Endogenous and Foreign Nucleoid-Associated Proteins of Bacteria: Occurrence, Interactions and Effects on Mobile Genetic Elements and Host's Biology

scientific article published on 14 June 2019

Endogenous and Foreign Nucleoid-Associated Proteins of Bacteria: Occurrence, Interactions and Effects on Mobile Genetic Elements and Host's Biology is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

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P356DOI10.1016/J.CSBJ.2019.06.010
P932PMC publication ID6606824
P698PubMed publication ID31303979

P50authorAlejandra LoyolaQ89763796
P2093author name stringRaquel Quatrini
Rodrigo Flores-Ríos
P2860cites workEvidence for direct protein-protein interaction between members of the enterobacterial Hha/YmoA and H-NS families of proteinsQ24544235
Histonelike proteins of bacteriaQ24634363
Compositional discordance between prokaryotic plasmids and host chromosomesQ25256883
HU multimerization shift controls nucleoid compactionQ27333092
The shape of the DNA minor groove directs binding by the DNA-bending protein FisQ27660559
ymoA, a Yersinia enterocolitica chromosomal gene modulating the expression of virulence functionsQ28250224
Mechanisms of, and barriers to, horizontal gene transfer between bacteriaQ28270244
Lsr2 of Mycobacterium represents a novel class of H-NS-like proteinsQ28487533
H-NS mediates the silencing of laterally acquired genes in bacteriaQ28490022
A Novel AT-Rich DNA Recognition Mechanism for Bacterial Xenogeneic Silencer MvaTQ28548172
Amelioration of bacterial genomes: rates of change and exchangeQ29618260
HU and integration host factor function as auxiliary proteins in cleavage of phage lambda cohesive ends by terminaseQ30367623
Viewing single lambda site-specific recombination events from start to finishQ30478039
Silencing of cryptic prophages in Corynebacterium glutamicumQ30830810
Defined chromosome structure in the genome-reduced bacterium Mycoplasma pneumoniaeQ30841364
H-NS and H-NS-like proteins in Gram-negative bacteria and their multiple role in the regulation of bacterial metabolismQ30984791
Differential regulation of horizontally acquired and core genome genes by the bacterial modulator H-NS.Q33466737
Domain organization and oligomerization among H-NS-like nucleoid-associated proteins in bacteria.Q33594386
Differential effects and interactions of endogenous and horizontally acquired H-NS-like proteins in pathogenic Escherichia coliQ33621541
A divalent switch drives H-NS/DNA-binding conformations between stiffening and bridging modes.Q33631136
Growth phase-dependent variation in protein composition of the Escherichia coli nucleoidQ33638020
The transcriptional regulator Rok binds A+T-rich DNA and is involved in repression of a mobile genetic element in Bacillus subtilis.Q33750107
Proteomic analyses of nucleoid-associated proteins in Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, and Staphylococcus aureusQ33889440
The Pseudomonas aeruginosa pathogenicity island PAPI-1 is transferred via a novel type IV pilusQ33964255
Pmr, a histone-like protein H1 (H-NS) family protein encoded by the IncP-7 plasmid pCAR1, is a key global regulator that alters host functionQ34119223
Nucleoprotein architectures regulating the directionality of viral integration and excisionQ34120128
A fundamental regulatory mechanism operating through OmpR and DNA topology controls expression of Salmonella pathogenicity islands SPI-1 and SPI-2Q34211607
Shigella flexneri 2a strain 2457T expresses three members of the H-NS-like protein family: characterization of the Sfh proteinQ34219679
Xis protein binding to the left arm stimulates excision of conjugative transposon Tn916Q34308958
Integration host factor is required for the DNA inversion that controls phase variation in Escherichia coliQ34346575
High-resolution mapping of the spatial organization of a bacterial chromosomeQ34380184
Timely binding of IHF and Fis to DARS2 regulates ATP-DnaA production and replication initiation.Q34446766
Evolution of rhizobia by acquisition of a 500-kb symbiosis island that integrates into a phe-tRNA geneQ34465580
