2022
Association of Upper Respiratory Streptococcus pneumoniae Colonization With Severe Acute Respiratory Syndrome Coronavirus 2 Infection Among Adults
Parker A, Jackson N, Awasthi S, Kim H, Alwan T, Wyllie A, Baldwin A, Brennick N, Moehle E, Giannikopoulos P, Kogut K, Holland N, Mora-Wyrobek A, Eskenazi B, Riley L, Lewnard J. Association of Upper Respiratory Streptococcus pneumoniae Colonization With Severe Acute Respiratory Syndrome Coronavirus 2 Infection Among Adults. Clinical Infectious Diseases 2022, 76: 1209-1217. PMID: 36401872, DOI: 10.1093/cid/ciac907.Peer-Reviewed Original ResearchConceptsSARS-CoV-2 infectionSARS-CoV-2Upper airwayAcute respiratory syndrome coronavirus 2 infectionSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infectionSevere acute respiratory syndrome coronavirus 2Syndrome coronavirus 2 infectionAcute respiratory syndrome coronavirus 2Respiratory syndrome coronavirus 2SARS-CoV-2 molecular testingCoronavirus 2 infectionStreptococcus pneumoniae colonizationViral respiratory pathogensSyndrome coronavirus 2Conditional logistic regressionWorking-age adultsQuantitative polymerase chain reactionPneumococcal carriersPneumococcal carriagePneumoniae colonizationOutpatient clinicCoronavirus 2Polymerase chain reactionRespiratory pathogensSaliva specimensPneumococcal genetic variability in age-dependent bacterial carriage
Kremer P, Ferwerda B, Bootsma HJ, Rots NY, Wijmenga-Monsuur AJ, Sanders E, Trzciński K, Wyllie AL, Turner P, van der Ende A, Brouwer MC, Bentley SD, van de Beek D, Lees JA. Pneumococcal genetic variability in age-dependent bacterial carriage. ELife 2022, 11: e69244. PMID: 35881438, PMCID: PMC9395192, DOI: 10.7554/elife.69244.Peer-Reviewed Original ResearchConceptsSecond cohortImproved vaccine formulationsFirst cohortFuture vaccination strategiesSingle nucleotide polymorphismsHost immune factorsAge-specific differencesPneumococcal carriageImmune factorsVaccination strategiesBacterial carriageCarriage studiesVaccine formulationsCohortGenetic factorsAdult hostsSerotypesHost ageAdultsCarriageChildrenGenetic backgroundWeak evidenceInfantsPopulation
2021
Evidence for SARS-CoV-2 Spike Protein in the Urine of COVID-19 Patients
George S, Pal AC, Gagnon J, Timalsina S, Singh P, Vydyam P, Munshi M, Chiu JE, Renard I, Harden CA, Ott IM, Watkins AE, Vogels CBF, Lu P, Tokuyama M, Venkataraman A, Casanovas-Massana A, Wyllie AL, Rao V, Campbell M, Farhadian SF, Grubaugh ND, Dela Cruz CS, Ko AI, Perez A, Akaho EH, Moledina DG, Testani J, John AR, Ledizet M, Mamoun CB, Team A. Evidence for SARS-CoV-2 Spike Protein in the Urine of COVID-19 Patients. Kidney360 2021, 2: 924-936. PMID: 35373072, PMCID: PMC8791366, DOI: 10.34067/kid.0002172021.Peer-Reviewed Original ResearchConceptsSARS-CoV-2 spike proteinSARS-CoV-2Spike proteinUrine samplesSARS-CoV-2 infectionYale-New Haven HospitalCOVID-19 patientsAntigen capture assayDetectable viral RNANew Haven HospitalPositive PCR resultsPossible long-term consequencesSpike S1 proteinNP PCRChildren's HospitalNasopharyngeal swabsSARS-CoV-2 spike S1 proteinRenal abnormalitiesLong-term effectsCystatin CLong-term consequencesHospitalUrineViral RNAAlbuminuriaTracking smell loss to identify healthcare workers with SARS-CoV-2 infection
