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Factor For Inversion Stimulation Protein (0):
Recent article
Factor For Inversion Stimulation Protein
Genes & Development (24)8 2010
Abstract
We report the first crystal structures of Fis bound to high- and low-affinity 27-base-pair DNA sites. These 11 structures reveal that Fis selects targets primarily through indirect recognition mechanisms involving the shape of the minor groove and sequence-dependent induced fits over adjacent major...
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PMID: 20395367
PDF is available here.
PDF is available here.
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Journal of Bacteriology (190)21 2008
Abstract
We have exploited mutational analysis and biochemistry to investigate the actions of IHF and Fis at these sites. We show that the effects of IHF and Fis are position dependent and that IHF II functions independently of IHF I and Fis I. Using in vitro assays, we report that IHF and Fis repress transc...
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PMID: 18757534
PDF is available here.
PDF is available here.
Journal of Bacteriology (190)22 2008
Abstract
I (topA) mutants. However, its physiological significance has remained unclear. Temperature downshift of a mutant yielded transient growth arrest and a parallel increase in hypernegative supercoiling that was more severe with lower temperature. Both properties were alleviated by overexpression of RN...
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PMID: 18790862
PDF is available here.
PDF is available here.
Microbiology (154)Pt 7 2008
Abstract
We present in vitro and in vivo studies to demonstrate the involvement of FIS protein in this catabolic repression. DNase I footprinting experiments show that FIS binds to multiple sites within the Pg promoter. FIS-site I overlaps the CRP-binding site. By using an electromobility shift assay, we dem...
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PMID: 18599842
PDF is available here.
PDF is available here.
Journal of Molecular Biology (380)2 2008
Abstract
We identified the positions of 14 DNA phosphates (based on ethylation interference assays) that are required for Fis binding. These are the 5' phosphates of the nucleotides at positions -8, -7, -6, +1, +2, +3, and +4 relative to the central nucleotide on both DNA strands. Another five phosphates loc...
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PMID: 18514225
PDF is available here.
PDF is available here.
Genome Research (18)6 2008
Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tracts.
Abstract
We determined the genome-wide distribution of the nucleoid-associated protein Fis in Escherichia coli using chromatin immunoprecipitation coupled with high-resolution whole genome-tiling microarrays. We identified 894 Fis-associated regions across the E. coli genome. A significant number of these bi...
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PMID: 18340041
PDF is available here.
PDF is available here.
Microbiology (154)Pt 6 2008
Abstract
We investigated the role of the factor for inversion stimulation (FIS) in the regulation of this promoter. The results showed that there are three binding sites for FIS centred near positions -11, +8 and +29 relative to the guaB transcription start site. Binding of FIS to these sites results in repr...
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PMID: 18524927
PDF is available here.
PDF is available here.
Molecular Microbiology (68)6 2008
Abstract
Dps, a ferritin-like DNA-binding protein, protects bacterial DNA against oxidative stress and hyper-compacts the nucleoid into a crystalline-like structure. In Escherichia coli, transcription of dps from a single promoter is directed by sigma S-RNA polymerase in stationary phase and by sigma 70-RNA...
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PMID: 18433444
PDF is available here.
PDF is available here.
Molecular Microbiology (68)6 2008
Abstract
We show that two other nucleoid-associated proteins, Fis and H-NS, can bind at the dps gene promoter and downregulate its activity. Both Fis and H-NS selectively repress the dps promoter, preventing transcription initiation by RNA polymerase containing sigma(70), the housekeeping sigma factor, but n...
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PMID: 18452510
PDF is available here.
PDF is available here.
Biological Chemistry (389)3 2008
Abstract
We have studied the underlying mechanisms responsible for the growth phase-dependent differences in 6S RNA concentration. To this aim, we have analyzed the effects of the typical bacterial growth phase and stress regulators FIS, H-NS, LRP and StpA on 6S RNA expression. Measurements of 6S RNA accumul...
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PMID: 18177266
PDF is available here.
PDF is available here.
Journal of Molecular Biology (376)3 2008
Abstract
We examined the contributions of Fis residues to high-affinity binding at different DNA sequences using alanine-scanning mutagenesis and identified several key residues for Fis-DNA recognition. In this work, we investigated the contributions of the 15-bp core Fis binding sequence and its flanking re...
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PMID: 18178221
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (275)1 2007
Abstract
I footprinting experiments were performed. Analysis of Fis binding to the left terminus of IS2 revealed that Fis binds to nucleotide number 44-60 located between the -35 and -10 regions of the major IS2 promoter. To further determine whether Fis binding affects IS2 transcription, the major IS2 promo...
