2024
Microscopic phage adsorption assay: High-throughput quantification of virus particle attachment to host bacterial cells
Antani J, Ward T, Emonet T, Turner P. Microscopic phage adsorption assay: High-throughput quantification of virus particle attachment to host bacterial cells. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2410905121. PMID: 39700139, PMCID: PMC11670125, DOI: 10.1073/pnas.2410905121.Peer-Reviewed Original ResearchConceptsBacterial cellsViruses of bacteriaHost bacterial cellsTarget bacterial strainsEnumeration of bacteriaPhage biologyPhage attachmentHigh-throughput quantificationPhage libraryBacterial pathogensHigh-throughput screeningPhageBacterial strainsSingle-virusVirus particlesIndividual virus particlesFluorescence microscopyBacteriaEarth's biosphereParticle trackingCellsLow throughputBacteriumRate constantsPathogensDiverse phage communities are maintained stably on a clonal bacterial host
Pyenson N, Leeks A, Nweke O, Goldford J, Schluter J, Turner P, Foster K, Sanchez A. Diverse phage communities are maintained stably on a clonal bacterial host. Science 2024, 386: 1294-1300. PMID: 39666794, PMCID: PMC7617280, DOI: 10.1126/science.adk1183.Peer-Reviewed Original ResearchConceptsPhage communitiesBacterial hostsPhage speciesEcology of bacteriophagesDiverse biological entitiesPhage diversityGrowth phenotypeCommunity ecologyEcological mechanismsPhageBacterial cellsPhenotypic heterogeneityHost populationsBacteriophageBiological entitiesDiversityHostSpeciesPhylogeneticallyNichePhenotypeStrainCellsCommunityA meta-analysis highlights the idiosyncratic nature of tradeoffs in laboratory models of virus evolution
Kabengele K, Turner W, Turner P, Ogbunugafor C. A meta-analysis highlights the idiosyncratic nature of tradeoffs in laboratory models of virus evolution. Virus Evolution 2024, 10: veae105. PMID: 39717708, PMCID: PMC11665823, DOI: 10.1093/ve/veae105.Peer-Reviewed Original ResearchTargeting Pseudomonas aeruginosa biofilm with an evolutionary trained bacteriophage cocktail exploiting phage resistance trade-offs
Kunisch F, Campobasso C, Wagemans J, Yildirim S, Chan B, Schaudinn C, Lavigne R, Turner P, Raschke M, Trampuz A, Gonzalez Moreno M. Targeting Pseudomonas aeruginosa biofilm with an evolutionary trained bacteriophage cocktail exploiting phage resistance trade-offs. Nature Communications 2024, 15: 8572. PMID: 39362854, PMCID: PMC11450229, DOI: 10.1038/s41467-024-52595-w.Peer-Reviewed Original ResearchConceptsResistance trade-offBacteriophage host rangeViruses of bacteriaHuman microbial infectionsMultidrug-resistant bacterial infectionsTwo-phage cocktailMultidrug-resistant Pseudomonas aeruginosa strainsLytic bacteriophagesBiofilm-associatedEvolution assaysPlanktonic culturesBacteriophage cocktailHost rangeBacteriophageHost spectrumBacteriophage therapyCocktail designCombat biofilmsTreated bacteriaMicrobial infectionsAntimicrobial efficacyBacterial suppressionPolymerase chain reactionBacterial infectionsClinical outcomesMicrobe Profile: Bacteriophage ϕ6: a model for segmented RNA viruses and the evolutionary consequences of viral ‘sex’
