Base pairing small RNAs and their roles in global regulatory networks

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Base pairing small RNAs and their roles in global regulatory networks is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

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P356DOI10.1111/J.1574-6976.2010.00241.X
P932PMC publication ID2920360
P698PubMed publication ID20662934
P5875ResearchGate publication ID45387900

P50authorGisela StorzQ29470553
P2093author name stringChase L Beisel
P2860cites workEfficient degradation and expression prioritization with small RNAs.Q54433113
Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, HfqQ21145046
Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translationQ21145881
Core transcriptional regulatory circuitry in human embryonic stem cellsQ24322016
The Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome bindingQ24533360
A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coliQ24536169
Target prediction for small, noncoding RNAs in bacteriaQ24544245
MicC, a second small-RNA regulator of Omp protein expression in Escherichia coliQ24563596
A unique mechanism regulating gene expression: translational inhibition by a complementary RNA transcript (micRNA)Q24594977
Regulatory RNAs in bacteriaQ24595082
Reprogramming of anaerobic metabolism by the FnrS small RNAQ24606364
Negative feedback loops involving small regulatory RNAs precisely control the Vibrio harveyi quorum-sensing responseQ24615641
Translational regulation of gene expression by an anaerobically induced small non-coding RNA in Escherichia coliQ24634637
DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcriptionQ24645477
Small RNAs establish delays and temporal thresholds in gene expressionQ24646228
A small-RNA-mediated negative feedback loop controls quorum-sensing dynamics in Vibrio harveyiQ24646388
Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its targetQ24647466
A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structuresQ24652762
The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulatorQ24653385
SigmaE-dependent small RNAs of Salmonella respond to membrane stress by accelerating global omp mRNA decayQ24669800
Aerobic regulation of the sucABCD genes of Escherichia coli, which encode alpha-ketoglutarate dehydrogenase and succinyl coenzyme A synthetase: roles of ArcA, Fnr, and the upstream sdhCDAB promoterQ24678384
Cyclic AMP-cyclic AMP receptor protein as a repressor of transcription of the spf gene of Escherichia coliQ24681263
Structure and function of the feed-forward loop network motifQ24683513
A dual function for a bacterial small RNA: SgrS performs base pairing-dependent regulation and encodes a functional polypeptideQ24683800
The novel transcription factor SgrR coordinates the response to glucose-phosphate stressQ24683850
Structure of Escherichia coli Hfq bound to polyriboadenylate RNAQ27658064
Transcriptional regulatory networks in Saccharomyces cerevisiaeQ27860846
Regulation and mode of action of the second small RNA activator of RpoS translation, RprAQ28212671
The Sm-like Hfq protein increases OxyS RNA interaction with target mRNAsQ28216159
Signal transduction and regulatory mechanisms involved in control of the sigma(S) (RpoS) subunit of RNA polymeraseQ28220384
The galactose regulon of Escherichia coliQ28239207
Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiationQ28252581
Base-pairing requirement for RNA silencing by a bacterial small RNA and acceleration of duplex formation by HfqQ28253347
Switching off small RNA regulation with trap-mRNAQ28255082
Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNAQ28257497
Effect of RyhB small RNA on global iron use in Escherichia coliQ28275120
Control of Fur synthesis by the non-coding RNA RyhB and iron-responsive decodingQ28286135
Remodelling of the Escherichia coli outer membrane by two small regulatory RNAsQ28287313
The rpoS mRNA leader recruits Hfq to facilitate annealing with DsrA sRNAQ28288672
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase systemQ28291273
CsrB sRNA family: sequestration of RNA-binding regulatory proteinsQ28294761
Mechanism of RNA silencing by Hfq-binding small RNAsQ28294833
A rough guide to the non-coding RNA world of SalmonellaQ28300754
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
Quantitative characteristics of gene regulation by small RNAQ28469313
Network motifs: simple building blocks of complex networksQ29547340
Network motifs in the transcriptional regulation network of Escherichia coliQ29547342
Network motifs: theory and experimental approachesQ29615325
Engineering stability in gene networks by autoregulationQ29615326
Hfq: a bacterial Sm-like protein that mediates RNA-RNA interactionQ29619904
