2024
Optimized 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
Experimental 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 dynamics
2020
Experimental Evolution of Human Rhinovirus Strains Adapting to Mouse Cells
Wasik B, Wasik B, Foxman E, Iwasaki A, Turner P. Experimental Evolution of Human Rhinovirus Strains Adapting to Mouse Cells. Genetic And Evolutionary Computation 2020, 145-157. DOI: 10.1007/978-3-030-39831-6_12.Peer-Reviewed Original ResearchMouse cellsIdentical selection pressuresExperimental evolution studiesLaboratory tissue cultureCommon cold illnessesViral capsid geneMolecular divergenceExperimental evolutionReplication genesSelection pressureRelated populationsGenetic changesRNA virusesHuman rhinovirus strainsCapsid geneEvolution studiesRV-1BInnate immunityGenesTissue cultureDifferent strainsCellsLA-4 cellsHostMouse host
2016
Reassortment in segmented RNA viruses: mechanisms and outcomes
McDonald SM, Nelson MI, Turner PE, Patton JT. Reassortment in segmented RNA viruses: mechanisms and outcomes. Nature Reviews Microbiology 2016, 14: 448-460. PMID: 27211789, PMCID: PMC5119462, DOI: 10.1038/nrmicro.2016.46.Peer-Reviewed Original ResearchConceptsRNA virusesGenome segmentsProtein-RNA interactionsMultiple selection pressuresRNA-RNA interactionsSingle host cellSegmented RNA virusViral fitnessDifferent gene segmentsProtein setsSelection pressureHost cellsGene segmentsGeneration of reassortantsImportant pathogenReassortmentDifferent viral strainsReassortant virusesFitnessImmune recognitionHybrid virionsReassortantsVirusMore virusesPlants
2014
Antibiotic resistance correlates with transmission in plasmid evolution
Turner PE, Williams ES, Okeke C, Cooper VS, Duffy S, Wertz JE. Antibiotic resistance correlates with transmission in plasmid evolution. Evolution 2014, 68: 3368-3380. PMID: 25351426, DOI: 10.1111/evo.12537.Peer-Reviewed Original ResearchConceptsCarbon source utilizationPreliminary sequence analysisAntibiotic resistance correlatesFitness assaysQuantitative traitsSelection pressureBacterial hostsResistance levelsPhenotypic performancePlasmid-bearing cellsGenetic rearrangementsTransfer operonSequence analysisPlasmid evolutionPlasmid conjugationCommon competitorPhenotypic correlationsShufflon regionTetracycline resistance transposonAutonomous replicatorPlasmidHorizontal transmissionDivergencePlasmid resistancePlasmid lineages
2008
Evolutionary Genomics of Host Adaptation in Vesicular Stomatitis Virus
Remold SK, Rambaut A, Turner PE. Evolutionary Genomics of Host Adaptation in Vesicular Stomatitis Virus. Molecular Biology And Evolution 2008, 25: 1138-1147. PMID: 18353798, DOI: 10.1093/molbev/msn059.Peer-Reviewed Original ResearchConceptsGenetic architectureComplex traitsHigher fitnessVirus populationsVesicular stomatitis virus populationsParallel phenotypic changesSimilar selection pressuresRNA virus populationsHigh mutation rateEvolutionary genomicsGenome evolutionHost useComplete consensus sequenceTrue pleiotropyHost adaptationAllele substitutionGenomic changesSelection pressureVesicular stomatitis virusConsensus sequenceMutation rateEcological historyPhenotypic changesRNA virusesHeLa cells