2020
Adaptive tuning of cell sensory diversity without changes in gene expression
Kamino K, Keegstra JM, Long J, Emonet T, Shimizu TS. Adaptive tuning of cell sensory diversity without changes in gene expression. Science Advances 2020, 6: eabc1087. PMID: 33188019, PMCID: PMC7673753, DOI: 10.1126/sciadv.abc1087.Peer-Reviewed Original ResearchMeSH KeywordsAdaptation, PhysiologicalBacterial ProteinsChemotaxisEscherichia coliEscherichia coli ProteinsGene ExpressionConceptsPhenotypic diversityGene expressionCell variationDiversity of phenotypesChemoreceptor TarPosttranslational modificationsAllosteric couplingEnvironmental cuesChemotaxis networkCovalent modificationEnvironmental changesDiversitySensory diversityCell populationsCellsExpressionSuch betsPhenotypeEscherichiaPopulationPrevious studiesModificationVariationSignalsChemoreceptors
2014
Limits of Feedback Control in Bacterial Chemotaxis
Dufour YS, Fu X, Hernandez-Nunez L, Emonet T. Limits of Feedback Control in Bacterial Chemotaxis. PLOS Computational Biology 2014, 10: e1003694. PMID: 24967937, PMCID: PMC4072517, DOI: 10.1371/journal.pcbi.1003694.Peer-Reviewed Original ResearchConceptsFeedback controlIntegral feedback controlOperational regimesOptimal operational regimeComplex statisticsDrift velocityRobust performanceFuture inputsAdaptation rateProper information transferChemotactic driftAnalytical modelInput signalOptimal regimeActuatorsSteep gradientsProper couplingWide rangeChemotactic performanceRegimeBifurcationAdaptability of non-genetic diversity in bacterial chemotaxis
Frankel NW, Pontius W, Dufour YS, Long J, Hernandez-Nunez L, Emonet T. Adaptability of non-genetic diversity in bacterial chemotaxis. ELife 2014, 3: e03526. PMID: 25279698, PMCID: PMC4210811, DOI: 10.7554/elife.03526.Peer-Reviewed Original ResearchConceptsGene regulationNon-genetic diversityBacterial chemotaxis systemHeritable controlChemotaxis systemSelectable traitAdvantageous diversityEnvironmental variationBacterial chemotaxisEnvironmental variabilityClonal populationsDiverse environmentsDiversityE. coliProtein levelsMutationsDifferent environmentsRegulationForagingTraitsColiDiversificationBacteriaColonizationPopulation
2013
Adaptation Dynamics in Densely Clustered Chemoreceptors
Pontius W, Sneddon MW, Emonet T. Adaptation Dynamics in Densely Clustered Chemoreceptors. PLOS Computational Biology 2013, 9: e1003230. PMID: 24068908, PMCID: PMC3777915, DOI: 10.1371/journal.pcbi.1003230.Peer-Reviewed Original ResearchMeSH KeywordsAdaptation, PhysiologicalChemoreceptor CellsChemotaxisEscherichia coliKineticsMethylationModels, TheoreticalConceptsOrganisms senseChemotaxis pathwayTransmembrane receptorsNutrient gradientsReceptor methylationProtein abundanceReceptor substrateBacterial chemotaxisReceptor activityModification systemPathway constituentsEscherichia coliIndividual cellsEnvironmental stimuliFunctional robustnessExpression levelsMechanistic relationshipEnzymeModel systemEnzyme kineticsChemotaxis systemPrecise adaptationAdaptation dynamicsReceptor modificationModification kinetics
2011
Stochastic coordination of multiple actuators reduces latency and improves chemotactic response in bacteria
Sneddon MW, Pontius W, Emonet T. Stochastic coordination of multiple actuators reduces latency and improves chemotactic response in bacteria. Proceedings Of The National Academy Of Sciences Of The United States Of America 2011, 109: 805-810. PMID: 22203971, PMCID: PMC3271881, DOI: 10.1073/pnas.1113706109.Peer-Reviewed Original ResearchThermal Robustness: Lessons from Bacterial Chemotaxis
Dufour YS, Sneddon MW, Emonet T. Thermal Robustness: Lessons from Bacterial Chemotaxis. Current Biology 2011, 21: r465-r468. PMID: 21683899, DOI: 10.1016/j.cub.2011.05.014.Peer-Reviewed Original ResearchHigh‐throughput, subpixel precision analysis of bacterial morphogenesis and intracellular spatio‐temporal dynamics