The bacterial Sm-like protein Hfq: a key player in RNA transactionsQ29620062
Just-in-time transcription program in metabolic pathwaysQ33202257
SigmaE regulates and is regulated by a small RNA in Escherichia coliQ33281445
Ordering genes in a flagella pathway by analysis of expression kinetics from living bacteriaQ33951673
Negative autoregulation speeds the response times of transcription networksQ33962256
Positive regulation by small RNAs and the role of HfqQ34006620
Scaling laws in the functional content of genomesQ34228161
The incoherent feed-forward loop accelerates the response-time of the gal system of Escherichia coliQ34483407
Regulatory dynamics of synthetic gene networks with positive feedbackQ34526328
A chance at survival: gene expression noise and phenotypic diversification strategiesQ34946251
Bacterial quorum-sensing network architecturesQ35037002
Multiple small RNAs act additively to integrate sensory information and control quorum sensing in Vibrio harveyi.Q35589172
Porin channels in Escherichia coli: studies with liposomes reconstituted from purified proteinsQ36324743
A negative feedback loop involving small RNAs accelerates Vibrio cholerae's transition out of quorum-sensing mode.Q36367237
Transcriptional regulatory networks in bacteria: from input signals to output responses.Q36581863
Hfq structure, function and ligand bindingQ36774884
RNA, but not protein partners, is directly responsible for translational silencing by a bacterial Hfq-binding small RNA.Q36802626
Living with noisy genes: how cells function reliably with inherent variability in gene expressionQ36810344
6S RNA: a regulator of transcriptionQ36917127
A quantitative comparison of sRNA-based and protein-based gene regulationQ36973020
The Crp-activated small noncoding regulatory RNA CyaR (RyeE) links nutritional status to group behaviorQ37051352
Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expressionQ37125162
Dynamic features of gene expression control by small regulatory RNAs.Q37249990
Negative feedback that improves information transmission in yeast signallingQ37277701
Small RNAs establish gene expression thresholdsQ37303336
Global analysis of the genetic network controlling a bacterial cell cycleQ38305782
Expression of micF involved in porin synthesis in Escherichia coli: two distinct cis-acting elements respectively regulate micF expression positively and negativelyQ38333388
From acids to osmZ: multiple factors influence synthesis of the OmpF and OmpC porins in Escherichia coli.Q41113929
Regulation of gene expression by small non-coding RNAs: a quantitative viewQ41585774
Universal patterns of purifying selection at noncoding positions in bacteriaQ42216121
From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coliQ47817916
A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutatorQ48047346
P433issue5
P304page(s)866-882
P577publication date2010-06-23
P1433published inFEMS Microbiology ReviewsQ15762226
P1476titleBase pairing small RNAs and their roles in global regulatory networks
P478volume34

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cites work (P2860)
Q46596623A Feed-Forward Loop Consisting of the Response Regulator RpaB and the Small RNA PsrR1 Controls Light Acclimation of Photosystem I Gene Expression in the Cyanobacterium Synechocystis sp. PCC 6803.
Q41699610A Genome-Wide Prediction and Identification of Intergenic Small RNAs by Comparative Analysis in Mesorhizobium huakuii 7653R.
Q36139087A Regulatory Circuit Composed of a Transcription Factor, IscR, and a Regulatory RNA, RyhB, Controls Fe-S Cluster Delivery
Q28255704A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD
Q38841045A conserved α-proteobacterial small RNA contributes to osmoadaptation and symbiotic efficiency of rhizobia on legume roots.
Q54342548A mixed double negative feedback loop between the sRNA MicF and the global regulator Lrp.
Q41509320A mixed incoherent feed-forward loop contributes to the regulation of bacterial photosynthesis genes
Q36631216A novel fluorescent reporter system for monitoring and identifying RNase III activity and its target RNAs
Q21134135A pseudo-tRNA modulates antibiotic resistance in Bacillus cereus
Q34405826A small RNA controls a protein regulator involved in antibiotic resistance in Staphylococcus aureus
Q38029010Acting antisense: plasmid- and chromosome-encoded sRNAs from Gram-positive bacteria
Q53485212Adaptation of Tri-molecular fluorescence complementation allows assaying of regulatory Csr RNA-protein interactions in bacteria.
Q36060575Advantages of mixing bioinformatics and visualization approaches for analyzing sRNA-mediated regulatory bacterial networks
Q41982165An archaeal sRNA targeting cis- and trans-encoded mRNAs via two distinct domains.
