2025
Integrated Analysis of the 2022 SARS-CoV-2 Omicron Lineage Replacement Dynamics in Connecticut, US
Chen N, Pham K, Chaguza C, Lopes R, Klaassen F, Kalinich C, Initiative Y, Kerantzas N, Pandya S, Ferguson D, Schulz W, Weinberger D, Pitzer V, Warren J, Grubaugh N, Hahn A. Integrated Analysis of the 2022 SARS-CoV-2 Omicron Lineage Replacement Dynamics in Connecticut, US. Viruses 2025, 17: 1020. PMID: 40733636, PMCID: PMC12299087, DOI: 10.3390/v17071020.Peer-Reviewed Original ResearchConceptsDominant lineageHost-pathogen dynamicsGenomic surveillance programsResponse to previous infectionsSequence dataVariant fitnessLineage replacementCopy numberDynamic fitness landscapesLineagesSARS-CoV-2Integrated analysisViral copy numberFitness landscapeReplacement dynamicsReproductive rateOmicron lineagesGrowth rateImmune escapeAntigen exposureVariant emergenceViral sheddingPrevious infectionEpidemiological dataInfection
2024
A retrospective cohort study of Paxlovid efficacy depending on treatment time in hospitalized COVID-19 patients
Du Z, Wang L, Bai Y, Liu Y, Lau E, Galvani A, Krug R, Cowling B, Meyers L. A retrospective cohort study of Paxlovid efficacy depending on treatment time in hospitalized COVID-19 patients. ELife 2024, 13: e89801. PMID: 38622989, PMCID: PMC11078542, DOI: 10.7554/elife.89801.Peer-Reviewed Original ResearchConceptsViral sheddingHospitalized COVID-19 patientsSARS-CoV-2Retrospective cohort studyRisk of reboundCOVID-19 patientsViral reboundTime of treatmentTreated patientsPreventing severe illnessEarly treatmentCohort studyHospitalized patientsPatientsViral replicationReducing infectiousnessSevere illnessTimely treatmentViral dynamicsHealth record dataTreatmentTransmission riskTransmission of SARS-CoV-2EfficacySymptoms
2022
De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report
Gandhi S, Klein J, Robertson AJ, Peña-Hernández MA, Lin MJ, Roychoudhury P, Lu P, Fournier J, Ferguson D, Mohamed Bakhash SAK, Catherine Muenker M, Srivathsan A, Wunder EA, Kerantzas N, Wang W, Lindenbach B, Pyle A, Wilen CB, Ogbuagu O, Greninger AL, Iwasaki A, Schulz WL, Ko AI. De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report. Nature Communications 2022, 13: 1547. PMID: 35301314, PMCID: PMC8930970, DOI: 10.1038/s41467-022-29104-y.Peer-Reviewed Original ResearchConceptsSARS-CoV-2 infectionVirologic responsePersistent SARS-CoV-2 infectionResistance mutationsPre-treatment specimensB-cell deficiencyRemdesivir resistanceRemdesivir therapyViral sheddingCase reportAntiviral agentsPatientsCombinatorial therapyInfectionTherapyWhole-genome sequencingTreatmentImportance of monitoringDe novo emergenceFold increaseRNA-dependent RNA polymeraseNovo emergencePotential benefitsMutationsIndolent
2021
Modeling SARS-CoV-2 propagation using rat coronavirus-associated shedding and transmission
Zeiss CJ, Asher JL, Vander Wyk B, Allore HG, Compton SR. Modeling SARS-CoV-2 propagation using rat coronavirus-associated shedding and transmission. PLOS ONE 2021, 16: e0260038. PMID: 34813610, PMCID: PMC8610237, DOI: 10.1371/journal.pone.0260038.Peer-Reviewed Original ResearchConceptsViral sheddingSialodacryoadenitis virusSARS-CoV-2Prior natural infectionSARS-CoV-2 propagationSeropositive animalsLow-level sheddingNaive recipient ratsCOVID-19Cycle threshold valuesDirect contact exposureSeroconversion ratesReinfected animalsRecipient ratsImmune protectionHigh riskNaive animalsSusceptible individualsInitial infectionGlobal immunityExposure paradigmRat coronavirusNatural infectionInfectionRatsAnimal Models of COVID-19. I. Comparative Virology and Disease Pathogenesis
Zeiss CJ, Compton S, Veenhuis RT. Animal Models of COVID-19. I. Comparative Virology and Disease Pathogenesis. ILAR Journal 2021, 62: ilab007-. PMID: 33836527, PMCID: PMC8083356, DOI: 10.1093/ilar/ilab007.Peer-Reviewed Original ResearchConceptsSARS-CoV-2SARS-CoVViral sheddingImmune responseSpontaneous modelAnimal modelsDisease pathogenesisSARS-CoV-2 infectionCOVID-19Severe acute respiratory syndrome coronavirusAcute respiratory syndrome coronavirusChimeric SARS-CoVRole of comorbiditiesCoronavirus disease 2019 (COVID-19) pandemicShort-term immune responseWild-type miceSeverity of diseaseOrgan-specific pathologySARS-CoV-2 virusDisease 2019 pandemicAfrican green monkeysTest therapeuticsVaccine approachesNonfatal diseaseTissue involvementA new positive SARS-CoV-2 test months after severe COVID-19 illness: reinfection or intermittent viral shedding?