Growth phase-dependent regulation and stringent control of fis are conserved processes in enteric bacteria and involve a single promoter (fis P) in Escherichia coliQ34555728
Information analysis of Fis binding sitesQ34646135
Characterization of the replication, maintenance, and transfer features of the IncP-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin degradation.Q34649437
Genome-wide analysis of the salmonella Fis regulon and its regulatory mechanism on pathogenicity islandsQ34746224
Role of histone-like proteins H-NS and StpA in expression of virulence determinants of uropathogenic Escherichia coliQ34976630
Integrated circuits: how transcriptional silencing and counter-silencing facilitate bacterial evolutionQ35070419
The Bacteroides thetaiotaomicron protein Bacteroides host factor A participates in integration of the integrative conjugative element CTnDOT into the chromosomeQ35214795
Effects of three different nucleoid-associated proteins encoded on IncP-7 plasmid pCAR1 on host Pseudomonas putida KT2440.Q35221153
Gene order and chromosome dynamics coordinate spatiotemporal gene expression during the bacterial growth cycleQ35673712
Structure of the histone-like protein H-NS and its role in regulation and genome superstructureQ35737936
IHF and HU: flexible architects of bent DNA.Q35753197
Transposable Phage MuQ35801161
Genomic analysis of DNA binding and gene regulation by homologous nucleoid-associated proteins IHF and HU in Escherichia coli K12.Q35906075
DNA supercoiling - a global transcriptional regulator for enterobacterial growth?Q36026801
Gene 5.5 protein of bacteriophage T7 inhibits the nucleoid protein H-NS of Escherichia coliQ36129355
Dramatic changes in Fis levels upon nutrient upshift in Escherichia coliQ36137894
Multiple effects of Fis on integration and the control of lysogeny in phage lambdaQ36148023
EbfC (YbaB) is a new type of bacterial nucleoid-associated protein and a global regulator of gene expression in the Lyme disease spirocheteQ36211772
Bacterial chromatinQ36229105
Mobile genetic elements: the agents of open source evolutionQ36247081
A global role for Fis in the transcriptional control of metabolism and type III secretion in Salmonella enterica serovar Typhimurium.Q38338833
The virF promoter in Shigella: more than just a curved DNA stretchQ38345190
Variable structures of Fis-DNA complexes determined by flanking DNA-protein contactsQ38350596
The gyr genes of Salmonella enterica serovar Typhimurium are repressed by the factor for inversion stimulation, Fis.Q38351905
Horizontal gene transfer: building the web of life.Q38549036
Xenogeneic Silencing and Its Impact on Bacterial GenomesQ38881567
Structure and function of bacterial H-NS protein.Q39027961
H-NST induces LEE expression and the formation of attaching and effacing lesions in enterohemorrhagic Escherichia coli.Q39030232
The behavior of mobile genetic elements (MGEs) in different environmentsQ39080041
The StpA protein functions as a molecular adapter to mediate repression of the bgl operon by truncated H-NS in Escherichia coliQ39564715
Overproduction of Escherichia coli integration host factor, a protein with nonidentical subunitsQ36264685
Sequence characterization and comparative analysis of three plasmids isolated from environmental Vibrio spp.Q36313333
MvaT Family Proteins Encoded on IncP-7 Plasmid pCAR1 and the Host Chromosome Regulate the Host Transcriptome Cooperatively but DifferentlyQ36497535
Transpososome dynamics and regulation in Tn10 transpositionQ36648422
The novel Hha/YmoA family of nucleoid-associated proteins: use of structural mimicry to modulate the activity of the H-NS family of proteinsQ36658260
Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tractsQ36700176
Silencing of xenogeneic DNA by H-NS-facilitation of lateral gene transfer in bacteria by a defense system that recognizes foreign DNA.Q36851768
H-NS family members function coordinately in an opportunistic pathogenQ36999879
Analysis of phage Mu DNA transposition by whole-genome Escherichia coli tiling arrays reveals a complex relationship to distribution of target selection protein B, transcription and chromosome architectural elements.Q37017245
