2025
Estimating the relative rates of lipopolysaccharide synthesis in Escherichia coli K-12 by click chemistry-mediated labeling
Shu S, Mi W. Estimating the relative rates of lipopolysaccharide synthesis in Escherichia coli K-12 by click chemistry-mediated labeling. PLOS ONE 2025, 20: e0325589. PMID: 40549759, PMCID: PMC12184891, DOI: 10.1371/journal.pone.0325589.Peer-Reviewed Original ResearchConceptsSynthesized LPSLabelled lipopolysaccharideE. coli K-12 strain MG1655Escherichia coli K-12Investigating bacterial physiologyPhase of bacterial growthLog phase of bacterial growthIn-gel fluorescenceBacterial membrane integritySynthesis rateNon-radioactive approachHost immune interactionsGram-negative bacteriaLipopolysaccharide synthesisLPS synthesisBacterial physiologySynthesis in vivoLPS biogenesisExponential phaseCopper-free click reactionIn-gelLog phaseMembrane integrityBacterial growthFluorescent alkyneFapR regulates HssRS-mediated heme homeostasis in Bacillus anthracis
Pi H, Burroughs O, Carlin S, Beavers W, Hillebrand G, Krystofiak E, Stauff D, Skaar E. FapR regulates HssRS-mediated heme homeostasis in Bacillus anthracis. MBio 2025, 16: e02057-24. PMID: 40407322, PMCID: PMC12153329, DOI: 10.1128/mbio.02057-24.Peer-Reviewed Original ResearchConceptsHeme homeostasisKnowledge of bacterial physiologyTwo-component signaling systemRegulation of fatty acid biosynthesisMembrane integrityFatty acid biosynthesisHeme toxicityCausative agent of anthraxHeme stressGram-positive pathogensAgent of anthraxGram-positive bacteriaBacterial physiologyHeme sensingTranscriptional regulationAcid biosynthesisTranscription factorsFapRFacultative anaerobesHeme biosynthesisRegulatory pathwaysHssRSVertebrate bloodMolecular adaptationsMolecular mechanismsAn affinity-based depletion strategy for evaluating the effects of ergothioneine on bacterial physiology
Seminara A, Hatzios S. An affinity-based depletion strategy for evaluating the effects of ergothioneine on bacterial physiology. Cell Chemical Biology 2025, 32: 486-497.e7. PMID: 40068683, PMCID: PMC12057763, DOI: 10.1016/j.chembiol.2025.02.004.Peer-Reviewed Original ResearchConceptsGastric pathogen Helicobacter pyloriHost-associated microbesOuter membrane transportersWild-type H. pyloriTransporter-deficient strainsPathogen Helicobacter pyloriNutrient-rich mediumBacterial physiologyMicrobial physiologyErgothioneine biosynthesisBacterial speciesMicrobial strainsComplex mediaCulture H. pyloriErgothioneineStrainHelicobacter pyloriPhysiologyH. pyloriComplicating effortsBiosynthesisTranscriptionFungalMicrobesHuman diet
2024
Prospects for Riboswitches in Drug Development
Mohsen M, Breaker R. Prospects for Riboswitches in Drug Development. Methods And Principles In Medicinal Chemistry 2024, 203-226. DOI: 10.1002/9783527840458.ch8.Peer-Reviewed Original ResearchUntranslated regions of messenger RNAsRegions of messenger RNAsModulate gene expressionBacterial physiologyEngineered riboswitchesSynthetic switchesRNA structureRiboswitch functionRiboswitchUntranslated regionSmall moleculesDrug developmentGene expressionDrug-like small moleculesHuman gene therapy applicationsMessenger RNARNAGene therapy applicationsAntibiotic agentsTargeting ligandsTherapy applicationsProteinMoleculesDrug
2023
Tradeoffs in bacterial physiology determine the efficiency of antibiotic killing
