Orchid M Allicock
she/her/hers
Associate Research ScientistDownloadHi-Res Photo
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Additional Titles
Affiliated Faculty, Yale Institute for Global Health
Contact Info
Pediatric Infectious Diseases
SEAMCO 0239, 464 Congress Ave, 2nd Floor,
New Haven, Connecticut 06519
United States
About
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Titles
Associate Research Scientist
Affiliated Faculty, Yale Institute for Global Health
Appointments
Pediatric Infectious Diseases
Associate Research ScientistPrimary
Other Departments & Organizations
- Pediatric Infectious Diseases
- Yildirim Laboratory
Education & Training
- PhD
- University of the West Indies, Preclinical Sciences/ Molecular Genetics (2015)
- BS (Hon)
- University of the West Indies, Biochemistry (2006)
Research
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Overview
Public Health Interests
Bioinformatics; COVID-19; Emerging Infectious Diseases; Influenza; Global Health; Respiratory Disease/Infections
ORCID
0000-0002-6570-5453
Research at a Glance
Yale Co-Authors
Frequent collaborators of Orchid M Allicock's published research.
Publications Timeline
A big-picture view of Orchid M Allicock's research output by year.
Daniel Weinberger, PhD
Claire S. Laxton, PhD
Sidiya Mbodj
Nathan Grubaugh, PhD
Albert C Shaw, MD, PhD
Amy Bei, PhD
28Publications
829Citations
Publications
2025
Storage stability of non-encapsulated pneumococci in saliva is dependent on null-capsule clade, with strains carrying aliC and aliD showing a competitive disadvantage during culture enrichment
Laxton C, Allicock O, Peno C, Lin T, Koelewijn A, Toekiran F, Aguilar L, York A, Wyllie A. Storage stability of non-encapsulated pneumococci in saliva is dependent on null-capsule clade, with strains carrying aliC and aliD showing a competitive disadvantage during culture enrichment. Microbiology 2025, 171: 001585. PMID: 40748653, PMCID: PMC12316466, DOI: 10.1099/mic.0.001585.Peer-Reviewed Original ResearchAltmetricMeSH Keywords and ConceptsConceptsNESp strainsRates of genetic exchangeCultural enrichmentExtraction-free methodGenetic exchangeCE-based methodCompetitive fitnessCE-DNACarriage surveillanceDNA extractionGlycerol supplementationQPCR assayCirculating pneumococciAntimicrobial resistanceCladeEncapsulated pneumococciNCC1Oral microbesNESPStrainDNAStudy specimensCarriage studiesQPCRCarriage prevalenceAn abundance of aliC and aliD genes were identified in saliva using a novel multiplex qPCR to characterize group II non-encapsulated pneumococci with improved specificity
Laxton C, Toekiran F, Lin T, Lomeda B, Hislop M, Keller L, Allicock O, Wyllie A. An abundance of aliC and aliD genes were identified in saliva using a novel multiplex qPCR to characterize group II non-encapsulated pneumococci with improved specificity. Microbiology 2025, 171: 001555. PMID: 40279151, PMCID: PMC12282236, DOI: 10.1099/mic.0.001555.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsBioinformatics analysisMultiplex qPCRGenome sequenceGenetic exchangeCapsule genesCps regionPolymicrobial samplesIsolated coloniesNon-pneumococcal streptococciPublished primersSpecies specificityMolecular methodsQPCR assayEncapsulated strainsGenesAntimicrobial resistancePneumococcal surveillance studiesMultiplex assayScreening salivaAssayStreptococciSequenceIsolatesColoniesPneumococcal carriage
2024
A low-cost culture- and DNA extraction-free method for the molecular detection of pneumococcal carriage in saliva
Peno C, Lin T, Hislop M, Yolda-Carr D, Farjado K, York A, Pitzer V, Weinberger D, Bei A, Allicock O, Wyllie A. A low-cost culture- and DNA extraction-free method for the molecular detection of pneumococcal carriage in saliva. Microbiology Spectrum 2024, 12: e00591-24. PMID: 39028185, PMCID: PMC11370248, DOI: 10.1128/spectrum.00591-24.Peer-Reviewed Original ResearchCitationsConceptsDetection of pneumococciDetection of pneumococcal carriagePneumococcal carriageCarriage surveillanceLow-resource settingsChildren attending childcare centersCarriage of pneumococciDNA extractionSaliva samplesMolecular methodsCultural enrichmentImprove surveillance effortsQPCR-based protocolPneumococcal vaccineExtraction-free methodMolecular detectionNucleic acid extractionVaccination strategiesPneumococciCulture-enrichment methodExtraction-free protocolPurified DNASalivaPaired samplesCarriage
2023
649. Expansion Of A Low-Cost, Open-Source, Saliva-Based PCR Test For The Detection Of Mpox Virus