Borrelia burgdorferi EbfC defines a newly-identified, widespread family of bacterial DNA-binding proteins.Q37149766
Genomic islands: tools of bacterial horizontal gene transfer and evolutionQ37248338
Anti-silencing: overcoming H-NS-mediated repression of transcription in Gram-negative enteric bacteriaQ37256199
Characterization of the nucleoid-associated protein YejK.Q37272077
DNA bridging and antibridging: a role for bacterial nucleoid-associated proteins in regulating the expression of laterally acquired genesQ37389789
Nucleoid-associated proteins and bacterial physiology.Q37402014
Bacterial nucleoid-associated proteins, nucleoid structure and gene expressionQ37688895
Functional evolution of bacterial histone-like HU proteins.Q37756442
Integrative and conjugative elements: mosaic mobile genetic elements enabling dynamic lateral gene flow.Q37770056
Effects of nucleoid-associated proteins on bacterial chromosome structure and gene expressionQ37800563
TF1, a bacteriophage-specific DNA-binding and DNA-bending proteinQ37834031
Pervasive regulation of nucleoid structure and function by nucleoid-associated proteins.Q37834794
Trends and barriers to lateral gene transfer in prokaryotesQ37920344
Structural and molecular genetic analyses of the bacterial carbazole degradation system.Q37974625
Bacterial virulence and Fis: adapting regulatory networks to the host environment.Q38173966
H-NS-like nucleoid-associated proteins, mobile genetic elements and horizontal gene transfer in bacteria.Q38226682
A molecular mechanism for the repression of transcription by the H-NS proteinQ38291337
HU protein of Escherichia coli binds specifically to DNA that contains single-strand breaks or gapsQ38296278
Genome organisation and chromatin structure in Escherichia coliQ38302764
Selective silencing of foreign DNA with low GC content by the H-NS protein in SalmonellaQ38312504
Role of plasmid- and chromosomally encoded Hha proteins in modulation of gene expression in E. coli O157:H7.Q38318003
Function of IHF in lambda DNA packaging. I. Identification of the strong binding site for integration host factor and the locus for intrinsic bending in cosB.Q38320845
A genetic selection for supercoiling mutants of Escherichia coli reveals proteins implicated in chromosome structureQ38321551
Opening of the replication origin of Escherichia coli by DnaA protein with protein HU or IHF.Q38324468
LeuO protein delimits the transcriptionally active and repressive domains on the bacterial chromosomeQ38330605
Genomic and functional analyses of SXT, an integrating antibiotic resistance gene transfer element derived from Vibrio choleraeQ39679833
R391: a conjugative integrating mosaic comprised of phage, plasmid, and transposon elementsQ39680259
Serratia marcescens contains a heterodimeric HU protein like Escherichia coli and Salmonella typhimuriumQ39839820
The small nucleoid-binding proteins H-NS, HU, and Fis affect hilA expression in Salmonella enterica serovar TyphimuriumQ39863987
Fis plays a role in Tn5 and IS50 transpositionQ39935278
The positive and negative regulation of Tn10 transposition by IHF is mediated by structurally asymmetric transposon armsQ39982131
The interplay between DNA topology and accessory factors in site-specific recombination in bacteria and their bacteriophages.Q40109164
Increased bending rigidity of single DNA molecules by H-NS, a temperature and osmolarity sensorQ40233805
E. coli DNA binding protein HU forms nucleosome-like structure with circular double-stranded DNAQ40237225
The histone-like protein HU binds specifically to DNA recombination and repair intermediatesQ40388402
The regulation of transcription initiation by integration host factorQ40468930
The HimA and HimD subunits of integration host factor can specifically bind to DNA as homodimers.Q40791356
The role of FIS in trans activation of stable RNA operons of E. coliQ41204267
Bacterial-Chromatin Structural Proteins Regulate the Bimodal Expression of the Locus of Enterocyte Effacement (LEE) Pathogenicity Island in Enteropathogenic Escherichia coli.Q41334372
RovA is autoregulated and antagonizes H-NS-mediated silencing of invasin and rovA expression in Yersinia pseudotuberculosis.Q41461984
