Small regulatory non-coding RNAs in bacteria: physiology and mechanistic aspects

scientific article published on February 2009

Small regulatory non-coding RNAs in bacteria: physiology and mechanistic aspects is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

External links are
P356DOI10.1042/BC20070137
P698PubMed publication ID19076068

P50authorFrancis RepoilaQ42760967
Fabien DarfeuilleQ55294348
P2860cites workThe Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome bindingQ24533360
Small untranslated RNA antitoxin in Bacillus subtilisQ24534047
Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA.Q24536474
Target prediction for small, noncoding RNAs in bacteriaQ24544245
Translational repression is sufficient for gene silencing by bacterial small noncoding RNAs in the absence of mRNA destructionQ24546344
An internal antisense RNA regulates expression of the photosynthesis gene isiAQ24547055
Staphylococcus aureus RNAIII and the endoribonuclease III coordinately regulate spa gene expressionQ24556609
Toxin-antitoxin loci are highly abundant in free-living but lost from host-associated prokaryotesQ24556626
Implication of membrane localization of target mRNA in the action of a small RNA: mechanism of post-transcriptional regulation of glucose transporter in Escherichia coliQ24557422
GadY, a small-RNA regulator of acid response genes in Escherichia coliQ24563573
DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcriptionQ24645477
A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structuresQ24652762
A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sitesQ24672099
Spot 42 RNA mediates discoordinate expression of the E. coli galactose operonQ24674172
An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxinQ24674628
Hypothetical functions of toxin-antitoxin systemsQ24675719
Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator Rot by an antisense mechanismQ24681092
Identification of additional genes belonging to the LexA regulon in Escherichia coliQ42486422
Characterization of RNA sequence determinants and antideterminants of processing reactivity for a minimal substrate of Escherichia coli ribonuclease III.Q42590004
Studies on the function of the riboregulator 6S RNA from E. coli: RNA polymerase binding, inhibition of in vitro transcription and synthesis of RNA-directed de novo transcriptsQ42779862
Enolase in the RNA degradosome plays a crucial role in the rapid decay of glucose transporter mRNA in the response to phosphosugar stress in Escherichia coliQ45135642
Indole signalling contributes to the stable maintenance of Escherichia coli multicopy plasmidsQ48545634
A small RNA downregulates LamB maltoporin in SalmonellaQ50070688
A mutational analysis of the ColE1-encoded cell cycle regulator Rcd confirms its role in plasmid stability.Q53638811
Biogenesis of the gram-negative bacterial outer membrane.Q54441288
Synthesis-mediated release of a small RNA inhibitor of RNA polymerase.Q54450635
Identification of a furA cis antisense RNA in the cyanobacterium Anabaena sp. PCC 7120.Q54474349
How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteriaQ36678721
Small RNAs controlling outer membrane porinsQ36763357
Small noncoding RNAs controlling pathogenesisQ36769256
Small RNAs controlling iron metabolismQ36769261
The role of small RNAs in quorum sensingQ36771067
Hfq structure, function and ligand bindingQ36774884
Proteins that interact with bacterial small RNA regulatorsQ36892912
Dealing with stable structures at ribosome binding sites: bacterial translation and ribosome standbyQ37038322
Promoter specificity for 6S RNA regulation of transcription is determined by core promoter sequences and competition for region 4.2 of sigma70.Q38294358
Regulation of 6S RNA biogenesis by switching utilization of both sigma factors and endoribonucleasesQ40605925
In vitro analysis of the interaction between the small RNA SR1 and its primary target ahrC mRNAQ24683587
