2023
Enhanced inhibition of MHC-I expression by SARS-CoV-2 Omicron subvariants
Moriyama M, Lucas C, Monteiro V, Initiative Y, Iwasaki A, Chen N, Breban M, Hahn A, Pham K, Koch T, Chaguza C, Tikhonova I, Castaldi C, Mane S, De Kumar B, Ferguson D, Kerantzas N, Peaper D, Landry M, Schulz W, Vogels C, Grubaugh N. Enhanced inhibition of MHC-I expression by SARS-CoV-2 Omicron subvariants. Proceedings Of The National Academy Of Sciences Of The United States Of America 2023, 120: e2221652120. PMID: 37036977, PMCID: PMC10120007, DOI: 10.1073/pnas.2221652120.Peer-Reviewed Original ResearchConceptsMHC-I expressionBreakthrough infectionsSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variantsMajor histocompatibility complex class I expressionCell-mediated immunityInfluenza virus infectionSARS-CoV-2 VOCsMHC-I upregulationClass I expressionSARS-CoV-2T cell recognitionVirus infectionMHC II expressionSpike proteinEnhanced inhibitionInfectionCell recognitionCommon mutationsReinfectionE proteinAntibodiesViral genesSubvariantsExpressionAccelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection
Chaguza C, Hahn A, Petrone M, Zhou S, Ferguson D, Breban M, Pham K, Peña-Hernández M, Castaldi C, Hill V, Initiative Y, Billig K, Earnest R, Fauver J, Kalinch C, Kerantzas N, Koch T, De Kumar B, Landry M, Ott I, Peaper D, Tikhonova I, Vogels C, Schulz W, Swanstrom R, Roberts S, Grubaugh N. Accelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection. Cell Reports Medicine 2023, 4: 100943. PMID: 36791724, PMCID: PMC9906997, DOI: 10.1016/j.xcrm.2023.100943.Peer-Reviewed Original ResearchConceptsChronic infectionEvolutionary ratesGenetic diversityIntrahost evolutionDistinct genotypesHigher viral genome copiesVirus evolutionary ratesSARS-CoV-2 evolutionUntreated chronic infectionAdvantageous mutationsNucleotide substitutionsViral genome copiesDivergent variantsInfection hypothesisVariant emergenceViral populationsInfectious virusInfectionHallmark changesGenome copiesDifferent genotypesDiversityGenotypesTemporal dynamicsEvolution
2022
Use of Whole-Genome Sequencing to Estimate the Contribution of Immune Evasion and Waning Immunity on Decreasing COVID-19 Vaccine Effectiveness
Lind M, Copin R, McCarthy S, Coppi A, Warner F, Ferguson D, Duckwall C, Borg R, Muenker M, Overton J, Hamon S, Zhou A, Cummings D, Ko A, Hamilton J, Schulz W, Hitchings M. Use of Whole-Genome Sequencing to Estimate the Contribution of Immune Evasion and Waning Immunity on Decreasing COVID-19 Vaccine Effectiveness. The Journal Of Infectious Diseases 2022, 227: 663-674. PMID: 36408616, DOI: 10.1093/infdis/jiac453.Peer-Reviewed Original ResearchConceptsVaccine effectivenessImmune evasionDelta infectionVE estimatesSecond doseTest-negative case-control studySevere acute respiratory syndrome coronavirus 2Acute respiratory syndrome coronavirus 2Whole-genome sequencingCOVID-19 vaccine effectivenessRespiratory syndrome coronavirus 2Syndrome coronavirus 2Case-control studyCoronavirus 2Calendar periodDelta variantInfectionDoseEvasionDaysLow effectivenessImmunityVariants
2008
An Outbreak of Concurrent Echovirus 30 and Coxsackievirus A1 Infections Associated with Sea Swimming among a Group of Travelers to Mexico
Begier EM, Oberste MS, Landry ML, Brennan T, Mlynarski D, Mshar PA, Frenette K, Rabatsky-Ehr T, Purviance K, Nepaul A, Nix WA, Pallansch MA, Ferguson D, Cartter ML, Hadler JL. An Outbreak of Concurrent Echovirus 30 and Coxsackievirus A1 Infections Associated with Sea Swimming among a Group of Travelers to Mexico. Clinical Infectious Diseases 2008, 47: 616-623. PMID: 18637756, DOI: 10.1086/590562.Peer-Reviewed Original ResearchConceptsEchovirus 30Enteroviral infectionNucleic acid amplification testingIllness onset datesUninfected control subjectsPoint-source exposureMultiple enterovirusesAseptic meningitisFrequent symptomsIllness onsetViral cultureAmplification testingControl subjectsCerebrospinal fluidHuman stoolInfectionNauseaConnecticut DepartmentStoolCoxsackievirus (CV) A1Public healthIllnessEnterovirusesMolecular amplificationGroups of travelers
2006
Coronavirus HKU1 Infection in the United States - Volume 12, Number 5—May 2006 - Emerging Infectious Diseases journal - CDC
Esper F, Weibel C, Ferguson D, Landry ML, Kahn JS. Coronavirus HKU1 Infection in the United States - Volume 12, Number 5—May 2006 - Emerging Infectious Diseases journal - CDC. Emerging Infectious Diseases 2006, 12: 775-779. PMID: 16704837, PMCID: PMC3374449, DOI: 10.3201/eid1205.051316.Peer-Reviewed Original ResearchConceptsHCoV-HKU1Respiratory specimensLower respiratory tract infectionsLower respiratory tract diseaseHCoV-HKU1 infectionRespiratory tract infectionsRespiratory syncytial virusRespiratory tract diseaseReverse transcription-polymerase chain reactionNew human coronavirusYears of ageTranscription-polymerase chain reactionTract infectionsSyncytial virusPositive childrenParainfluenza virusTract diseaseRespiratory tractHuman coronavirusesPositive specimensInfluenza virusInfectionChain reactionChildrenVirus
2004
Automated detection of immunofluorescently labeled cytomegalovirus‐infected cells in isolated peripheral blood leukocytes using decision tree analysis
Ladanyi A, Sher AC, Herlitz A, Bergsrud DE, Kraeft S, Kepros J, McDaid G, Ferguson D, Landry ML, Chen LB. Automated detection of immunofluorescently labeled cytomegalovirus‐infected cells in isolated peripheral blood leukocytes using decision tree analysis. Cytometry Part A 2004, 58A: 147-156. PMID: 15057968, DOI: 10.1002/cyto.a.20016.Peer-Reviewed Original ResearchConceptsPeripheral blood leukocytesBlood leukocytesPatient samplesDecision tree analysisImage cytometryCytomegalovirus-infected cellsCMV infectionCytomegalovirus infectionAntiviral therapyViral antigensCellular featuresCytospin preparationsLeukocytesInfectionCytometryManual microscopic analysisImage cytometerRare cellsCellsSimilar resultsPatientsCMVTherapyAntigenDiagnosis