Turner P, Chao L. Microbe Profile: Bacteriophage ϕ6: a model for segmented RNA viruses and the evolutionary consequences of viral ‘sex’. Microbiology 2024, 170: 001467. PMID: 39046321, PMCID: PMC11316545, DOI: 10.1099/mic.0.001467.Peer-Reviewed Original ResearchConceptsEukaryotic virusesHost-pathogen interactionsEvolution of sexDsRNA virusesEvolutionary consequencesSegment reassortmentBacterial virusesRNA virusesRate of adaptationMutation ratePhenotypic complexityMutation loadLipid envelopeBacteriophageReassortmentRNAMutationsVirusMolecular modelingDsRNAExperimental systemGeneticsTraitsHostReplicationNeutralizing antibodies after nebulized phage therapy in cystic fibrosis patients
Bernabéu-Gimeno M, Pardo-Freire M, Chan B, Turner P, Gil-Brusola A, Pérez-Tarazona S, Carrasco-Hernández L, Quintana-Gallego E, Domingo-Calap P. Neutralizing antibodies after nebulized phage therapy in cystic fibrosis patients. Med 2024, 5: 1096-1111.e6. PMID: 38917792, DOI: 10.1016/j.medj.2024.05.017.Peer-Reviewed Original ResearchMulti-drug resistanceCystic fibrosis patientsPhage therapyClinical outcomesLung infectionFibrosis patientsCystic fibrosisPseudomonas aeruginosa lung infectionAnti-phage antibodiesImmune responseStandard-of-care antibioticsInvasive routes of administrationPhage-neutralizing antibodiesBacterial loadBacterial lung infectionsCystic Fibrosis FoundationNo adverse eventsRoute of administrationPhage preparationsEmergence of antibodiesPhage detectionAntibiotic susceptibilityPhageStaphylococcus aureusBacterial eradicationExperimental Evolution Studies in Φ6 Cystovirus
Singhal S, Balitactac A, Nayagam A, Bahrami P, Nayeem S, Turner P. Experimental Evolution Studies in Φ6 Cystovirus. Viruses 2024, 16: 977. PMID: 38932268, PMCID: PMC11209170, DOI: 10.3390/v16060977.Peer-Reviewed Original ResearchConceptsExperimental evolution studiesFitness effects of spontaneous mutationsSpontaneous mutationsEffects of spontaneous mutationsEvolution of RNA virusesEvolution studiesEvolution of host rangeFast generation timesResponse to selectionMultiple phagesNon-pathogenic modelRNA genomeConsequence of evolutionOuter membraneHost rangeRNA virusesNovel traitsMutation rateHost cellsFitness effectsPopulation sizeMutationsCystovirusesBacteriophageGeneration timeEvolutionary Invasion Analysis of Modern Epidemics Highlights the Context-Dependence of Virulence Evolution
Surasinghe S, Kabengele K, Turner P, Ogbunugafor C. Evolutionary Invasion Analysis of Modern Epidemics Highlights the Context-Dependence of Virulence Evolution. Bulletin Of Mathematical Biology 2024, 86: 88. PMID: 38877355, PMCID: PMC11178639, DOI: 10.1007/s11538-024-01313-0.Peer-Reviewed Original ResearchCystic Fibrosis Bacteriophage Study at Yale (CYPHY)
Stanley G, Cochrane C, Chan B, Kortright K, Rahman B, Lee A, Vill A, Sun Y, Stewart J, Britto-Leon C, Harris Z, Talwalker J, Shabanova V, Turner P, Koff J. Cystic Fibrosis Bacteriophage Study at Yale (CYPHY). 2024, a6808-a6808. DOI: 10.1164/ajrccm-conference.2024.209.1_meetingabstracts.a6808.Peer-Reviewed Original ResearchLytic bacteriophages induce the secretion of antiviral and proinflammatory cytokines from human respiratory epithelial cells
