Featured Publications
Within-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation
Chaguza C, Senghore M, Bojang E, Gladstone RA, Lo SW, Tientcheu PE, Bancroft RE, Worwui A, Foster-Nyarko E, Ceesay F, Okoi C, McGee L, Klugman KP, Breiman RF, Barer MR, Adegbola RA, Antonio M, Bentley SD, Kwambana-Adams BA. Within-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation. Nature Communications 2020, 11: 3442. PMID: 32651390, PMCID: PMC7351774, DOI: 10.1038/s41467-020-17327-w.Peer-Reviewed Original ResearchMeSH KeywordsEvolution, MolecularGeneticsGenome, BacterialHumansPneumococcal InfectionsStreptococcus pneumoniaeWhole Genome SequencingConceptsNatural colonisationHost microevolutionNucleotide substitution ratesWhole-genome sequencingGenomic evolutionNeutral evolutionGenetic diversityHomologous recombinationParallel evolutionGenomic changesAdhesion genesSubstitution ratesHuman-adapted pathogenMicroevolutionStrain variantsColonisationImmune evasionStreptococcus pneumoniaeAntibiotic resistanceGenesEvolutionSequencingDiversityNasopharyngeal carriageBacteria
2021
Pneumococcal Colonization and Virulence Factors Identified Via Experimental Evolution in Infection Models
Green AE, Howarth D, Chaguza C, Echlin H, Langendonk RF, Munro C, Barton TE, Hinton J, Bentley SD, Rosch JW, Neill DR. Pneumococcal Colonization and Virulence Factors Identified Via Experimental Evolution in Infection Models. Molecular Biology And Evolution 2021, 38: 2209-2226. PMID: 33502519, PMCID: PMC8136498, DOI: 10.1093/molbev/msab018.Peer-Reviewed Original Research
2019
Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages
Musicha P, Msefula CL, Mather AE, Chaguza C, Cain AK, Peno C, Kallonen T, Khonga M, Denis B, Gray KJ, Heyderman RS, Thomson NR, Everett DB, Feasey NA. Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages. Journal Of Antimicrobial Chemotherapy 2019, 74: 1223-1232. PMID: 30778540, PMCID: PMC6477993, DOI: 10.1093/jac/dkz032.Peer-Reviewed Original Research
2017
Comparative Genomic Analysis and In Vivo Modeling of Streptococcus pneumoniae ST3081 and ST618 Isolates Reveal Key Genetic and Phenotypic Differences Contributing to Clonal Replacement of Serotype 1 in The Gambia
Bricio-Moreno L, Ebruke C, Chaguza C, Cornick J, Kwambana-Adams B, Yang M, Mackenzie G, Wren BW, Everett D, Antonio M, Kadioglu A. Comparative Genomic Analysis and In Vivo Modeling of Streptococcus pneumoniae ST3081 and ST618 Isolates Reveal Key Genetic and Phenotypic Differences Contributing to Clonal Replacement of Serotype 1 in The Gambia. The Journal Of Infectious Diseases 2017, 216: 1318-1327. PMID: 28968897, PMCID: PMC5853340, DOI: 10.1093/infdis/jix472.Peer-Reviewed Original ResearchAnimalsCarrier StateDisease Models, AnimalGambiaGenetic VariationGenome, BacterialGenomicsHemolysisHost-Pathogen InteractionsHumansMaleMiceMultilocus Sequence TypingNasopharynxPhenotypePneumococcal InfectionsPneumonia, PneumococcalPolymorphism, Single NucleotideSerotypingStreptococcus pneumoniaeVirulencePopulation genetic structure, antibiotic resistance, capsule switching and evolution of invasive pneumococci before conjugate vaccination in Malawi
Chaguza C, Cornick JE, Andam CP, Gladstone RA, Alaerts M, Musicha P, Peno C, Bar-Zeev N, Kamng'ona AW, Kiran AM, Msefula CL, McGee L, Breiman RF, Kadioglu A, French N, Heyderman RS, Hanage WP, Bentley SD, Everett DB. Population genetic structure, antibiotic resistance, capsule switching and evolution of invasive pneumococci before conjugate vaccination in Malawi. Vaccine 2017, 35: 4594-4602. PMID: 28711389, PMCID: PMC5571440, DOI: 10.1016/j.vaccine.2017.07.009.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentAdultBacterial CapsulesChildChild, PreschoolDrug Resistance, Multiple, BacterialEvolution, MolecularFemaleGenome, BacterialHigh-Throughput Nucleotide SequencingHumansInfantInfant, NewbornMalawiMalePneumococcal InfectionsPneumococcal VaccinesPrevalenceRetrospective StudiesSerogroupSerotypingStreptococcus pneumoniaeVaccinationVaccines, ConjugateYoung AdultConceptsPneumococcal conjugate vaccineMDR ratePneumococcal isolatesHigher MDR rateImplementation of PCV13Prevalence of serotypesNon-vaccine serotypesInvasive pneumococcal isolatesGood infection preventionAntibiotic resistance ratesAntibiotic resistanceAbsence of vaccinesReplacement serotypesSerotype replacementInvasive pneumococciPneumococcal infectionConjugate vaccineSerotype 12FDisease burdenInfection preventionSerotype prevalenceHigh prevalenceInvasive isolatesContinued surveillanceResistance ratesAdaptation... that's what you need?