The novel transcription factor SgrR coordinates the response to glucose-phosphate stressQ24683850
RNase E-dependent processing stabilizes MicX, a Vibrio cholerae sRNAQ24684056
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coliQ24684800
Identification of new noncoding RNAs in Listeria monocytogenes and prediction of mRNA targetsQ24684824
Conserved and variable functions of the sigmaE stress response in related genomesQ24811266
Small non-coding RNAs, co-ordinators of adaptation processes in Escherichia coli: the RpoS paradigmQ28204689
Regulation of RpoS by a novel small RNA: the characterization of RprAQ28204998
Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino-acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coliQ28214985
Feedback control of glucosamine-6-phosphate synthase GlmS expression depends on the small RNA GlmZ and involves the novel protein YhbJ in Escherichia coliQ28247175
A conserved small RNA promotes discoordinate expression of the glmUS operon mRNA to activate GlmS synthesisQ28248562
Base-pairing requirement for RNA silencing by a bacterial small RNA and acceleration of duplex formation by HfqQ28253347
Inhibition of rot translation by RNAIII, a key feature of agr functionQ28255084
Escherichia coli cell division inhibitor DicF-RNA of the dicB operon. Evidence for its generation in vivo by transcription termination and by RNase III and RNase E-dependent processingQ28258097
Conserved small non-coding RNAs that belong to the sigmaE regulon: role in down-regulation of outer membrane proteinsQ28265898
The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio choleraeQ28270975
RyhB small RNA modulates the free intracellular iron pool and is essential for normal growth during iron limitation in Escherichia coliQ28271605
Control of Fur synthesis by the non-coding RNA RyhB and iron-responsive decodingQ28286135
A small RNA inhibits translation of the histone-like protein Hc1 in Chlamydia trachomatisQ28289615
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase systemQ28291273
RNA antitoxinsQ28294158
CsrB sRNA family: sequestration of RNA-binding regulatory proteinsQ28294761
Mechanism of RNA silencing by Hfq-binding small RNAsQ28294833
An antisense RNA inhibits translation by competing with standby ribosomesQ28302101
The small RNA RyhB activates the translation of shiA mRNA encoding a permease of shikimate, a compound involved in siderophore synthesisQ28304722
Outer membrane protein genes and their small non-coding RNA regulator genes in Photorhabdus luminescensQ28768503
Ribonuclease revisited: structural insights into ribonuclease III family enzymesQ29031125
Pathways of Oxidative DamageQ29615094
Bacterial iron homeostasisQ29615095
Prokaryotic toxin-antitoxin stress response lociQ29615335
Autoinduction and signal transduction in the regulation of staphylococcal virulenceQ29615337
Regulation of bacterial gene expression by riboswitchesQ29617849
Hfq: a bacterial Sm-like protein that mediates RNA-RNA interactionQ29619904
RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAsQ29619938
The bacterial Sm-like protein Hfq: a key player in RNA transactionsQ29620062
Regulatory small RNAs circumvent the conventional quorum sensing pathway in pandemic Vibrio cholerae.Q30362198
Global regulation of Staphylococcus aureus genes by RotQ31123861
Iron and oxidative stress in bacteriaQ33808433
The OxyS regulatory RNA represses rpoS translation and binds the Hfq (HF-I) proteinQ33889724
The small RNA IstR inhibits synthesis of an SOS-induced toxic peptideQ33984064
Small non-coding RNAs and the bacterial outer membraneQ34000397
6S RNA: a small RNA regulator of transcriptionQ34003153
Target identification of small noncoding RNAs in bacteriaQ34004747
Hfq, a new chaperoning role: binding to messenger RNA determines access for small RNA regulatorQ34107548
Iron and metal regulation in bacteriaQ34205005
Implication of CcpN in the regulation of a novel untranslated RNA (SR1) in Bacillus subtilisQ34451127