Zamora P, Reidy T, Armbruster C, Sun M, Van Tyne D, Turner P, Koff J, Bomberger J. Lytic bacteriophages induce the secretion of antiviral and proinflammatory cytokines from human respiratory epithelial cells. PLOS Biology 2024, 22: e3002566. PMID: 38652717, PMCID: PMC11037538, DOI: 10.1371/journal.pbio.3002566.Peer-Reviewed Original ResearchConceptsLytic phagesLytic bacteriophagesPhage therapyAirway epithelial cellsPseudomonas aeruginosa phagesEpithelial cellsMultidrug resistanceAirway epitheliumCystic fibrosisProinflammatory cytokinesHuman respiratory epithelial cellsPhage exposurePhage familiesMammalian cell responsesHuman airway epithelial cellsInternalized phageTreat multidrug-resistantPhageBacterial isolatesTranscriptional profilesRespiratory epithelial cellsHuman hostChronic respiratory disordersBacterial biofilmsBacteriophageAddressing the Research and Development Gaps in Modern Phage Therapy
Turner P, Azeredo J, Buurman E, Green S, Haaber J, Haggstrom D, de Figueiredo Carvalho K, Kirchhelle C, Moreno M, Pirnay J, Portillo M. Addressing the Research and Development Gaps in Modern Phage Therapy. PHAGE 2024, 5: 30-39. PMID: 40114805, PMCID: PMC11920706, DOI: 10.1089/phage.2023.0045.Peer-Reviewed Original ResearchOptimized preparation pipeline for emergency phage therapy against Pseudomonas aeruginosa at Yale University
Würstle S, Lee A, Kortright K, Winzig F, An W, Stanley G, Rajagopalan G, Harris Z, Sun Y, Hu B, Blazanin M, Hajfathalian M, Bollyky P, Turner P, Koff J, Chan B. Optimized preparation pipeline for emergency phage therapy against Pseudomonas aeruginosa at Yale University. Scientific Reports 2024, 14: 2657. PMID: 38302552, PMCID: PMC10834462, DOI: 10.1038/s41598-024-52192-3.Peer-Reviewed Original ResearchConceptsEvolutionary selection pressurePhage characterizationPhage therapyPersistent bacterial infectionsBacteriophage therapyPhageSelection pressurePseudomonas aeruginosaInvestigational new drug applicationBacterial infectionsNew Drug ApplicationTherapyDrug applicationClinical applicationAutographiviridaeBacteriaPotential strategy
2023
Beluga whale and bottlenose dolphin ACE2 proteins allow cell entry mediated by spike protein from three variants of SARS-CoV-2
Stone H, Unal E, Romano T, Turner P. Beluga whale and bottlenose dolphin ACE2 proteins allow cell entry mediated by spike protein from three variants of SARS-CoV-2. Biology Letters 2023, 19: 20230321. PMID: 38053365, PMCID: PMC10698476, DOI: 10.1098/rsbl.2023.0321.Peer-Reviewed Original ResearchConceptsAngiotensin-converting enzyme 2Beluga whalesCell entrySpike proteinSpillover of SARS-CoV-2SARS-CoV-2 spike proteinWuhan-Hu-1Formation of social groupsSARS-CoV-2Susceptibility to virus infectionHost individualsAnimal hostsVariants of SARS-CoV-2Pandemic isolatesBottlenose dolphinsACE2 proteinCellular receptorsContact with humansBelugaPotential threatDolphinsProteinAnimal reservoirsEnzyme 2Mammal reservoirs43 Bacteriophages that kill Pseudomonas aeruginosa induce heterogenous cellular responses in the airway epithelium
Zamora P, Reidy T, Armbruster C, Turner P, Chan B, Koff J, Van Tyne D, Bomberger J. 43 Bacteriophages that kill Pseudomonas aeruginosa induce heterogenous cellular responses in the airway epithelium. Journal Of Cystic Fibrosis 2023, 22: s23-s24. DOI: 10.1016/s1569-1993(23)00978-5.Peer-Reviewed Original Research41 CYstic Fibrosis bacterioPHage study at Yale (CYPHY)