Q33768399An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation
Q55027595An sRNA and Cold Shock Protein Homolog-Based Feedforward Loop Post-transcriptionally Controls Cell Cycle Master Regulator CtrA.
Q42696570Antagonistic functions between the RNA chaperone Hfq and an sRNA regulate sensitivity to the antibiotic colicin
Q27001203Antimicrobial strategies centered around reactive oxygen species--bactericidal antibiotics, photodynamic therapy, and beyond
Q34135544Behavior and target site selection of conjugative transposon Tn916 in two different strains of toxigenic Clostridium difficile
Q48293868CSM murray award lecture - functional studies of the Lyme disease spirochete - from molecules to mice
Q31151284Central role for RNase YbeY in Hfq-dependent and Hfq-independent small-RNA regulation in bacteria.
Q36145055Characteristics of Pos19 - A Small Coding RNA in the Oxidative Stress Response of Rhodobacter sphaeroides
Q40681057Characterizing the transcriptional adaptation of Staphylococcus aureus to stationary phase growth
Q35046553Circuitry linking the Csr and stringent response global regulatory systems
Q34530574Computational discovery and RT-PCR validation of novel Burkholderia conserved and Burkholderia pseudomallei unique sRNAs
Q37122110Conserved arginines on the rim of Hfq catalyze base pair formation and exchange
Q21131396Control of virulence by small RNAs in Streptococcus pneumoniae
Q91594621Coordinate regulation of the expression of SdsR toxin and its downstream pphA gene by RyeA antitoxin in Escherichia coli
Q41516624Cross talk between ABC transporter mRNAs via a target mRNA-derived sponge of the GcvB small RNA
Q24490182Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation
Q39614417Direct comparison of small RNA and transcription factor signaling
Q35667449Discriminating tastes: physiological contributions of the Hfq-binding small RNA Spot 42 to catabolite repression
Q34310279Divergently overlapping cis-encoded antisense RNA regulating toxin-antitoxin systems from E. coli: hok/sok, ldr/rdl, symE/symR.
Q24607427Duplex formation between the sRNA DsrA and rpoS mRNA is not sufficient for efficient RpoS synthesis at low temperature
Q36814230Effects of post-transcriptional regulation on phenotypic noise in Escherichia coli
Q35867666Evolutionary dynamics of small RNAs in 27 Escherichia coli and Shigella genomes
Q27024583Experimental approaches to identify small RNAs and their diverse roles in bacteria--what we have learnt in one decade of MicA research
Q43181671Exploration of the role of the non-coding RNA SbrE in L. monocytogenes stress response
Q33564962Expression of Porphyromonas gingivalis small RNA in response to hemin availability identified using microarray and RNA-seq analysis
Q33899594Expression of each cistron in the gal operon can be regulated by transcription termination and generation of a galk-specific mRNA, mK2
Q35217099Functional characterization of bacterial sRNAs using a network biology approach
Q37061489Functional determinants of the quorum-sensing non-coding RNAs and their roles in target regulation
Q35122992Generation and phenotyping of a collection of sRNA gene deletion mutants of the haloarchaeon Haloferax volcanii
Q28834060Genome-Wide Detection of Predicted Non-coding RNAs Related to the Adhesion Process in Vibrio alginolyticus Using High-Throughput Sequencing
Q55112803Global Regulation by CsrA and Its RNA Antagonists.
Q38994591Global Transcriptional Responses to Osmotic, Oxidative, and Imipenem Stress Conditions in Pseudomonas putida
Q47096901Global role of the bacterial post-transcriptional regulator CsrA revealed by integrated transcriptomics
Q42582045Hexamer to monomer equilibrium of E. coli Hfq in solution and its impact on RNA annealing
Q29615791Hfq and its constellation of RNA
Q36280714Hfq proximity and orientation controls RNA annealing
Q64067281Hfq-dependent mRNA unfolding promotes sRNA-based inhibition of translation
Q24489927High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates
Q35620619How do base-pairing small RNAs evolve?
