10-01 00:00:00

  • Mutations that affect control of the methylesterase activity of CheB, a component of the chemotaxis adaptation system in Escherichia coli.

    abstract::Sensory adaptation by the chemotaxis system of Escherichia coli requires adjustments of the extent of methyl esterification of the chemotaxis receptor proteins. One mechanism utilized by E. coli to make such adjustments is to control the activity of CheB, the enzyme responsible for removing receptor methyl ester group...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.172.6.3388-3399.1990

    authors: Stewart RC,Roth AF,Dahlquist FW

    更新日期:1990-06-01 00:00:00

  • Ribosomes of the extremely thermophilic eubacterium Thermotoga maritima are uniquely insensitive to the miscoding-inducing action of aminoglycoside antibiotics.

    abstract::Poly(U)- and poly(UG)-programmed cell-free systems were developed from the extreme thermophilic, anaerobic eubacterium Thermotoga maritima, and their susceptibility to aminoglycoside and other antibiotics was assayed at a temperature (75 degrees C) close to the physiological optimum (80 degrees C) for cell growth and ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.170.9.4353-4360.1988

    authors: Londei P,Altamura S,Huber R,Stetter KO,Cammarano P

    更新日期:1988-09-01 00:00:00

  • Discovering functional novelty in metagenomes: examples from light-mediated processes.

    abstract::The emerging coverage of diverse habitats by metagenomic shotgun data opens new avenues of discovering functional novelty using computational tools. Here, we apply three different concepts for predicting novel functions within light-mediated microbial pathways in five diverse environments. Using phylogenetic approache...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章,评审

    doi:10.1128/JB.01084-08

    authors: Singh AH,Doerks T,Letunic I,Raes J,Bork P

    更新日期:2009-01-01 00:00:00

  • Isolation and characterization of the lacA gene encoding beta-galactosidase in Bacillus subtilis and a regulator gene, lacR.

    abstract::We have isolated transposon insertions in the lacA gene encoding an endogenous beta-galactosidase of Bacillus subtilis. Upstream of the putative operon containing lacA is a negative regulator, lacR, which encodes a product related to a family of regulators that includes the lactose repressor, lacI, of Escherichia coli...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.179.17.5636-5638.1997

    authors: Daniel RA,Haiech J,Denizot F,Errington J

    更新日期:1997-09-01 00:00:00

  • Bacillus subtilis acyl carrier protein is encoded in a cluster of lipid biosynthesis genes.

    abstract::A cluster of Bacillus subtilis fatty acid synthetic genes was isolated by complementation of an Escherichia coli fabD mutant encoding a thermosensitive malonyl coenzyme A-acyl carrier protein transacylase. The B. subtilis genomic segment contains genes that encode three fatty acid synthetic proteins, malonyl coenzyme ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.178.16.4794-4800.1996

    authors: Morbidoni HR,de Mendoza D,Cronan JE Jr

    更新日期:1996-08-01 00:00:00

  • Genetic evidence that the uvsE gene product of Deinococcus radiodurans R1 is a UV damage endonuclease.

    abstract::An in vitro transposition system, developed to facilitate gene disruption in Deinococcus radiodurans R1, has been used to inactivate the gene designated dr1819 in uvrA-1(+) and uvrA-1 backgrounds. dr1819 encodes a protein with homology to a UV DNA damage endonuclease expressed by Schizosaccharomyces pombe. Interruptio...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.184.4.1003-1009.2002

    authors: Earl AM,Rankin SK,Kim KP,Lamendola ON,Battista JR

    更新日期:2002-02-01 00:00:00

  • Cyclic adenosine 3',5'-monophosphate-mediated hyperinduction of araBAD and lacZYA expression in a crp mutant of Escherichia coli K-12.

    abstract::A spontaneous lac+ revertant of an adenylate cyclase deletion strain of Escherichia coli K-12 was isolated and characterized. This revertant, designated strain KC20, exhibited a pleiotropic suppression of the adenylate cyclase defect, with the crp locus being the site of the suppressor mutation. Cyclic adenosine 3',5'...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.147.2.500-508.1981

    authors: Bankaitis VA,Kline EL

    更新日期:1981-08-01 00:00:00

  • Cadmium and manganese transport in Staphylococcus aureus membrane vesicles.

    abstract::The presence of plasmid gene cadB did not affect Cd2+ accumulation, whereas plasmid gene cadA reduced Cd2+ accumulation by whole cells but not by membrane vesicles. Membrane vesicle studies indicated that Cd2+ uptake occurred via the Mn2+ transport system which was energized by the membrane electrical potential. Mn2+ ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.150.2.973-976.1982

    authors: Perry RD,Silver S

    更新日期:1982-05-01 00:00:00

  • Evidence for specific inhibition of translocation of aminoacyl-transfer ribonucleic acid by the pretreatment of ribosomes of Bacillus subtilis with p-chloromercuribenzoate.