Chan B, Kortright K, Stanley G, Cochrane C, Lee A, Vill A, Sun Y, Stewart J, Britto-Leon C, Harris Z, Talkwalkar J, Shabanova V, Turner P, Koff J. 41 CYstic Fibrosis bacterioPHage study at Yale (CYPHY). Journal Of Cystic Fibrosis 2023, 22: s22. DOI: 10.1016/s1569-1993(23)00976-1.Peer-Reviewed Original ResearchComplete Genome Assembly and Annotation of Escherichia coli Bacteriophage 55 from Rivière la Quint in Gonaïves, Haiti
Schwarz J, An W, Theroux A, Vargas L, Chan B, Turner P, Burmeister A. Complete Genome Assembly and Annotation of Escherichia coli Bacteriophage 55 from Rivière la Quint in Gonaïves, Haiti. Microbiology Resource Announcements 2023, 12: e00107-23. PMID: 37272828, PMCID: PMC10353447, DOI: 10.1128/mra.00107-23.Peer-Reviewed Original ResearchDeveloping Phage Therapy That Overcomes the Evolution of Bacterial Resistance
OromÃ-Bosch A, Antani J, Turner P. Developing Phage Therapy That Overcomes the Evolution of Bacterial Resistance. Annual Review Of Virology 2023, 10: 503-524. PMID: 37268007, DOI: 10.1146/annurev-virology-012423-110530.Peer-Reviewed Original ResearchConceptsPhage therapyPhage resistanceBacterial resistanceEvolution of phage resistancePhage-resistant bacteriaEvolution of bacterial resistanceBacteria-specific virusesTreatment of intractable infectionsAlternative antimicrobial strategiesPersonalized medicine treatmentsPhage strategyClinically favorable outcomesBacterial pathogensBacterial populationsPhageTarget bacteriaAntibiotic resistanceAntimicrobial strategiesIntractable infectionsWaning efficacyFavorable outcomeBacterial infectionsBacteriaTherapyPatient treatmentExperimental Evolution of the TolC-Receptor Phage U136B Functionally Identifies a Tail Fiber Protein Involved in Adsorption through Strong Parallel Adaptation
Burmeister A, Tzintzun-Tapia E, Roush C, Mangal I, Barahman R, Bjornson R, Turner P. Experimental Evolution of the TolC-Receptor Phage U136B Functionally Identifies a Tail Fiber Protein Involved in Adsorption through Strong Parallel Adaptation. Applied And Environmental Microbiology 2023, 89: e00079-23. PMID: 37191555, PMCID: PMC10304864, DOI: 10.1128/aem.00079-23.Peer-Reviewed Original ResearchConceptsExperimental evolutionPhage populationsParallel molecular evolutionWhole-population sequencingAntibiotic resistance proteinsTail fiber proteinE. coli hostPhage evolutionEvolutionary potentialMolecular evolutionPhage genotypesTolC proteinParallel adaptationProtein geneAntibiotic resistanceExperimental populationsBacterial diversitySelection pressureBacterial hostsColi hostFiber proteinBacterial populationsBacterial cellsPhage resistancePhage dynamicsComplete Genome Assembly and Annotation of Escherichia coli Bacteriophage 107
Schwarz J, Chan B, Turner P, Burmeister A. Complete Genome Assembly and Annotation of Escherichia coli Bacteriophage 107. Microbiology Resource Announcements 2023, 12: e00106-23. PMID: 37191527, PMCID: PMC10281100, DOI: 10.1128/mra.00106-23.Peer-Reviewed Original ResearchSingle Sequential Bacteriophage Therapy Decreases Pseudomonas Virulence More Than a Cocktail Approach
Stanley G, Chan B, Wuerstle S, Grun C, Kazmierczak B, Sun Y, Kortright K, Turner P, Koff J. Single Sequential Bacteriophage Therapy Decreases Pseudomonas Virulence More Than a Cocktail Approach. 2023, a1228-a1228. DOI: 10.1164/ajrccm-conference.2023.207.1_meetingabstracts.a1228.Peer-Reviewed Original Research
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