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PMID: 17666068
PDF is available here.
PDF is available here.
Molecular Microbiology (66)1 2007
Abstract
We discovered that this pattern is contingent on the growth regime. In Salmonella enterica serovar Typhimurium cultures grown in non-aerated SPI1-inducing conditions, Fis can be detected readily in stationary phase. On the other hand, cultures grown with standard aeration showed the classic Fis expr...
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PMID: 17784910
PDF is available here.
PDF is available here.
Microbiology (153)Pt 9 2007
Abstract
Fis is a nucleoid-associated protein in Escherichia coli that is abundant during early exponential growth in rich medium but is in short supply during stationary phase. Its role as a transcriptional regulator has been demonstrated for an increasing number of genes. In order to gain insight into the...
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PMID: 17768236
PDF is available here.
PDF is available here.
Journal of Molecular Biology (367)2 2007
Abstract
We find that lambda synthesizes surprisingly high levels of Xis immediately upon prophage induction when excision rates are maximal. However, because of its low sequence-specific binding activity, exemplified by a 1.9 A co-crystal structure of a non-specifically bound DNA complex, Xis is relatively...
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PMID: 17275024
PDF is available here.
PDF is available here.
Journal of Molecular Biology (366)3 2007
Abstract
We study details of the LRP-rDNA interaction by gel retardation and high-resolution footprinting techniques. We show that a second regulator for rRNA transcription, H-NS, facilitates the formation of a higher-order LRP-nucleoprotein complex, probably acting transiently as a DNA chaperone. The macrom...
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PMID: 17196617
PDF is available here.
PDF is available here.
Molecular Microbiology (63)3 2007
Abstract
We identify the nucleoid protein Fis as playing a major role in the V. cholerae quorum-sensing circuit. Fis fulfils the predictions required to be the putative additional component that inputs information into the cascade: its expression is regulated in a growth phase-dependent manner; it requires L...
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PMID: 17181781
PDF is available here.
PDF is available here.
Molecular Microbiology (63)3 2007
Abstract
We show that the degenerate -35 sequence, and the location of the Fis binding site, which forces a suboptimal 16 bp spacing between the -35 and -10 elements, allow only sigma(S) but not sigma(70) to function at proP (P2). Moreover, the interface between Fis and sigma(S) seems better suited to sigma(...
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PMID: 17302803
PDF is available here.
PDF is available here.
Molecular Microbiology (63)4 2007
Abstract
We previously reported that the P1 promoter of topA encoding topoisomerase I of Escherichia coli is activated in response to oxidative stress, in a Fis-dependent manner. Here we show that Fis regulation of topA varies with the intracellular concentrations of Fis. Thus, when Fis levels are low, hydro...
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PMID: 17233826
PDF is available here.
PDF is available here.
BMC Microbiology (7)1 2007
Abstract
Transcriptome data from isogenic wild type and crp- strains grown in Luria-Bertani medium (LB) or LB + 4 g/L glucose (LB+G) were analyzed to identify differentially transcribed genes. We detected 180 and 200 genes displaying increased and reduced relative transcript levels in the presence of glucose...
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PMID: 17559662
PDF is available here.
PDF is available here.
Biochimica et Biophysica Acta (1774)1 2007
Abstract
We previously showed that the P61A mutation increased the stability of FIS, but decreased its equilibrium denaturation cooperativity apparently due to preferential stabilization of the B-helix. Here we studied a peptide of P61A FIS, corresponding to residues 26-71 (26-71(A3) FIS), which encompasses...
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PMID: 17118726
PDF is available here.
PDF is available here.
Nucleic Acids Research (35)16 2007
Abstract
We used surface plasmon resonance and electromobility shift assays to determine the kinetics for binding of the Fis protein to a range of naturally occurring binding sites. We observed that the logarithm of the off-rate is indeed proportional to the individual information of the binding sites, as pr...
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PMID: 17617646
PDF is available here.
PDF is available here.
Journal of Molecular Biology (364)4 2006
Abstract
We analyze the structural consequences of non-specific binding by Fis to DNA. Fis binds DNA in a largely sequence-neutral fashion at nanomolar concentrations, resulting in mild compaction under applied force due to DNA bending. With increasing concentration, Fis first coats DNA to form an ordered ar...
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PMID: 17045294
PDF is available here.
PDF is available here.