Q33981476HrpA, a DEAH-box RNA helicase, is involved in global gene regulation in the Lyme disease spirochete
Q49514296Identification and Characterization of 5' Untranslated Regions (5'UTRs) in Zymomonas mobilis as Regulatory Biological Parts
Q30657427Identification and characterization of three Vibrio alginolyticus non-coding RNAs involved in adhesion, chemotaxis, and motility processes
Q34470763Identification of a Novel Small Non-Coding RNA Modulating the Intracellular Survival of Brucella melitensis
Q46246177Identification of sRNA mediated responses to nutrient depletion in Burkholderia pseudomallei
Q46851301Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism
Q34740470Identifying and characterizing Hfq-RNA interactions
Q47102732Impact of bacterial sRNAs in stress responses.
Q43808341Improving E. coli growth performance by manipulating small RNA expression.
Q64110598Insights Into Non-coding RNAs as Novel Antimicrobial Drugs
Q47849662Isobaric tags for relative and absolute quantitation proteomics analysis of gene regulation by SprC in Staphylococcus aureus
Q38098474Licensing and due process in the turnover of bacterial RNA.
Q42220662Light-Triggered RNA Annealing by an RNA Chaperone
Q27311533Membrane recognition and dynamics of the RNA degradosome
Q26863669MicroRNA in carcinogenesis & cancer diagnostics: a new paradigm
Q34686600MicroRNA signatures of resveratrol in the ischemic heart
Q34395461Multi-target regulation by small RNAs synchronizes gene expression thresholds and may enhance ultrasensitive behavior
Q38199289Ménage à trois: post-transcriptional control of the key enzyme for cell envelope synthesis by a base-pairing small RNA, an RNase adaptor protein, and a small RNA mimic
Q28727945Non-coding RNA and its potential role in Mycobacterium tuberculosis pathogenesis
Q92764979Oligoribonuclease Contributes to Tolerance to Aminoglycoside and β-Lactam Antibiotics by Regulating KatA in Pseudomonas aeruginosa
Q89824505On a stake-out: Mycobacterial small RNA identification and regulation
Q55283323Origin, Evolution, and Loss of Bacterial Small RNAs.
Q26824966Phenotypic noise: effects of post-transcriptional regulatory processes affecting mRNA
Q21144899Post-transcriptional control of the Escherichia coli PhoQ-PhoP two-component system by multiple sRNAs involves a novel pairing region of GcvB
Q90560683Proteins That Chaperone RNA Regulation
Q28714377Quantitative proteomic analysis of the Hfq-regulon in Sinorhizobium meliloti 2011
Q39436206RNA search engines empower the bacterial intranet
Q89975694RNA-Sequencing Analyses of Small Bacterial RNAs and their Emergence as Virulence Factors in Host-Pathogen Interactions
Q45095625RNAs: regulators of bacterial virulence
Q35088007Rapid binding and release of Hfq from ternary complexes during RNA annealing
Q46091999Rationally designed families of orthogonal RNA regulators of translation
Q27009044Regulation by small RNAs in bacteria: expanding frontiers
Q34534236Regulation of a polyamine transporter by the conserved 3' UTR-derived sRNA SorX confers resistance to singlet oxygen and organic hydroperoxides in Rhodobacter sphaeroides
Q26852008Regulation of bacterial virulence by Csr (Rsm) systems
Q38435296Regulatory RNAs in Bacillus subtilis: a Gram-Positive Perspective on Bacterial RNA-Mediated Regulation of Gene Expression.
Q38819727Regulatory mechanisms related to biofuel tolerance in producing microbes
Q26767390Riboregulators: Fine-Tuning Virulence in Shigella
Q37676227Sibling sRNA RyfA1 Influences Shigella dysenteriae Pathogenesis
Q35696021Small RNA Transcriptome of the Oral Microbiome during Periodontitis Progression
Q28284168Small RNA modules confer different stabilities and interact differently with multiple targets
Q38187359Small RNA regulators in bacteria: powerful tools for metabolic engineering and synthetic biology
Q21131371Small RNA sX13: a multifaceted regulator of virulence in the plant pathogen Xanthomonas
Q36008348Small RNA-based feedforward loop with AND-gate logic regulates extrachromosomal DNA transfer in Salmonella
Q28288849Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis
Q90060039Small RNAs OmrA and OmrB promote class III flagellar gene expression by inhibiting the synthesis of anti-Sigma factor FlgM
Q38062239Small RNAs and their role in biofilm formation
Q96954783Small RNAs as Fundamental Players in the Transference of Information During Bacterial Infectious Diseases
Q37878988Small RNAs as regulators of primary and secondary metabolism in Pseudomonas species
Q28243536Small RNAs endow a transcriptional activator with essential repressor functions for single-tier control of a global stress regulon
Q27026497Small RNAs in the Vibrionaceae: an ocean still to be explored
Q95355807Small RNAs of Borrelia burgdorferi: Characterizing Functional Regulators in a Sea of sRNAs
Q38084831Small Regulatory RNAs in the Control of Motility and Biofilm Formation in E. coli and Salmonella
Q27311408Small regulatory RNA-induced growth rate heterogeneity of Bacillus subtilis
Q42500644Small regulatory RNAs control the multi-cellular adhesive lifestyle of Escherichia coli.