Tuan J, Spichler-Moffarah A, Ogbuagu O. A new positive SARS-CoV-2 test months after severe COVID-19 illness: reinfection or intermittent viral shedding? BMJ Case Reports 2021, 14: e240531. PMID: 33542020, PMCID: PMC8098910, DOI: 10.1136/bcr-2020-240531.Peer-Reviewed Case Reports and Technical NotesConceptsSARS-CoV-2 RNA testSevere acute respiratory syndrome coronavirus 2Acute respiratory syndrome coronavirus 2SARS-CoV-2 reinfectionSevere COVID-19 illnessRespiratory syndrome coronavirus 2COVID-19 reinfectionLong asymptomatic periodCOVID-19 illnessSyndrome coronavirus 2Intermittent viral sheddingAsymptomatic periodViral sheddingRNA testCoronavirus 2Clinical managementPersistent infectionDisease 4Molecular testingReinfectionRNA PCRCurrent presentationPotential casesMonthsPatients
2020
540. Prolonged Viral Shedding of SARS-CoV-2 In Solid Organ Transplant Recipients
Nam H, Roberts S, Tanna S, Ison M. 540. Prolonged Viral Shedding of SARS-CoV-2 In Solid Organ Transplant Recipients. Open Forum Infectious Diseases 2020, 7: s337-s337. PMCID: PMC7777463, DOI: 10.1093/ofid/ofaa439.734.Peer-Reviewed Original ResearchSolid organ transplant recipientsOrgan transplant recipientsViral sheddingSevere diseaseTransplant recipientsSARS-CoV-2SOT recipientsMedian durationPositive SARS-CoV-2 PCR testPositive SARS-CoV-2 RTSARS-CoV-2 PCR resultSARS-CoV-2 PCR testSARS-CoV-2 PCR positivitySARS-CoV-2 infectionSARS-CoV-2 RTKidney transplant recipientsMajority of patientsConclusion COVID-19COVID-19African American/BlackKidney recipientsSOT patientsMedian ageModerate diseaseOverall mortality
2018
An Infant Mouse Model of Influenza Virus Transmission Demonstrates the Role of Virus-Specific Shedding, Humoral Immunity, and Sialidase Expression by Colonizing Streptococcus pneumoniae
Ortigoza M, Blaser S, Zafar M, Hammond A, Weiser J. An Infant Mouse Model of Influenza Virus Transmission Demonstrates the Role of Virus-Specific Shedding, Humoral Immunity, and Sialidase Expression by Colonizing Streptococcus pneumoniae. MBio 2018, 9: 10.1128/mbio.02359-18. PMID: 30563897, PMCID: PMC6299224, DOI: 10.1128/mbio.02359-18.Peer-Reviewed Original ResearchConceptsInfluenza A virusSusceptible to influenza A virusesInfluenza A virus transmissionInfant mouse modelUpper respiratory tractInfluenza A virus sheddingHumoral immunityMouse modelInfluenza A virus strainsTransmission of influenza A virusesAnimal modelsVirus strainsInfluenza virus strainsUpper respiratory tract floraGuinea pig modelAntagonizing transmissionAdult miceSusceptible recipientsA virusMarker of infectiousnessSialidase expressionPandemic potentialViral sheddingRespiratory tractPig model
2017
Duration of viral shedding and factors associated with prolonged shedding among inpatients with influenza treated with oseltamivir: a prospective cohort study
Khoury J, Szwarcwort M, Kra-oz Z, Saffuri M, Seh K, Yahalomi T, Braun E, Azzam Z, Paul M, Neuberger A. Duration of viral shedding and factors associated with prolonged shedding among inpatients with influenza treated with oseltamivir: a prospective cohort study. European Journal Of Clinical Microbiology & Infectious Diseases 2017, 37: 319-323. PMID: 29143145, DOI: 10.1007/s10096-017-3135-0.Peer-Reviewed Original ResearchConceptsRisk factorsBlood pressureDiagnostic yieldDay 2Lower diastolic blood pressureNegative PCR testIndependent risk factorProspective cohort studyProspective observational studyDiastolic blood pressureLower blood pressurePCR testInitiation of treatmentLow diagnostic yieldFirst positive testEvaluable patientsInfluenza PCROseltamivir administrationOseltamivir treatmentCohort studyMedian ageAdult inpatientsViral sheddingPositive PCRPCR positivityTransmission Dynamics of Respiratory Viruses in a Congregated Military Population: Prospective Cohort Study