Bren A, Glass D, Kohanim Y, Mayo A, Alon U. Tradeoffs in bacterial physiology determine the efficiency of antibiotic killing. Proceedings Of The National Academy Of Sciences Of The United States Of America 2023, 120: e2312651120. PMID: 38096408, PMCID: PMC10742385, DOI: 10.1073/pnas.2312651120.Peer-Reviewed Original ResearchConceptsMinimal inhibitory concentrationBacterial physiologyCyclic adenosine monophosphateImprove antibiotic efficacyGrowth rateHigh-throughput assayEnvironmental conditionsRNA-seqAntibiotic killingAntibiotic actionBacterial deathAntibiotic efficacyInhibitory concentrationAntibiotic effectBactericidal activityGrowth conditionsCyclic adenosine monophosphate levelsAdenosine monophosphatePhysiological propertiesPhysiologyGrowthNonstress environmentsAssayDeathAntibiotics
2022
Exploitation of a Bacterium-Encoded Lytic Transglycosylase by a Human Oral Lytic Phage To Facilitate Infection
Cen L, Chang Y, Bedree JK, Ma Y, Zhong Q, Utter DR, Dong PT, Lux R, Bor B, Liu J, McLean JS, Le S, He X. Exploitation of a Bacterium-Encoded Lytic Transglycosylase by a Human Oral Lytic Phage To Facilitate Infection. Journal Of Virology 2022, 96: e01063-22. PMID: 36000841, PMCID: PMC9472602, DOI: 10.1128/jvi.01063-22.Peer-Reviewed Original ResearchConceptsLytic transglycosylaseLytic phagesPhage receptorsOral phageRemarkable host specificityHuman oral microbiomeSimilar expression levelsPeptidoglycan remodelingWhole-genome sequencingMutant backgroundBacterial physiologyHost specificityMicrobial communitiesSurface-grown cellsPhage populationsSensitive phenotypeBacterial hostsOral microbiomePeptidoglycan structureWild typeMetagenomic analysisMutantsSpontaneous mutantsXH001Frameshift mutation
2016
The Fast-Evolving phy-2 Gene Modulates Sexual Development in Response to Light in the Model Fungus Neurospora crassa
Wang Z, Li N, Li J, Dunlap JC, Trail F, Townsend JP. The Fast-Evolving phy-2 Gene Modulates Sexual Development in Response to Light in the Model Fungus Neurospora crassa. MBio 2016, 7: 10.1128/mbio.02148-15. PMID: 26956589, PMCID: PMC4810495, DOI: 10.1128/mbio.02148-15.Peer-Reviewed Original ResearchConceptsModel fungus Neurospora crassaFungus Neurospora crassaSexual reproductionNeurospora crassaPHY-2Plant developmentPlant pathogensBacterial physiologyEnvironmental signalsSexual developmentSexual development-related genesEvolution of phytochromesDestructive plant pathogensDevelopment-related genesFungal growthRed light sensorFunction of phytochromeVariable light conditionsCritical roleFungal biologyPHY-1Asexual growthPhytochrome functionMost speciesPostfire environment
2014
Bacterial noncoding Y RNAs are widespread and mimic tRNAs
Chen X, Sim S, Wurtmann EJ, Feke A, Wolin SL. Bacterial noncoding Y RNAs are widespread and mimic tRNAs. RNA 2014, 20: 1715-1724. PMID: 25232022, PMCID: PMC4201824, DOI: 10.1261/rna.047241.114.Peer-Reviewed Original ResearchConceptsY RNAsStructured RNA degradationRing-shaped proteinNoncoding Y RNAsBacterial physiologyAnimal cellsNucleotide modificationsDeinococcus radioduransPhage speciesRNA degradationTRNARo60 autoantigenRNAOrthologsNcRNAsSpeciesBacteriaExoribonucleaseRNAsRadioduransProteinRo60EnzymePhysiologyPhosphorylase
2013
The Bacterial Cytoplasm Has Glass-like Properties and Is Fluidized by Metabolic Activity
Parry BR, Surovtsev IV, Cabeen MT, O’Hern C, Dufresne ER, Jacobs-Wagner C. The Bacterial Cytoplasm Has Glass-like Properties and Is Fluidized by Metabolic Activity. Cell 2013, 156: 183-194. PMID: 24361104, PMCID: PMC3956598, DOI: 10.1016/j.cell.2013.11.028.Peer-Reviewed Original Research
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