Q34254544Small regulatory RNAs in Pseudomonas aeruginosa
Q35178902Stabilization of perturbed Boolean network attractors through compensatory interactions
Q44978997Stochastic modeling of regulation of gene expression by multiple small RNAs
Q42324804Structural flexibility of RNA as molecular basis for Hfq chaperone function
Q90068768Surface association sensitizes Pseudomonas aeruginosa to quorum sensing
Q35569225Systematic analysis of the role of bacterial Hfq-interacting sRNAs in the response to antibiotics
Q28081126Target activation by regulatory RNAs in bacteria
Q44821305Target evaluation of the non-coding csRNAs reveals a link of the two-component regulatory system CiaRH to competence control in Streptococcus pneumoniae R6.
Q36240637Temperature-dependent sRNA transcriptome of the Lyme disease spirochete
Q41934938The Cpx envelope stress response regulates and is regulated by small noncoding RNAs.
Q36114219The Impact of 18 Ancestral and Horizontally-Acquired Regulatory Proteins upon the Transcriptome and sRNA Landscape of Salmonella enterica serovar Typhimurium.
Q37076396The RNA Chaperone Hfq Is Essential for Virulence and Modulates the Expression of Four Adhesins in Yersinia enterocolitica
Q55257498The Small RNA ErsA of Pseudomonas aeruginosa Contributes to Biofilm Development and Motility through Post-transcriptional Modulation of AmrZ.
Q48188896The Small RNA ncS35 Regulates Growth in Burkholderia cenocepacia J2315.
Q47161340The Small Regulatory RNA Spot42 Inhibits Indole Biosynthesis to Negatively Regulate the Locus of Enterocyte Effacement of Enteropathogenic Escherichia coli
Q33851489The Staphylococcus aureus RNome and its commitment to virulence
Q28067397The Tip of the Iceberg: On the Roles of Regulatory Small RNAs in the Virulence of Enterohemorrhagic and Enteropathogenic Escherichia coli
Q37995707The bacterial protein Hfq: much more than a mere RNA-binding factor
Q24622607The base-pairing RNA spot 42 participates in a multioutput feedforward loop to help enact catabolite repression in Escherichia coli
Q54340513The csgD mRNA as a hub for signal integration via multiple small RNAs.
Q28392956The impracticality of biomedical rejuvenation therapies: translational and pharmacological barriers
Q36180214The magnitude and colour of noise in genetic negative feedback systems
Q50030555The small RNA RybA regulates key-genes in the biosynthesis of aromatic amino acids under peroxide stress in E. coli.
Q28277062The target spectrum of SdsR small RNA in Salmonella
Q37210945Transcript degradation and noise of small RNA-controlled genes in a switch activated network in Escherichia coli
Q60301212Transcriptional profiling of the mutualistic bacterium and an mutant under modeled microgravity
Q27016195Transcriptome complexity and riboregulation in the human pathogen Helicobacter pylori
Q37689700Transcriptomic analysis of staphylococcal sRNAs: insights into species-specific adaption and the evolution of pathogenesis.
Q36340099Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence
Q37522931Unexpected properties of sRNA promoters allow feedback control via regulation of a two-component system
Q41408667Unusually high-affinity Mg(2+) binding at the AU-rich sequence within the antiterminator hairpin of a Mg(2+) riboswitch.
Q33907606Using DNA microarrays to assay part function
Q57340329Variations on transcriptional and post-transcriptional processes in bacteria
Q47692283When eukaryotes and prokaryotes look alike: the case of regulatory RNAs.
Q36320820rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining
Q30017317sRNA154 a newly identified regulator of nitrogen fixation in Methanosarcina mazei strain Gö1

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