2020
Bacterial genome-wide association study of hyper-virulent pneumococcal serotype 1 identifies genetic variation associated with neurotropism
Chaguza C, Yang M, Cornick JE, du Plessis M, Gladstone RA, Kwambana-Adams BA, Lo SW, Ebruke C, Tonkin-Hill G, Peno C, Senghore M, Obaro SK, Ousmane S, Pluschke G, Collard JM, Sigaùque B, French N, Klugman KP, Heyderman RS, McGee L, Antonio M, Breiman RF, von Gottberg A, Everett DB, Kadioglu A, Bentley SD. Bacterial genome-wide association study of hyper-virulent pneumococcal serotype 1 identifies genetic variation associated with neurotropism. Communications Biology 2020, 3: 559. PMID: 33033372, PMCID: PMC7545184, DOI: 10.1038/s42003-020-01290-9.Peer-Reviewed Original ResearchConceptsGenome-wide association studiesPneumococcal serotype 1Genetic variationBacterial genome-wide association studiesAssociation studiesSerotype 1Central nervous system infectionSignificant genotype-phenotype associationsNervous system infectionGenotype-phenotype associationsHelicase proteinPopulation structureCNS infectionsSystem infectionNegligible heritabilityMeningitis outbreakCNS tissueCerebrospinal fluidImmune evasionSerotype 1 strainPneumococcal survivalPolygenic etiologySmall effect sizesMeningitisTropism
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
2018
Emergence of Double- and Triple-Gene Reassortant G1P[8] Rotaviruses Possessing a DS-1-Like Backbone after Rotavirus Vaccine Introduction in Malawi
Jere KC, Chaguza C, Bar-Zeev N, Lowe J, Peno C, Kumwenda B, Nakagomi O, Tate JE, Parashar UD, Heyderman RS, French N, Cunliffe NA, Iturriza-Gomara M. Emergence of Double- and Triple-Gene Reassortant G1P[8] Rotaviruses Possessing a DS-1-Like Backbone after Rotavirus Vaccine Introduction in Malawi. Journal Of Virology 2018, 92: e01246-17. PMID: 29142125, PMCID: PMC5774894, DOI: 10.1128/jvi.01246-17.Peer-Reviewed Original ResearchConceptsRotavirus vaccineVaccine introductionVaccine effectivenessVaccine-induced neutralizing antibodiesMultiple African countriesRotavirus gastroenteritis casesRotavirus vaccine introductionChildhood immunization programsCareful evaluationVaccine escape mutantsDS-1-like backboneSuch atypical strainsRotavirus gastroenteritisImmunization scheduleNeutralizing antibodiesAmino acid substitutionsImmunization programsPostvaccine eraHigh burdenGastroenteritis casesImmune evasionEscape mutantsHuman WaDS-1-like rotavirusesRotavirus
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 pneumoniaeVirulenceAdaptation... 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 landscape of extended-spectrum β-lactamase resistance in Escherichia coli from an urban African setting
Musicha P, Feasey NA, Cain AK, Kallonen T, Chaguza C, Peno C, Khonga M, Thompson S, Gray KJ, Mather AE, Heyderman RS, Everett DB, Thomson NR, Msefula CL. Genomic landscape of extended-spectrum β-lactamase resistance in Escherichia coli from an urban African setting. Journal Of Antimicrobial Chemotherapy 2017, 72: 1602-1609. PMID: 28333330, PMCID: PMC5437524, DOI: 10.1093/jac/dkx058.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentAdultBeta-Lactam ResistanceBeta-LactamasesChildChild, PreschoolChloramphenicolDrug Resistance, Multiple, BacterialEscherichia coliEscherichia coli InfectionsFemaleGenes, BacterialGenetic VariationGenomicsHumansMalawiMaleMicrobial Sensitivity TestsMultilocus Sequence TypingPhylogenyUrban PopulationYoung AdultConceptsAntimicrobial resistanceExtended spectrum β-lactamase resistanceEscherichia coli infectionResource-rich settingsUrban African settingCommon ESBL geneLow-income settingsPhenotypic resistance profilesΒ-lactamase resistanceColi infectionESBL resistanceGlobal epidemiologyFluoroquinolone resistanceQueen's HospitalBla CTXESBL genesMolecular epidemiologyResistance profilesMolecular patternsAfrican settingClinical sourcesHospitalE. coliEpidemiologyST131
2016
Understanding pneumococcal serotype 1 biology through population genomic analysis
Chaguza C, Cornick JE, Harris SR, Andam CP, Bricio-Moreno L, Yang M, Yalcin F, Ousmane S, Govindpersad S, Senghore M, Ebruke C, Du Plessis M, Kiran AM, Pluschke G, Sigauque B, McGee L, Klugman KP, Turner P, Corander J, Parkhill J, Collard JM, Antonio M, von Gottberg A, Heyderman RS, French N, Kadioglu A, Hanage WP, Everett DB, Bentley SD, for the PAGe Consortium. Understanding pneumococcal serotype 1 biology through population genomic analysis. BMC Infectious Diseases 2016, 16: 649. PMID: 27821148, PMCID: PMC5100261, DOI: 10.1186/s12879-016-1987-z.Peer-Reviewed Original ResearchConceptsDisease burdenPneumococcal disease burdenSerotype 1 pneumococciSub-Saharan AfricaHigh prevalenceHuman nasopharynxAfrican isolatesLow-income countriesSerotype 1Longer durationFurther studiesTetracycline resistanceBiological mechanismsST217West African isolatesDifferent geographical regionsSuccessful clones
2015
High multiple carriage and emergence of Streptococcus pneumoniae vaccine serotype variants in Malawian children
Kamng’ona A, Hinds J, Bar-Zeev N, Gould KA, Chaguza C, Msefula C, Cornick JE, Kulohoma BW, Gray K, Bentley SD, French N, Heyderman RS, Everett DB. High multiple carriage and emergence of Streptococcus pneumoniae vaccine serotype variants in Malawian children. BMC Infectious Diseases 2015, 15: 234. PMID: 26088623, PMCID: PMC4474563, DOI: 10.1186/s12879-015-0980-2.Peer-Reviewed Original ResearchMeSH KeywordsAdolescentBacterial CapsulesBacteriological TechniquesChildChild, PreschoolCross ProtectionDNA, BacterialFemaleGenetic VariationHIV InfectionsHumansInfantInfant, NewbornMalawiMaleNasopharynxOligonucleotide Array Sequence AnalysisPhylogenyPneumococcal InfectionsPneumococcal VaccinesSequence Analysis, DNASerogroupStreptococcus pneumoniaeConceptsPneumococcal carriageVaccine typesPneumococcal serotypesMalawian childrenMultiple carriageMultiple serotypesVaccine serotypes 6BInvasive pneumococcal diseaseMultiple pneumococcal serotypesCent of childrenYoung childrenVT serotypesPCV13 introductionPneumococcal diseaseNasopharyngeal samplesPossible genetic alterationsSerotypes 6BMethodsThe studyPneumococcal strainsVaccine escapeKaronga DistrictOlder childrenSterile swabsDistinct serotypesGenetic alterations