Weiss JJ, Attuquayefio TN, White EB, Li F, Herz RS, White TL, Campbell M, Geng B, Datta R, Wyllie AL, Grubaugh ND, Casanovas-Massana A, Muenker MC, Moore AJ, Handoko R, Iwasaki A, Martinello RA, Ko AI, Small DM, Farhadian SF, Team T. Tracking smell loss to identify healthcare workers with SARS-CoV-2 infection. PLOS ONE 2021, 16: e0248025. PMID: 33657167, PMCID: PMC7928484, DOI: 10.1371/journal.pone.0248025.Peer-Reviewed Original ResearchConceptsSARS-CoV-2 infectionSARS-CoV-2 positive healthcare workersSmell lossHealthcare workersHome assessmentNeurological symptomsPositive SARS-CoV-2 testSARS-CoV-2 test positivitySARS-CoV-2 testPolymerase chain reaction testingReal-time quantitative polymerase chain reaction testingQuantitative polymerase chain reaction testingCOVID-19 patientsHigh-risk groupHigh-risk individualsSARS-CoV-2Self-reported changesProspective studyTest positivityAsymptomatic infectionSymptom SurveyVulnerable patientsHigh riskPositive testRisk individuals
2020
Serotype Patterns of Pneumococcal Disease in Adults Are Correlated With Carriage Patterns in Older Children
Wyllie AL, Warren JL, Regev-Yochay G, Givon-Lavi N, Dagan R, Weinberger DM. Serotype Patterns of Pneumococcal Disease in Adults Are Correlated With Carriage Patterns in Older Children. Clinical Infectious Diseases 2020, 72: e768-e775. PMID: 32989457, PMCID: PMC8315131, DOI: 10.1093/cid/ciaa1480.Peer-Reviewed Original ResearchConceptsInvasive pneumococcal diseaseSerotype-specific invasive pneumococcal diseaseDisease patternsOlder childrenPneumococcal diseasePneumococcal carriageCarriage prevalenceSerotype patternsCause of IPDIPD dataSerotype-specific carriage prevalenceAge groupingsDifferent age groupsComorbidity statusDisease burdenVaccination strategiesAge-related patternsCarriage dataCarriage patternsDifferent age categoriesAge groupsSpecific serotypesYoung adultsAdultsAge categoriesSARS-CoV-2 infection of the placenta
Hosier H, Farhadian SF, Morotti RA, Deshmukh U, Lu-Culligan A, Campbell KH, Yasumoto Y, Vogels C, Casanovas-Massana A, Vijayakumar P, Geng B, Odio CD, Fournier J, Brito AF, Fauver JR, Liu F, Alpert T, Tal R, Szigeti-Buck K, Perincheri S, Larsen C, Gariepy AM, Aguilar G, Fardelmann KL, Harigopal M, Taylor HS, Pettker CM, Wyllie AL, Dela Cruz CS, Ring AM, Grubaugh ND, Ko AI, Horvath TL, Iwasaki A, Reddy UM, Lipkind HS. SARS-CoV-2 infection of the placenta. Journal Of Clinical Investigation 2020, 130: 4947-4953. PMID: 32573498, PMCID: PMC7456249, DOI: 10.1172/jci139569.Peer-Reviewed Case Reports and Technical NotesMeSH KeywordsAbortion, TherapeuticAbruptio PlacentaeAdultBetacoronavirusCoronavirus InfectionsCOVID-19FemaleHumansMicroscopy, Electron, TransmissionPandemicsPhylogenyPlacentaPneumonia, ViralPre-EclampsiaPregnancyPregnancy Complications, InfectiousPregnancy Trimester, SecondRNA, ViralSARS-CoV-2Viral LoadConceptsSevere acute respiratory syndrome coronavirus 2Acute respiratory syndrome coronavirus 2SARS-CoV-2 infectionRespiratory syndrome coronavirus 2SARS-CoV-2 invasionMaternal antibody responseSymptomatic COVID-19Second trimester pregnancySyndrome coronavirus 2Coronavirus disease 2019Materno-fetal interfaceDense macrophage infiltratesPlacental abruptionSevere preeclampsiaMacrophage infiltratesSevere morbidityTrimester pregnancyPregnant womenCoronavirus 2Antibody responseBackgroundThe effectsDisease 2019Histological examinationImmunohistochemical assaysPlacentaLongitudinal analyses reveal immunological misfiring in severe COVID-19