    abstract::The biological activities of Bacillus subtilis ribosomes pretreated with 0.5, 1, or 2 mmp-chloromercuribenzoate (PCMB) were examined. The ribosomes treated with 1 or 2 mm PCMB lost their capacity to synthesize polyphenylalanine as well as the capacity to bind phenylalanyl-transfer ribonucleic acid. On the other hand, ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.112.1.188-194.1972

    authors: Ranu RS,Kaji A

    更新日期:1972-10-01 00:00:00

  • Phylogenetic analysis of anaerobic thermophilic bacteria: aid for their reclassification.

    abstract::Small subunit rDNA sequences were determined for 20 species of the genera Acetogenium, Clostridium, Thermoanaerobacter, Thermoanaerobacterium, Thermoanaerobium, and Thermobacteroides, 3 non-validly described species, and 5 isolates of anaerobic thermophilic bacteria, providing a basis for a phylogenetic analysis of th...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.175.15.4772-4779.1993

    authors: Rainey FA,Ward NL,Morgan HW,Toalster R,Stackebrandt E

    更新日期:1993-08-01 00:00:00

  • GadY, a small-RNA regulator of acid response genes in Escherichia coli.

    abstract::A previous bioinformatics-based search for small RNAs in Escherichia coli identified a novel RNA named IS183. The gene encoding this small RNA is located between and on the opposite strand of genes encoding two transcriptional regulators of the acid response, gadX (yhiX) and gadW (yhiW). Given that IS183 is encoded in...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.186.20.6698-6705.2004

    authors: Opdyke JA,Kang JG,Storz G

    更新日期:2004-10-01 00:00:00

  • LuxR- and acyl-homoserine-lactone-controlled non-lux genes define a quorum-sensing regulon in Vibrio fischeri.

    abstract::The luminescence (lux) operon (luxICDABEG) of the symbiotic bacterium Vibrio fischeri is regulated by the transcriptional activator LuxR and two acyl-homoserine lactone (acyl-HSL) autoinducers (the luxI-dependent 3-oxo-hexanoyl-HSL [3-oxo-C6-HSL] and the ainS-dependent octanoyl-HSL [C8-HSL]) in a population density-re...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.182.10.2811-2822.2000

    authors: Callahan SM,Dunlap PV

    更新日期:2000-05-01 00:00:00

  • Characterization of the hcnABC gene cluster encoding hydrogen cyanide synthase and anaerobic regulation by ANR in the strictly aerobic biocontrol agent Pseudomonas fluorescens CHA0.

    abstract::The secondary metabolite hydrogen cyanide (HCN) is produced by Pseudomonas fluorescens from glycine, essentially under microaerophilic conditions. The genetic basis of HCN synthesis in P. fluorescens CHA0 was investigated. The contiguous structural genes hcnABC encoding HCN synthase were expressed from the T7 promoter...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.180.12.3187-3196.1998

    authors: Laville J,Blumer C,Von Schroetter C,Gaia V,Défago G,Keel C,Haas D

    更新日期:1998-06-01 00:00:00

  • Repair of deoxyribonucleic acid in Haemophilus influenzae. I. X-ray sensitivity of ultraviolet-sensitive mutants and their behavior as hosts to ultraviolet-irradiated bacteriophage and transforming deoxyribonucleic acid.

    abstract::Seven mutants of Haemophilus influenzae were isolated by the criterion of sensitivity to ultraviolet (UV) inactivation of colony formation. These mutants and the wild type were characterized with regard to X-ray inactivation of colony formation, UV induction of division inhibition, the ability of the eight strains to ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.95.2.546-558.1968

    authors: Setlow JK,Brown DC,Boling ME,Mattingly A,Gordon MP

    更新日期:1968-02-01 00:00:00

  • Escherichia coli cells with increased levels of DnaA and deficient in recombinational repair have decreased viability.

    abstract::The dnaA operon of Escherichia coli contains the genes dnaA, dnaN, and recF encoding DnaA, beta clamp of DNA polymerase III holoenzyme, and RecF. When the DnaA concentration is raised, an increase in the number of DNA replication initiation events but a reduction in replication fork velocity occurs. Because DnaA is au...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/jb.185.2.630-644.2003

    authors: Grigorian AV,Lustig RB,Guzmán EC,Mahaffy JM,Zyskind JW

    更新日期:2003-01-01 00:00:00

  • Fluorescein amine media for rapid differentiation of staphylococci.

    abstract::Kimler, Alexander (National Institutes of Health, Bethesda, Md.). Fluorescein amine media for rapid differentiation of staphylococci. J. Bacteriol. 82:106-109. 1961.-By modifying conventional media to include blood, mannitol, and fluorescein amine, staphylococci may be isolated and identified directly. Staphylococcus ...

    journal_title:Journal of bacteriology

    pub_type: 杂志文章

    doi:10.1128/JB.82.1.106-109.1961

    authors: KIMLER A

    更新日期:1961-07-01 00:00:00