CsrA and three redundant small RNAs regulate quorum sensing in Vibrio cholerae.Q34464419
How to find small non-coding RNAs in bacteriaQ34473835
The small untranslated RNA SR1 from the Bacillus subtilis genome is involved in the regulation of arginine catabolism.Q34571457
Emerging plasmid-encoded antisense RNA regulated systemsQ34610940
Regulatory mechanisms employed by cis-encoded antisense RNAsQ34612437
The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E.Q34621048
Identification of bacterial small non-coding RNAs: experimental approachesQ34635147
Gac/Rsm signal transduction pathway of gamma-proteobacteria: from RNA recognition to regulation of social behaviourQ34719736
A small SOS-induced toxin is targeted against the inner membrane in Escherichia coliQ34818566
Identification of a novel regulatory protein (CsrD) that targets the global regulatory RNAs CsrB and CsrC for degradation by RNase E.Q35052576
The Vibrio harveyi quorum-sensing system uses shared regulatory components to discriminate between multiple autoinducersQ35052616
Multiple small RNAs act additively to integrate sensory information and control quorum sensing in Vibrio harveyi.Q35589172
The intricate world of riboswitchesQ35847087
CsrA inhibits translation initiation of Escherichia coli hfq by binding to a single site overlapping the Shine-Dalgarno sequenceQ35949212
Metal ion homeostasis in Bacillus subtilisQ36085271
Differential expression of a Clostridium acetobutylicum antisense RNA: implications for regulation of glutamine synthetaseQ36136187
An abundance of RNA regulatorsQ36161159
Sigma and RNA polymerase: an on-again, off-again relationship?Q36312263
Advances in understanding bacterial outer-membrane biogenesisQ36343565
The role of RNAs in the regulation of virulence-gene expression.Q36418318
Pushing the envelope: extracytoplasmic stress responses in bacterial pathogensQ36484528
Surface proteins of gram-positive bacteria and how they get thereQ36497104
Coupling the distribution of RNA polymerase to global gene regulation and the dynamic structure of the bacterial nucleoid in Escherichia coliQ36578168
Modulating the outer membrane with small RNAsQ36584942
P433issue2
P921main subjectbacteriaQ10876
physiologyQ521
P1104number of pages15
P304page(s)117-131
P577publication date2009-02-01
P1433published inBiology of the CellQ1254604
P1476titleSmall regulatory non-coding RNAs in bacteria: physiology and mechanistic aspects
P478volume101

Reverse relations

cites work (P2860)
Q51816324"Hypothesis for the modern RNA world": a pervasive non-coding RNA-based genetic regulation is a prerequisite for the emergence of multicellular complexity.
Q41699610A Genome-Wide Prediction and Identification of Intergenic Small RNAs by Comparative Analysis in Mesorhizobium huakuii 7653R.
Q92532800A Mn-sensing riboswitch activates expression of a Mn2+/Ca2+ ATPase transporter in Streptococcus
Q36050505A Novel Mechanism of Host-Pathogen Interaction through sRNA in Bacterial Outer Membrane Vesicles
Q35971260A Transcriptome Map of Actinobacillus pleuropneumoniae at Single-Nucleotide Resolution Using Deep RNA-Seq
Q46266269A long and abundant non-coding RNA in Lactobacillus salivarius
Q35120113A model system for studying the transcriptomic and physiological changes associated with mammalian host-adaptation by Leptospira interrogans serovar Copenhageni
Q38333799A multifactor regulatory circuit involving H-NS, VirF and an antisense RNA modulates transcription of the virulence gene icsA of Shigella flexneri.
Q34096685A novel antisense RNA regulates at transcriptional level the virulence gene icsA of Shigella flexneri.
Q27666599A processed noncoding RNA regulates an altruistic bacterial antiviral system
Q34779533A simple and efficient method to search for selected primary transcripts: non-coding and antisense RNAs in the human pathogen Enterococcus faecalis
Q52600882Advances and prospects in metabolic engineering of Zymomonas mobilis.