Lucas C, Wong P, Klein J, Castro TBR, Silva J, Sundaram M, Ellingson MK, Mao T, Oh JE, Israelow B, Takahashi T, Tokuyama M, Lu P, Venkataraman A, Park A, Mohanty S, Wang H, Wyllie AL, Vogels CBF, Earnest R, Lapidus S, Ott IM, Moore AJ, Muenker MC, Fournier JB, Campbell M, Odio CD, Casanovas-Massana A, Herbst R, Shaw A, Medzhitov R, Schulz W, Grubaugh N, Dela Cruz C, Farhadian S, Ko A, Omer S, Iwasaki A. Longitudinal analyses reveal immunological misfiring in severe COVID-19. Nature 2020, 584: 463-469. PMID: 32717743, PMCID: PMC7477538, DOI: 10.1038/s41586-020-2588-y.Peer-Reviewed Original ResearchConceptsSevere COVID-19Moderate COVID-19Immune signaturesDisease outcomeCOVID-19Disease trajectoriesInterleukin-5Early immune signaturesInnate cell lineagesType 2 effectorsT cell numbersPoor clinical outcomeWorse disease outcomesImmune response profileCoronavirus disease 2019Distinct disease trajectoriesCytokine levelsImmunological correlatesImmune profileClinical outcomesEarly elevationImmune profilingIL-13Immunoglobulin EDisease 2019Upper respiratory tract colonization with Streptococcus pneumoniae in adults
Arguedas A, Trzciński K, O’Brien K, Ferreira DM, Wyllie AL, Weinberger D, Danon L, Pelton SI, Azzari C, Hammitt LL, Sá-Leão R, Brandileone MC, Saha S, Suaya J, Isturiz R, Jodar L, Gessner BD. Upper respiratory tract colonization with Streptococcus pneumoniae in adults. Expert Review Of Vaccines 2020, 19: 353-366. PMID: 32237926, DOI: 10.1080/14760584.2020.1750378.Peer-Reviewed Original ResearchConceptsPediatric approachPneumococcal colonizationPneumococcal detectionRespiratory sitesUpper respiratory tract colonizationAdult respiratory tractRespiratory tract colonizationHigh disease burdenPneumococcal carriage studiesRespiratory carriageNasal washesPeer-reviewed journalsRespiratory colonizationCarriage prevalencePneumococcal transmissionTract colonizationDisease burdenRespiratory tractCarriage studiesCurrent evidenceStreptococcus pneumoniaeMolecular diagnostic methodsRoutine cultureAdultsRecent evidence
2019
Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis
Lees JA, Ferwerda B, Kremer PHC, Wheeler NE, Serón MV, Croucher NJ, Gladstone RA, Bootsma HJ, Rots NY, Wijmega-Monsuur AJ, Sanders EAM, Trzciński K, Wyllie AL, Zwinderman AH, van den Berg LH, van Rheenen W, Veldink JH, Harboe ZB, Lundbo LF, de Groot LCPGM, van Schoor NM, van der Velde N, Ängquist LH, Sørensen TIA, Nohr EA, Mentzer AJ, Mills TC, Knight JC, du Plessis M, Nzenze S, Weiser JN, Parkhill J, Madhi S, Benfield T, von Gottberg A, van der Ende A, Brouwer MC, Barrett JC, Bentley SD, van de Beek D. Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis. Nature Communications 2019, 10: 2176. PMID: 31092817, PMCID: PMC6520353, DOI: 10.1038/s41467-019-09976-3.Peer-Reviewed Original ResearchConceptsGenetic variationGenome-wide association studiesCommon nasopharyngeal colonizerPathogen genomesHalf of variationPneumococcal factorsPneumococcal genesAssociation studiesJoint sequencingHuman variationInvasive potentialLife-threatening invasive diseasesGenesPathogensInteraction analysisInvasivenessGenomeZmpDGeneticsSequencingColonizersHumansVariationHostSusceptibility