Growth phase-dependent expression profiles of three vital H-NS family proteins encoded on the chromosome of Pseudomonas putida KT2440 and on the pCAR1 plasmidQ41558018
Complete genome sequence of temperate bacteriophage AcaML1 from the extreme acidophile Acidithiobacillus caldus ATCC 51756Q41574244
A novel nucleoid-associated protein coordinates chromosome replication and chromosome partitionQ41627253
Control of directionality in lambda site specific recombinationQ41853516
Single-molecule unzipping force analysis of HU-DNA complexesQ41860538
Coordination of genomic structure and transcription by the main bacterial nucleoid-associated protein HU.Q42007285
Alternate SlyA and H-NS nucleoprotein complexes control hlyE expression in Escherichia coli K-12.Q42068068
Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coliQ42113114
Transposable prophage Mu is organized as a stable chromosomal domain of E. coli.Q42254966
Requirement for Vibrio cholerae integration host factor in conjugative DNA transferQ42577799
H-NS binds with high affinity to the Tn10 transpososome and promotes transpososome stabilizationQ42587144
The putative Orf4 of broad-host-range conjugative plasmid R446 could Be related to the H-NS family of bacterial nucleoid-associated proteinsQ42595406
The DNA-binding protein HBsu is essential for normal growth and development in Bacillus subtilisQ42603038
Differential regulation of Escherichia coli topoisomerase I by Fis.Q42609303
Distribution of genes encoding nucleoid-associated protein homologs in plasmidsQ42620733
Response of the Pseudomonas host chromosomal transcriptome to carriage of the IncP-7 plasmid pCAR1.Q42640374
Modulation of primary cell function of host Pseudomonas bacteria by the conjugative plasmid pCAR1.Q42663815
Repression of intracellular virulence factors in Salmonella by the Hha and YdgT nucleoid-associated proteinsQ42845289
Temperature-dependent conjugative transfer of R27: role of chromosome- and plasmid-encoded Hha and H-NS proteinsQ42863256
The global bacterial regulator H-NS promotes transpososome formation and transposition in the Tn5 systemQ43191457
A truncated H-NS-like protein from enteropathogenic Escherichia coli acts as an H-NS antagonistQ45231403
Genetic and biochemical characteristics of the histone-like protein DR0199 in Deinococcus radioduransQ46081090
Genome-wide analysis of the H-NS and Sfh regulatory networks in Salmonella Typhimurium identifies a plasmid-encoded transcription silencing mechanismQ46192581
A DNA segment encoding the anticodon stem/loop of tRNA determines the specific recombination of integrative-conjugative elements in Acidithiobacillus speciesQ46255535
Fis binding to the recombinational enhancer of the Hin DNA inversion systemQ46367418
Selective repression by Fis and H-NS at the Escherichia coli dps promoter.Q46386594
The nucleoid binding protein H-NS acts as an anti-channeling factor to favor intermolecular Tn10 transposition and disseminationQ46811372
Visualizing the assembly and disassembly mechanisms of the MuB transposition targeting complexQ47209889
The effect of host-encoded nucleoid proteins on transposition: H-NS influences targeting of both IS903 and Tn10.Q47640931
An H-NS-like stealth protein aids horizontal DNA transmission in bacteriaQ50074297
H-NS, the genome sentinelQ50074672
Genetic and biochemical interactions between the bacterial replication initiator DnaA and the nucleoid-associated protein Rok in Bacillus subtilis.Q50350067
Multiscale Structuring of the E. coli Chromosome by Nucleoid-Associated and Condensin Proteins.Q52390782
DNA relaxation-dependent phase biasing of the fim genetic switch in Escherichia coli depends on the interplay of H-NS, IHF and LRP.Q52596689
Proteome and acylome analyses of the functional interaction network between the carbazole-degradative plasmid pCAR1 and host Pseudomonas putida KT2440.Q52638780
Fine-tuned growth phase control of dps, encoding a DNA protection protein, by FIS and H-NS.Q53481360
IHF-dependent activation of P1 plasmid origin by dnaA.Q53585292
Regulation of the integrase and cassette promoters of the class 1 integron by nucleoid-associated proteins.Q54356669