Q27001203Antimicrobial strategies centered around reactive oxygen species--bactericidal antibiotics, photodynamic therapy, and beyond
Q60936628Bacterial Small RNAs in the Genus spp
Q36664581Bacterial antisense RNAs are mainly the product of transcriptional noise
Q48239315Benefit from decline: the primary transcriptome of Alteromonas macleodii str. Te101 during Trichodesmium demise
Q35120794Characterization of plastid psbT sense and antisense RNAs
Q34240883Clostridium difficile Hfq can replace Escherichia coli Hfq for most of its function
Q41431667Common and divergent features in transcriptional control of the homologous small RNAs GlmY and GlmZ in Enterobacteriaceae
Q55209151Complete Genome Sequence of a Ciprofloxacin-Resistant Salmonella enterica subsp. enterica Serovar Kentucky Sequence Type 198 Strain, PU131, Isolated from a Human Patient in Washington State.
Q35184635Complex interplay among DNA modification, noncoding RNA expression and protein-coding RNA expression in Salvia miltiorrhiza chloroplast genome
Q38738966Computational prediction of functional abortive RNA in E. coli
Q37252988Deciphering the interplay between two independent functions of the small RNA regulator SgrS in Salmonella
Q35813543Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture
Q38313543Design and use of synthetic regulatory small RNAs to control gene expression in Escherichia coli
Q34371534Determination of sRNA expressions by RNA-seq in Yersinia pestis grown in vitro and during infection
Q39614417Direct comparison of small RNA and transcription factor signaling
Q31125424Directional RNA-seq reveals highly complex condition-dependent transcriptomes in E. coli K12 through accurate full-length transcripts assembling
Q34508819Disruption of small RNA signaling caused by competition for Hfq.
Q46814709Diversity of small RNAs expressed in Pseudomonas species.
Q24607427Duplex formation between the sRNA DsrA and rpoS mRNA is not sufficient for efficient RpoS synthesis at low temperature
Q34005271Essential requirements for robust signaling in Hfq dependent small RNA networks
Q33758515Expanding roles for metabolite-sensing regulatory RNAs
Q37812338Function of plastid sigma factors in higher plants: regulation of gene expression or just preservation of constitutive transcription?
Q39179580Genix: a new online automated pipeline for bacterial genome annotation
Q41384293Genome-Wide Transcriptional Dynamics in the Companion Bacterial Symbionts of the Glassy-Winged Sharpshooter (Cicadellidae: Homalodisca vitripennis) Reveal Differential Gene Expression in Bacteria Occupying Multiple Host Organs
Q34532627Genome-wide discovery of small RNAs in Mycobacterium tuberculosis
Q34245313Genome-wide identification of novel small RNAs in Pseudomonas aeruginosa
Q28247876Genome-wide identification of small RNAs in the opportunistic pathogen Enterococcus faecalis V583
Q33654823Global gene expression analysis of long-term stationary phase effects in E. coli K12 MG1655
Q42601067Hfq affects the expression of the LEE pathogenicity island in enterohaemorrhagic Escherichia coli
Q41510653Identification of 88 regulatory small RNAs in the TIGR4 strain of the human pathogen Streptococcus pneumoniae.
Q34103665Identification of sRNAs expressed by the human pathogen Neisseria gonorrhoeae under disparate growth conditions.
Q39516571Identification of small RNAs in Mycobacterium smegmatis using heterologous Hfq
Q43808341Improving E. coli growth performance by manipulating small RNA expression.
Q57039543In silico 'fishing' using known small regulatory RNA (sRNA) candidates as the decoy from Escherichia coli, Salmonella typhi and Salmonella typhimurium manifested 14 novel sRNA candidates in the orthologous region of Proteus mirabilis
Q38141997Influence of small RNAs on biofilm formation process in bacteria.
Q36514140Information-theoretic uncertainty of SCFG-modeled folding space of the non-coding RNA.
Q34298528Involvement of Enterococcus faecalis small RNAs in stress response and virulence.