2018
Exploring Immune Development in Infants With Moderate to Severe Atopic Dermatitis
Hulshof L, Overbeek SA, Wyllie AL, Chu MLJN, Bogaert D, de Jager W, Knippels LMJ, Sanders EAM, van Aalderen WMC, Garssen J, Land B, Sprikkelman AB, Group T, Blauw A, Dontje B, Duijvestein Y, de Boom W, Groot I, Boks M, van Kooyk Y, Fandri D, Hijnen D, Middelkamp-Hup M, Papi B, Roelofs M, Rijnierse A, Veening D, Support C, Prakken B, Tusscher G, Tupker R, Willemsen L. Exploring Immune Development in Infants With Moderate to Severe Atopic Dermatitis. Frontiers In Immunology 2018, 9: 630. PMID: 29966024, PMCID: PMC5884950, DOI: 10.3389/fimmu.2018.00630.Peer-Reviewed Original ResearchConceptsSevere atopic dermatitisAtopic dermatitisDietary interventionAD severityCommon chronic inflammatory skin diseaseT helper cell type 2Understanding of ADChronic inflammatory skin diseaseCC chemokine ligand 17CXC chemokine ligand 9Serum chemokine levelsSpecific IgE levelsInflammatory skin diseaseChemokine ligand 17Cell type 2Dietary intervention studyWhey-based formulaChemokine ligand 9Post-intervention samplesMonths of ageCCL22 chemokinesTh1 chemokinesTh2 chemokinesChemokine levelsM-16V
2016
Molecular surveillance on Streptococcus pneumoniae carriage in non-elderly adults; little evidence for pneumococcal circulation independent from the reservoir in children
Wyllie AL, Rümke LW, Arp K, Bosch AA, Bruin JP, Rots NY, Wijmenga-Monsuur AJ, Sanders EA, Trzciński K. Molecular surveillance on Streptococcus pneumoniae carriage in non-elderly adults; little evidence for pneumococcal circulation independent from the reservoir in children. Scientific Reports 2016, 6: 34888. PMID: 27713565, PMCID: PMC5054371, DOI: 10.1038/srep34888.Peer-Reviewed Original ResearchConceptsCarriage rateNasopharyngeal swabsOral samplesUpper respiratory tract samplesVaccine herd effectsStreptococcus pneumoniae carriageRespiratory tract samplesHigh carriage rateNon-elderly adultsS. pneumoniae detectionAge-associated differencesEntire adult populationChildless adultsSerotype replacementPneumoniae carriagePneumococcal carriageTract samplesCarriage frequencyStreptococcus pneumoniaeAdult populationSerotype 3Gold standard culture methodMolecular surveillanceMolecular testsGold standard
2013
Superiority of Trans-Oral over Trans-Nasal Sampling in Detecting Streptococcus pneumoniae Colonization in Adults
Trzciński K, Bogaert D, Wyllie A, Chu ML, van der Ende A, Bruin JP, van den Dobbelsteen G, Veenhoven RH, Sanders EA. Superiority of Trans-Oral over Trans-Nasal Sampling in Detecting Streptococcus pneumoniae Colonization in Adults. PLOS ONE 2013, 8: e60520. PMID: 23555985, PMCID: PMC3610877, DOI: 10.1371/journal.pone.0060520.Peer-Reviewed Original ResearchConceptsS. pneumoniaeLive pneumococciDiagnostic stepsTrans-nasal approachStreptococcus pneumoniae colonizationInitial diagnostic stepPneumoniae colonizationNasopharyngeal samplesPneumococcal colonizationNasopharyngeal colonizationStreptococcus pneumoniaeHuman nasopharynxPneumococciPneumoniaeCell harvestAdultsQPCRQPCR resultsMain reservoirMolecular methods