Sliusarenko O, Heinritz J, Emonet T, Jacobs‐Wagner C. High‐throughput, subpixel precision analysis of bacterial morphogenesis and intracellular spatio‐temporal dynamics. Molecular Microbiology 2011, 80: 612-627. PMID: 21414037, PMCID: PMC3090749, DOI: 10.1111/j.1365-2958.2011.07579.x.Peer-Reviewed Original ResearchConceptsCell cycle regulationCell lineage trackingComplex spatial organizationBacterial morphogenesisCaulobacter crescentusCellular processesCycle regulationLineage trackingChromosomal originFilamentous cellsSpatio-temporal dynamicsIntracellular componentsExternal cuesCell lengthMorphogenesisSpatial organizationSeparation eventsCellsUnbiased studyNovel aspectsCrescentusSegment cellsProtein concentrationCrowded imagesSilencing
2010
Interdependence of behavioural variability and response to small stimuli in bacteria
Park H, Pontius W, Guet CC, Marko JF, Emonet T, Cluzel P. Interdependence of behavioural variability and response to small stimuli in bacteria. Nature 2010, 468: 819-823. PMID: 21076396, PMCID: PMC3230254, DOI: 10.1038/nature09551.Peer-Reviewed Original ResearchFine-Tuning of Chemotactic Response in E. coli Determined by High-Throughput Capillary Assay
Park H, Guet CC, Emonet T, Cluzel P. Fine-Tuning of Chemotactic Response in E. coli Determined by High-Throughput Capillary Assay. Current Microbiology 2010, 62: 764-769. PMID: 20972792, PMCID: PMC3230253, DOI: 10.1007/s00284-010-9778-z.Peer-Reviewed Original ResearchConceptsChemotactic responseWild-type levelsCapillary assayRobust chemotactic responseE. coliWild-type behaviorE. coli cellsPerfect adaptationDepletion of nutrientsColi cellsFusion proteinCellular growthChemotactic behaviorProteinIntracellular concentrationChemotactic proteinColiAssaysChemotaxisAdaptationSwimming bacteriaCheB.Effects of growthCheRGrowthSpatial organization of the flow of genetic information in bacteria
Montero Llopis P, Jackson AF, Sliusarenko O, Surovtsev I, Heinritz J, Emonet T, Jacobs-Wagner C. Spatial organization of the flow of genetic information in bacteria. Nature 2010, 466: 77-81. PMID: 20562858, PMCID: PMC2896451, DOI: 10.1038/nature09152.Peer-Reviewed Original ResearchMeSH KeywordsBacterial ProteinsCaulobacter crescentusChaperoninsChromosomes, BacterialDiffusionDNA, BacterialEndoribonucleasesEscherichia coliGene Expression Regulation, BacterialIn Situ Hybridization, FluorescenceLac OperonProtein BiosynthesisRibosomesRNA StabilityRNA TransportRNA, BacterialRNA, MessengerTranscription, GeneticConceptsSites of transcriptionC. crescentusCaulobacter crescentusEukaryotic cellsCellular physiologyMRNA decayMature mRNAMRNA processesRNase EMRNA substratesMRNA localizationGenetic informationGene expressionBacterial cellsEscherichia coliQuantitative fluorescenceCrescentusSitu hybridizationSpatial organizationMRNABacteriaLimited dispersionCellsTranscriptionTranslation
2009
RodZ, a component of the bacterial core morphogenic apparatus
Alyahya SA, Alexander R, Costa T, Henriques AO, Emonet T, Jacobs-Wagner C. RodZ, a component of the bacterial core morphogenic apparatus. Proceedings Of The National Academy Of Sciences Of The United States Of America 2009, 106: 1239-1244. PMID: 19164570, PMCID: PMC2633561, DOI: 10.1073/pnas.0810794106.Peer-Reviewed Original ResearchConceptsCell morphogenesisExtracellular C-terminal domainBacterial cell morphogenesisConservation of functionTerminal cytoplasmic domainC-terminal domainN-terminal domainMultiple sequence alignmentMreB cytoskeletonBacterial kingdomAncient functionCaulobacter crescentusGrowth machineryLocalization determinantsHelix motifRodZTransmembrane sequenceBacterial phylaCytoplasmic domainGenomic analysisTerminal domainMolecular basisPeptidoglycan synthesisCellular formCell cycle