Lewnard J, Chen W, Milzman J, Grigorenko E, Robinson S, Jones C, Moreno N, Malone L, Weinberger D, Burgess T, Coles C. Transmission Dynamics of Respiratory Viruses in a Congregated Military Population: Prospective Cohort Study. Open Forum Infectious Diseases 2017, 4: s238-s238. PMCID: PMC7107105, DOI: 10.1093/ofid/ofx163.503.Peer-Reviewed Original ResearchNon-polio enterovirusesRespiratory virusesHCoV-229EHCoV-OC43Military recruitsAcute respiratory infectionsProspective cohort studyCommon respiratory virusesSource of transmissionCohort studyRespiratory infectionsViral sheddingAsymptomatic sheddingImmune protectionImmune responseHuman coronavirusesNasal samplesEconomic burdenRhinovirusMilitary populationSecond monthBasic trainingFirst weekPrevious exposureWidespread transmission
2013
Generating protective immunity against genital herpes
Shin H, Iwasaki A. Generating protective immunity against genital herpes. Trends In Immunology 2013, 34: 487-494. PMID: 24012144, PMCID: PMC3819030, DOI: 10.1016/j.it.2013.08.001.Peer-Reviewed Original ResearchConceptsGenital herpesHerpes simplex virus infectionSimplex virus infectionSignificant risk factorsClinical vaccine trialsRecurrent symptomsHSV infectionProtective immunityViral sheddingVaccine trialsRisk factorsChronic diseasesVirus infectionHIV-1Clear infectionAntiviral drugsHost responseHerpesVaccine designInfectionMillions of peopleSpread of diseaseDiseaseRecent studiesVaccine
2007
Reliability of soiled bedding transfer for detection of mouse parvovirus and mouse hepatitis virus.
Smith P, Nucifora M, Reuter J, Compton S. Reliability of soiled bedding transfer for detection of mouse parvovirus and mouse hepatitis virus. Journal Of The American Association For Laboratory Animal Science 2007, 57: 90-6. PMID: 17348296.Peer-Reviewed Original ResearchConceptsMouse hepatitis virusMouse parvovirusViral infectionHepatitis virusSentinel micePeak viral sheddingPolymerase chain reaction assayIndex miceBed transfersSerological monitoringViral sheddingStages of infectionMiceReaction assayStatic cagesInfectious doseMouse facilitiesInfectionVirusParvovirusSeroconversionDose
2004
Effect of Prenatal Vitamin Supplementation on Lower-Genital Levels of HIV Type 1 and Interleukin Type 1β at 36 Weeks of Gestation
Fawzi W, Msamanga G, Antelman G, Xu C, Hertzmark E, Spiegelman D, Hunter D, Anderson D. Effect of Prenatal Vitamin Supplementation on Lower-Genital Levels of HIV Type 1 and Interleukin Type 1β at 36 Weeks of Gestation. Clinical Infectious Diseases 2004, 38: 716-722. PMID: 14986257, DOI: 10.1086/381673.Peer-Reviewed Original ResearchConceptsHIV-1HIV-1-infected pregnant womenVitamin AHIV-1-infected womenType 1Human immunodeficiency virus type 1Immunodeficiency virus type 1Genital HIV-1Prenatal multivitamin supplementsHIV-1 transmissionCervicovaginal lavage specimensHIV Type 1HIV-1 infectionLower genital tractWeeks of gestationPrenatal vitamin supplementationUse of vitaminsVirus type 1Lack of effectPregnancy outcomesVaginal inflammationViral sheddingVitamin supplementationMultivitamin supplementsPregnant women
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