Escherichia coli DnaA interacts with HU in initiation at the E. coli replication origin.Q54428283
The role of H-NS in silencing F transfer gene expression during entry into stationary phase.Q54497557
YdgT, the Hha paralogue in Escherichia coli, forms heteromeric complexes with H-NS and StpA.Q54498518
Mechanism of transcriptional activation by FIS: role of core promoter structure and DNA topology.Q54521059
Mutations in HU and IHF affect bacteriophage T4 growth: HimD subunits of IHF appear to function as homodimers.Q54608697
Autoregulatory expression of the Escherichia coli hns gene encoding a nucleoid protein: H-NS functions as a repressor of its own transcription.Q54664095
Histone-like proteins are required for cell growth and constraint of supercoils in DNA.Q54668049
Molecular analysis of the Escherichia coli has gene encoding a DNA-binding protein, which preferentially recognizes curved DNA sequencesQ54689751
Bent DNA is needed for recombinational enhancer activity in the site-specific recombination system Cin of bacteriophage P1. The role of FIS protein.Q54733997
Tn10 transposition and circle formation in vitro.Q54760105
Host protein requirements for in vitro site-specific DNA inversion.Q54776760
Modulation of H-NS transcriptional silencing by magnesium.Q55396277
Post-translational modification of nucleoid-associated proteins: an extra layer of functional modulation in bacteria?Q57033829
Bacterial chromosome organization and segregationQ57143652
ICEberg 2.0: an updated database of bacterial integrative and conjugative elementsQ58587046
Impact of Chromosomal Architecture on the Function and Evolution of Bacterial GenomesQ58700745
Regulatory Hierarchies Controlling Virulence Gene Expression in andQ59341045
The Type IV Secretion System of ICE1: Formation of a Conjugative Pilus inQ64235915
Differential functional properties of chromosomal- and plasmid-encoded H-NS proteinsQ64449053
Coupling of Escherichia coli hns mRNA levels to DNA synthesis by autoregulation: implications for growth phase controlQ70989505
The expression of the Escherichia coli fis gene is strongly dependent on the superhelical density of DNAQ73072736
Twelve species of the nucleoid-associated protein from Escherichia coli. Sequence recognition specificity and DNA binding affinityQ73157405
Three-way interactions among the Sfh, StpA and H-NS nucleoid-structuring proteins of Shigella flexneri 2a strain 2457TQ73481709
Variation in HU composition during growth of Escherichia coli: the heterodimer is required for long term survivalQ73876610
Nucleoid proteins stimulate stringently controlled bacterial promoters: a link between the cAMP-CRP and the (p)ppGpp regulons in Escherichia coliQ74244906
A novel ligand-binding domain involved in regulation of amino acid metabolism in prokaryotesQ74512141
Requirement for the molecular adapter function of StpA at the Escherichia coli bgl promoter depends upon the level of truncated H-NS proteinQ77333826
Cooperative interactions between bacteriophage P2 integrase and its accessory factors IHF and CoxQ81299023
Regulation of transcription by DNA supercoiling in Mycoplasma genitalium: global control in the smallest known self-replicating genomeQ84242829
Distribution of putative xenogeneic silencers in prokaryote genomesQ85746314
Genome architecture and global gene regulation in bacteria: making progress towards a unified model?Q86523950
Nucleoid-associated proteins encoded on plasmids: Occurrence and mode of functionQ87264184
Differential protein-protein binding affinities of H-NS family proteins encoded on the chromosome of Pseudomonas putida KT2440 and IncP-7 plasmid pCAR1Q89166977
Growth Phase-Dependent Chromosome Condensation and Heat-Stable Nucleoid-Structuring Protein Redistribution in Escherichia coli under Osmotic StressQ93086010
P304page(s)746-756
P577publication date2019-06-14
P1433published inComputational and Structural Biotechnology JournalQ19865804
P1476titleEndogenous and Foreign Nucleoid-Associated Proteins of Bacteria: Occurrence, Interactions and Effects on Mobile Genetic Elements and Host's Biology
P478volume17