2008
Minimally invasive determination of mRNA concentration in single living bacteria
Guet CC, Bruneaux L, Min TL, Siegal-Gaskins D, Figueroa I, Emonet T, Cluzel P. Minimally invasive determination of mRNA concentration in single living bacteria. Nucleic Acids Research 2008, 36: e73-e73. PMID: 18515347, PMCID: PMC2475643, DOI: 10.1093/nar/gkn329.Peer-Reviewed Original Research
2006
Hidden Stochastic Nature of a Single Bacterial Motor
Korobkova EA, Emonet T, Park H, Cluzel P. Hidden Stochastic Nature of a Single Bacterial Motor. Physical Review Letters 2006, 96: 058105. PMID: 16486999, DOI: 10.1103/physrevlett.96.058105.Peer-Reviewed Original ResearchDynamical Determinants of Drug-Inducible Gene Expression in a Single Bacterium
Le TT, Emonet T, Harlepp S, Guet C, Cluzel P. Dynamical Determinants of Drug-Inducible Gene Expression in a Single Bacterium. Biophysical Journal 2006, 90: 3315-3321. PMID: 16461398, PMCID: PMC1432126, DOI: 10.1529/biophysj.105.073353.Peer-Reviewed Original ResearchMeSH KeywordsAnti-Bacterial AgentsCapsid ProteinsDrug Resistance, Multiple, BacterialEscherichia coliEscherichia coli ProteinsGene Expression Regulation, BacterialLevivirusLipoproteinsMembrane Transport ProteinsMultidrug Resistance-Associated ProteinsPromoter Regions, GeneticRNA, BacterialRNA, MessengerTetracyclineConceptsGene expressionDrug-inducible gene expressionAcrAB-TolC multidrug effluxTet promoterMultidrug effluxEfflux systemDrug-inducible systemSingle-cell experimentsTranscriptional pulsesSingle bacteriumMultidrug efflux systemsTranscriptional responseEnvironmental signalsGenetic systemRNA degradationFluorescence correlation spectroscopyCellular RNATranscription activityRate of synthesisPromoterInducer concentrationTranscriptionRNA levelsBacteriumPrimitive examples
2005
Real-time RNA profiling within a single bacterium
Le TT, Harlepp S, Guet C, Dittmar K, Emonet T, Pan T, Cluzel P. Real-time RNA profiling within a single bacterium. Proceedings Of The National Academy Of Sciences Of The United States Of America 2005, 102: 9160-9164. PMID: 15967986, PMCID: PMC1166617, DOI: 10.1073/pnas.0503311102.Peer-Reviewed Original ResearchMeSH KeywordsBacterial ProteinsCell CycleCell ProliferationDose-Response Relationship, DrugDrug Resistance, MultipleEscherichia coliEscherichia coli ProteinsGene Expression Regulation, BacterialGenes, ReporterGenotypeGreen Fluorescent ProteinsModels, StatisticalPlasmidsPromoter Regions, GeneticProtein BindingRecombinant Fusion ProteinsRNARNA, MessengerSpectrometry, FluorescenceSpliceosomesTime FactorsTranscription, GeneticConceptsRNA profilingTranscriptional dynamicsInducible gene expression systemGene expression systemSingle cellsSpecific RNA levelsSingle bacteriumRNA levelsGenetic systemSpecific promotersFluorescence correlation spectroscopyExpression systemEscherichia coliEfflux pump systemGenetic deletionProfilingBacteriumPopulation measurementsKey determinantAntibiotic resistanceProkaryotesCellsPromoterCorrelation spectroscopyRNA
2004
From molecular noise to behavioural variability in a single bacterium
Korobkova E, Emonet T, Vilar JM, Shimizu TS, Cluzel P. From molecular noise to behavioural variability in a single bacterium. Nature 2004, 428: 574-578. PMID: 15058306, DOI: 10.1038/nature02404.Peer-Reviewed Original ResearchConceptsChemotaxis networkSingle-cell levelSignal transductionPopulation measurementsIntracellular networksMolecular noiseBehavioral variationMolecular eventsBiological complexityIndividual bacteriaNon-stimulated cellsEscherichia coliBehavioral variabilitySingle bacteriumTemporal fluctuationsStatistical fluctuationsTransductionSuch variabilityTemporal variationBacteriumColiGeneral understandingCertain propertiesBacteriaPathway