EMBO Journal (25)23 2006
Abstract
We found that the expression of Dps and the nucleoid condensation was not simply correlated in Escherichia coli, and that Fis, which is an E. coli (gamma-Proteobacteria)-specific nucleoid protein, interfered with the Dps-dependent nucleoid condensation. Atomic force microscopy and Northern blot anal...
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PMID: 17093499
PDF is available here.
PDF is available here.
Molecular Cell (24)4 2006
Abstract
We measured 27 FRET distances between eight points on the 99 bp regulatory DNA bound with all six proteins. Triangulation of these distances using a metric matrix distance-geometry algorithm provided coordinates for these eight points. The resulting path for the protein-bound regulatory DNA, which f...
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PMID: 17114059
PDF is available here.
PDF is available here.
EMBO Journal (25)16 2006
Abstract
We show that in a ternary complex of an activator protein, FIS, and RNA polymerase containing the sigma(70) specificity factor at the Escherichia coli tyrT promoter the polymerase and the activator form discrete, but connected, subcomplexes in close proximity. This is the first time that a ternary c...
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PMID: 16888625
PDF is available here.
PDF is available here.
Biochemistry (Washington) (45)32 2006
Abstract
These results show that, unlike the C30-C30 intermolecular disulfide bond, the C58-C58 disulfide bond did not evenly stabilize the FIS structure, thereby highlighting the importance of the location of an engineered disulfide bond on the propagation of stability and the denaturation cooperativity of...
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PMID: 16893178
PDF is available here.
PDF is available here.
Journal of Bacteriology (188)16 2006
Abstract
We investigated the possibility that DksA might also control transcription from Pfis. We show that the absence of dksA extends transcription from Pfis well into the late logarithmic and stationary growth phases, demonstrating the importance of DksA for growth phase-dependent regulation of fis. We al...
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PMID: 16885445
PDF is available here.
PDF is available here.
Microbial Pathogenesis (41)1 2006
Fis is required for proper regulation of ssaG expression in Salmonella enterica serovar Typhimurium.
Abstract
Salmonella pathogenicity island 2 (SPI2) encodes a type III secretion system (TTSS) necessary for bacterial survival and replication in intracellular environment of host cells. SPI2 genes are transcribed preferentially after Salmonella enters the host cells. Transcriptional regulation of ssaG encodi...
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PMID: 16777370
PDF is available here.
PDF is available here.
EMBO Reports (7)7 2006
Abstract
We demonstrate that genomic transcription is tightly associated with the spatial distribution of supercoiling sensitivity, which in turn depends on chromatin proteins. We further demonstrate that essential metabolic pathways involved in the maintenance of growth respond distinctly to changes of supe...
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PMID: 16799466
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (257)1 2006
Abstract
We substituted the FIS-mediated DNA bending with other protein (cAMP receptor protein or integration host factor)-mediated DNA bending, without changing the position of the bending center. In vitro transcription assays indicated that all DNA bends centered at -55 activate transcriptional initiation...
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PMID: 16553838
PDF is available here.
PDF is available here.
Journal of Bacteriology (188)6 2006
Abstract
Fis is a nucleoid-associated protein that interacts with poorly related DNA sequences with a high degree of specificity. A difference of more than 3 orders of magnitude in apparent Kd values was observed between specific (Kd, approximately 1 to 4 nM) and nonspecific (Kd, approximately 4 microM) DNA...
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PMID: 16513738
PDF is available here.
PDF is available here.
Abstract
We found that the complex formation of Lon with polyP stimulates proteolysis of free ribosomal proteins. In the current studies, we examined the effects of polyP on the degradation of major nucleoid proteins. Fusions of green fluorescent protein with HimA, Fis, HupA, and HupB were clearly associated...
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PMID: 17543195
PDF is available here.
PDF is available here.
Abstract
The FIS protein (factor for inversion stimulation) is known to activate the transcription of rRNA and tRNA operons in Escherichia coli. In this report the growth behaviour of a fis bacterium was studied under steady-state conditions and in competition experiments with a wild-type bacterium in a chemo...
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PMID: 1468620
PDF is available here.
PDF is available here.
Nucleic Acids Research (34)16 2006
Association of nucleoid proteins with coding and non-coding segments of the Escherichia coli genome.
Abstract
We have exploited chromatin immunoprecipitation and high-density microarrays to study the binding of three such proteins, FIS, H-NS and IHF, across the E.coli genome in vivo. Our results show that the distribution of these proteins is biased to intergenic parts of the genome, and that the binding pr...
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PMID: 16963779
PDF is available here.
PDF is available here.