Q24619082LC/MS analysis of cellular RNA reveals NAD-linked RNA
Q34248365Metabolic classification of microbial genomes using functional probes
Q36066135Molecular Detection of Methicillin-Resistant Staphylococcus aureus by Non-Protein Coding RNA-Mediated Monoplex Polymerase Chain Reaction
Q37373617OprD Repression upon Metal Treatment Requires the RNA Chaperone Hfq in Pseudomonas aeruginosa
Q33709959Overexpression of a natural chloroplast-encoded antisense RNA in tobacco destabilizes 5S rRNA and retards plant growth
Q35029210Phages in nature
Q38494482Phagocyte subsets and lymphocyte clonal deletion behind ineffective immune response to Staphylococcus aureus
Q34538307Photorhabdus-nematode symbiosis is dependent on hfq-mediated regulation of secondary metabolites
Q51393409Positive regulatory dynamics by a small noncoding RNA: speeding up responses under temperature stress.
Q64091847Prediction and characterization of promoters and ribosomal binding sites of in system biology era
Q33705174Proteomic alterations explain phenotypic changes in Sinorhizobium meliloti lacking the RNA chaperone Hfq.
Q33798792Pyruvate-associated acid resistance in bacteria
Q42984641RNA sequencing provides evidence for functional variability between naturally co-existing Alteromonas macleodii lineages
Q38349121Rapid cleavage of RNA by RNase E in the absence of 5' monophosphate stimulation
Q38077251Regulatory RNAs in archaea: first target identification in Methanoarchaea.
Q42713382Requirement of the CsdA DEAD-box helicase for low temperature riboregulation of rpoS mRNA
Q36228436Requirement of upstream Hfq-binding (ARN)x elements in glmS and the Hfq C-terminal region for GlmS upregulation by sRNAs GlmZ and GlmY.
Q39103598Role of Non-coding Regulatory RNA in the Virulence of Human Pathogenic Vibrios.
Q90446100Role of non-coding RNA in pancreatic cancer
Q39321244Roles of Regulatory RNAs for Antibiotic Resistance in Bacteria and Their Potential Value as Novel Drug Targets
Q35619250Secondary structural entropy in RNA switch (Riboswitch) identification.
Q35591030Single-molecule studies of transcription: from one RNA polymerase at a time to the gene expression profile of a cell
Q38187359Small RNA regulators in bacteria: powerful tools for metabolic engineering and synthetic biology
Q41814705Small genes under sporulation control in the Bacillus subtilis genome
Q42324804Structural flexibility of RNA as molecular basis for Hfq chaperone function
Q35829452Survival of Listeria monocytogenes in Soil Requires AgrA-Mediated Regulation
Q36159650The Mycobacterium tuberculosis transcriptional landscape under genotoxic stress
Q64951181The Presence and Localization of G-Quadruplex Forming Sequences in the Domain of Bacteria.
Q37321831The exoribonuclease Polynucleotide Phosphorylase influences the virulence and stress responses of yersiniae and many other pathogens
Q34281829The expression of small regulatory RNAs in clinical samples reflects the different life styles of Staphylococcus aureus in colonization vs. infection
Q35017796The intracellular sRNA transcriptome of Listeria monocytogenes during growth in macrophages
Q38331095The modulation of Staphylococcus aureus mRNA turnover
Q47292286Thinking beside the box: Should we care about the non-coding strand of the 16S rRNA gene?
Q28727915Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213
Q41210826Two small ncRNAs jointly govern virulence and transmission in Legionella pneumophila
Q35746855Unexpected Diversity of Chloroplast Noncoding RNAs as Revealed by Deep Sequencing of the Arabidopsis Transcriptome
Q39933027Whole-genome mapping of 5' RNA ends in bacteria by tagged sequencing: a comprehensive view in Enterococcus faecalis
Q28277943ncRNAs and thermoregulation: a view in prokaryotes and eukaryotes
Q33807840nocoRNAc: characterization of non-coding RNAs in prokaryotes
Q36320820rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining

Search more.