Chaguza C, Bentley SD. Adaptation... that's what you need? Nature Reviews Microbiology 2017, 15: 452-452. PMID: 28690321, DOI: 10.1038/nrmicro.2017.78.Peer-Reviewed Original ResearchGenomic Epidemiology of Penicillin-Nonsusceptible Pneumococci with Nonvaccine Serotypes Causing Invasive Disease in the United States
Andam CP, Mitchell PK, Callendrello A, Chang Q, Corander J, Chaguza C, McGee L, Beall BW, Hanage WP. Genomic Epidemiology of Penicillin-Nonsusceptible Pneumococci with Nonvaccine Serotypes Causing Invasive Disease in the United States. Journal Of Clinical Microbiology 2017, 55: 1104-1115. PMID: 28100596, PMCID: PMC5377837, DOI: 10.1128/jcm.02453-16.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentAdultAgedAged, 80 and overChildChild, PreschoolEpidemiological MonitoringEvolution, MolecularFemaleGenome, BacterialGenotypeHumansInfantInfant, NewbornMaleMiddle AgedMolecular EpidemiologyPenicillin ResistancePneumococcal InfectionsSequence Analysis, DNASerogroupStreptococcus pneumoniaeUnited StatesYoung AdultConceptsActive Bacterial Core surveillancePneumococcal Molecular Epidemiology NetworkNonvaccine typesVaccine typesPenicillin-nonsusceptible pneumococciAntibiotic-resistant strainsNVT pneumococciNonvaccine serotypesSerotype 35BPneumococcal serotypesInvasive diseaseSerogroups 23Core surveillanceEpidemiology NetworkDisease controlDisease prevalencePNSPGenomic epidemiologyFuture surveillanceVaccinationSerotypesResistant clonesSerotype switchingPneumococciDisease
2015
Comparative Genomic Analysis of Meningitis- and Bacteremia-Causing Pneumococci Identifies a Common Core Genome
Kulohoma BW, Cornick JE, Chaguza C, Yalcin F, Harris SR, Gray KJ, Kiran AM, Molyneux E, French N, Parkhill J, Faragher BE, Everett DB, Bentley SD, Heyderman RS. Comparative Genomic Analysis of Meningitis- and Bacteremia-Causing Pneumococci Identifies a Common Core Genome. Infection And Immunity 2015, 83: 4165-4173. PMID: 26259813, PMCID: PMC4567637, DOI: 10.1128/iai.00814-15.Peer-Reviewed Original ResearchMeSH KeywordsBacteremiaBacterial ProteinsGenome, BacterialGenomicsHumansMeningitisStreptococcal InfectionsStreptococcus pneumoniaeConceptsBloodstream infectionsSterile sitesPneumococcal population structureDisease manifestationsMeningitisVaccine candidatesS. pneumoniaeStreptococcus pneumoniaeNasopharyngeal commensalPneumococciVirulence factorsWhole-genome sequencingInfectionPneumoniaeVirulence behaviorPresence/absenceIsolatesMeninges