Physical Review Letters (95)20 2005
Abstract
We report single-DNA-stretching experiments showing that the protein Fis, an abundant bacterial chromosome protein of E. coli, mediates a dramatic DNA condensation to zero length. This condensation occurs abruptly when DNA tension is reduced below a protein-concentration-dependent threshold f* < 1 p...
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PMID: 16384101
PDF is available here.
PDF is available here.
Biochemistry (Washington) (44)45 2005
Abstract
We show that, in contrast to WT FIS, the thermal denaturation of P61A FIS was incomplete and yielded a transition curve that was independent of FIS concentration, suggesting the presence of a dimeric intermediate at 90 degrees C. In the presence of urea, the thermal denaturation of P61A FIS became c...
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PMID: 16274219
PDF is available here.
PDF is available here.
Journal of Bacteriology (187)21 2005
Abstract
We found that SP control of rpoS transcription in S. enterica involves repression of the major rpoS promoter during exponential phase by the global transcription factor Fis. Working primarily with E. coli, we now show that 24 nucleotides of the rpoS ribosome-binding site (RBS) are necessary and suff...
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PMID: 16237004
PDF is available here.
PDF is available here.
Molecular Microbiology (57)6 2005
Abstract
We designed a genetic selection for mutants with reduced negative supercoiling of the Escherichia coli chromosome. We employed a strain that contained two chromosomally located reporter genes under the control of a supercoiling-sensitive promoter and used transposon mutagenesis to generate a wide ra...
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PMID: 16135230
PDF is available here.
PDF is available here.
Molecular Microbiology (57)2 2005
Abstract
We present in vitro studies on the nrf promoter, using permanganate footprinting to measure open complex formation, and DNase I footprinting to monitor binding of the different regulators and the interactions between them. Our results show that open complex formation is completely dependent on FNR a...
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PMID: 15978080
PDF is available here.
PDF is available here.
Biological Chemistry (386)6 2005
Abstract
We have therefore analyzed the conformation of all seven DNA elements located upstream of the major E. coli rRNA P1 promoters. As judged by temperature-dependent gel electrophoresis with isolated DNA fragments comprising the individual P1 promoters and the complete upstream regulatory regions, all s...
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PMID: 16006239
PDF is available here.
PDF is available here.
Molecules and Cells (19)2 2005
Abstract
We tested whether FIS binds to these sites, and if so, how it affects rnpB transcription. In vitro binding assays revealed specific binding of FIS to multiple sites in the rnpB promoter region. Interestingly, FIS bound not only to the upstream region of the promoter, but also to the region from +4 t...
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PMID: 15879709
PDF is available here.
PDF is available here.
Journal of Bacteriology (187)5 2005
Abstract
We characterized the activity of promoters serving rpoS in Salmonella enterica serovar Typhimurium and report that regulation of transcription during growth into SP depends on Fis, a DNA-binding protein whose abundance is high during exponential growth and very low in SP. A fis mutant of S. enterica...
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PMID: 15716427
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (279)49 2004
Abstract
We show that RNA polymerase-fis promoter complexes are short lived and that transcription is stimulated over 20-fold from linear or supercoiled DNA if CTP is present during formation of initiation complexes, which serves to stabilize these complexes. Use of fis promoter fusions to lacZ indicated tha...
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PMID: 15385561
PDF is available here.
PDF is available here.
Archives of Microbiology (182)1 2004
Abstract
The gene cspH, which encodes one of the cold-shock proteins in Salmonella enterica serovar Typhimurium, has previously been reported to be induced during early exponential phase at 37 degrees C. In the present study, the expression of cspH upon nutrient up-shift at 37 degrees C was investigated and...
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PMID: 15235764
PDF is available here.
PDF is available here.
EMBO Journal (23)16 2004
Abstract
We show here that it functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of elongation factor G and has a GTPase activity that is sensitive to high GDP:GTP ratios and stimu...
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PMID: 15297874
PDF is available here.
PDF is available here.
Abstract
A culture-independent method called mRNA profiling has been developed for the analysis of fecal enterobacteria and their physiological status in environmental samples. This taxon-specific approach determines the single-cell content of selected gene transcripts whose abundance is either directly or i...
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PMID: 15294770
PDF is available here.
PDF is available here.
Journal of Molecular Biology (340)4 2004
Abstract
We report a robust recombination reaction employing oligonucleotide substrates and a hyperactive mutant form of Hin. Synaptic complex intermediates purified by gel electrophoresis were found to contain four Hin protomers bound to two recombination sites. Each Hin protomer is associated covalently wi...
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PMID: 15223318
PDF is available here.
PDF is available here.
Microbiology (150)Pt 7 2004
Abstract
Fis is a key DNA-binding protein involved in nucleoid organization and modulation of many DNA transactions, including transcription in enteric bacteria. The regulon of genes whose expression is influenced by Fis in Salmonella enterica serovar Typhimurium (S. typhimurium) has been defined by DNA micr...
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PMID: 15256548
PDF is available here.
PDF is available here.
Molecular Microbiology (53)2 2004
Abstract
We suggest that transcription from the leuV promoter also is activated by a Fis-mediated, DNA supercoiling-dependent mechanism similar to the IHF-mediated mechanism described previously for the ilvP(G) promoter (S. D. Sheridan et al., 1998, J Biol Chem 273: 21298-21308). We present evidence that Fis...
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PMID: 15228542
PDF is available here.
PDF is available here.
Molecular Microbiology (52)4 2004
Abstract
We have examined the requirement of the six most abundant nucleoid proteins in transposition for three different transposons, IS903, Tn10 and Tn552. Most notably, H-NS was required for efficient transposition of all three elements in a papillation assay, suggesting a general role for H-NS in bacteri...
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PMID: 15130124
PDF is available here.
PDF is available here.
Biochemistry (Washington) (43)10 2004
Abstract
These results highlight the importance of tyrosine hydrogen-bonding and packing interactions for the stability of FIS and demonstrate the varying roles that tyrosine residues can play on the structural and spectroscopic properties of even small proteins....
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PMID: 15005633
PDF is available here.
PDF is available here.
Molecular Microbiology (51)5 2004
Abstract
We observed a dynamic interplay among Fis, IHF and DnaA on supercoiled oriC templates. Low levels of Fis inhibited oriC unwinding by blocking both IHF and DnaA binding to low affinity sites. As the concentration of DnaA was increased, Fis repression was relieved and IHF rapidly redistributed DnaA to...
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PMID: 14982629
PDF is available here.
PDF is available here.
Microbiology (150)Pt 2 2004
Abstract
I and II are activating sites, with the greatest contribution from Fis II. Deletion of the C-terminal domain of the RNA polymerase alpha-subunit abolished Fis-mediated activation of ndh expression, suggesting that ndh has a Class I Fis-activated promoter. In accordance with the established pattern o...
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PMID: 14766919
PDF is available here.
PDF is available here.
Molecular Microbiology (51)4 2004
Abstract
We have analysed the topology of recombination products generated by Hin catalysis in growing cells. Recombination between wild-type recombination sites in vivo is primarily limited to one exchange. However, processive recombination leading to knotted DNA products is efficient on substrates containi...
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PMID: 14763986
PDF is available here.
PDF is available here.
Journal of Molecular Biology (335)4 2004
Abstract
FIS, the factor for inversion stimulation, from Escherichia coli and other enteric bacteria, is an interwined alpha-helical homodimer. Size exclusion chromatography and static light scattering measurements demonstrated that FIS is predominately a stable dimer at the concentrations (1-10 microM monom...
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PMID: 14698300
PDF is available here.
PDF is available here.
Journal of Bacteriology (186)1 2004
Abstract
We show that both of these regulatory processes operate on the chromosomal fis genes of the enterobacteria Klebsiella pneumoniae, Serratia marcescens, Erwinia carotovora, and Proteus vulgaris, strongly suggesting that the physiological role of Fis is closely tied to its transcriptional regulation in...
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PMID: 14679232
PDF is available here.
PDF is available here.
Nucleic Acids Research (31)23 2003
Abstract
We present evidence for the conservation of curvature signals in putative regulatory regions of several archaeal and eubacterial genomes. Genes with highly curved upstream regions were identified in orthologous groups, based on the annotations of the Cluster of Orthologous Groups of proteins (COG) d...
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PMID: 14627810
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (278)47 2003
Abstract
We further investigated the mechanism by which Fis activates transcription of the rrnB P1 promoter and the role of Fis in rRNA synthesis and cell growth in Escherichia coli. Like all other stringent promoters investigated so far, open complex of rrnB P1 has been shown to be intrinsically unstable, m...
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PMID: 13679374
PDF is available here.
PDF is available here.
Nucleic Acids Research (31)22 2003
Abstract
The DNA-binding protein Fis frequently uses pairs of sites 7 or 11 base pairs (bp) apart. Two overlapping Fis sites separated by 11 bp are found in the Escherichia coli origin of chromosomal replication. Only one of these sites is bound by Fis at a time, so the structure is a molecular flip-flop tha...
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PMID: 14602927
PDF is available here.
PDF is available here.