Thomas R, Yolda-Carr D, Steel S, Tobik E, Zepeda T, Brownlee M, Saladi S, Parkin J, Fajardo K, Allicock O, Wyllie A. 649. Expansion Of A Low-Cost, Open-Source, Saliva-Based PCR Test For The Detection Of Mpox Virus. Open Forum Infectious Diseases 2023, 10: ofad500.712. PMCID: PMC10677374, DOI: 10.1093/ofid/ofad500.712.Peer-Reviewed Original ResearchAltmetricConcepts881. Saliva-Based, Extraction-Free PCR Testing For The Detection Of Key Respiratory Pathogens
Allicock O, Lin T, Fajardo K, Yolda-Carr D, Hislop M, Wang J, Zuniga D, Platt W, Tuohy B, Peno C, Wyllie A. 881. Saliva-Based, Extraction-Free PCR Testing For The Detection Of Key Respiratory Pathogens. Open Forum Infectious Diseases 2023, 10: ofad500.926. PMCID: PMC10677551, DOI: 10.1093/ofid/ofad500.926.Peer-Reviewed Original ResearchConceptsSARS-CoV-2Saliva samplesRespiratory virusesRespiratory pathogensSARS-CoV-2 PCR testInfluenza A/BSARS-CoV-2 testingUpper respiratory tract pathogensAdditional respiratory virusesDetection of hMPVMass testing strategyPCR testCommon respiratory virusesCommon respiratory pathogensRespiratory tract pathogensKey respiratory pathogensYears of ageSARS-CoV-2 detectionGrant/research supportTransmissible infectious diseasesUse of salivaYale HealthRespiratory symptomsInfluenza B.Nasopharyngeal swabsThe potential of saliva as an accessible and sensitive sample type for the detection of respiratory pathogens and host immunity
Laxton C, Peno C, Hahn A, Allicock O, Perniciaro S, Wyllie A. The potential of saliva as an accessible and sensitive sample type for the detection of respiratory pathogens and host immunity. The Lancet Microbe 2023, 4: e837-e850. PMID: 37516121, DOI: 10.1016/s2666-5247(23)00135-0.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsCitationsAltmetricMeSH Keywords and ConceptsConceptsSARS-CoV-2Respiratory pathogensPotential of salivaUsefulness of salivaUse of salivaRespiratory specimenRespiratory secretionsDisease burdenImmunological componentsImmunity surveillanceClinical utilityHost immunityClinical useDiagnostic testsNon-invasive natureSalivaCOVID-19 pandemicSample typesMethodological factorsPathogensImmunitySecretionMethod versatility in RNA extraction-free PCR detection of SARS-CoV-2 in saliva samples
Allicock O, Yolda-Carr D, Earnest R, Breban M, Vega N, Ott I, Kalinich C, Alpert T, Petrone M, Wyllie A. Method versatility in RNA extraction-free PCR detection of SARS-CoV-2 in saliva samples. Progress In Biophysics And Molecular Biology 2023, 182: 103-108. PMID: 37369293, PMCID: PMC10290768, DOI: 10.1016/j.pbiomolbio.2023.06.004.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsPooled RNA-extraction-free testing of saliva for the detection of SARS-CoV-2
Allicock O, Yolda-Carr D, Todd J, Wyllie A. Pooled RNA-extraction-free testing of saliva for the detection of SARS-CoV-2. Scientific Reports 2023, 13: 7426. PMID: 37156888, PMCID: PMC10165292, DOI: 10.1038/s41598-023-34662-2.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsSARS-CoV-2RT-qPCR assaysSARS-CoV-2 testingVirus-infected individualsAged care facilitiesSelf-collected salivaSARS-CoV-2 spreadActionable time frameAsymptomatic individualsTest turnaround timeHealthcare workersGeneral populationCare facilitiesTest availabilityWeekly testingFree testingClinical salivaPositive agreementClinical laboratoriesSalivaCT valuesSuch testingTesting workflowIndividual testingTesting protocolHigh Levels of Detection of Nonpneumococcal Species of Streptococcus in Saliva from Adults in the United States
Hislop M, Allicock O, Thammavongsa D, Mbodj S, Nelson A, Shaw A, Weinberger D, Wyllie A. High Levels of Detection of Nonpneumococcal Species of Streptococcus in Saliva from Adults in the United States. Microbiology Spectrum 2023, 11: e05207-22. PMID: 37067447, PMCID: PMC10269540, DOI: 10.1128/spectrum.05207-22.Peer-Reviewed Original ResearchCitationsMeSH Keywords and ConceptsPersistence of Pneumococcal Carriage among Older Adults in the Community despite COVID-19 Mitigation Measures
Wyllie A, Mbodj S, Thammavongsa D, Hislop M, Yolda-Carr D, Waghela P, Nakahata M, Stahlfeld A, Vega N, York A, Allicock O, Wilkins G, Ouyang A, Siqueiros L, Strong Y, Anastasio K, Alexander-Parrish R, Arguedas A, Gessner B, Weinberger D. Persistence of Pneumococcal Carriage among Older Adults in the Community despite COVID-19 Mitigation Measures. Microbiology Spectrum 2023, 11: e04879-22. PMID: 37036377, PMCID: PMC10269788, DOI: 10.1128/spectrum.04879-22.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsInvasive pneumococcal diseasePneumococcal diseaseSchool-aged childrenOlder adultsPneumococcal carriageSaliva samplesCOVID-19 pandemicRate of carriageCOVID-19-related disruptionsUpper respiratory tractRegular contactNew Haven areaFirst yearCarriage prevalencePre-pandemic levelsMedical historyRespiratory tractHigh prevalenceStreptococcus pneumoniaeCOVID-19 mitigation measuresStudy participantsPneumococciPrevalenceDiseaseCarriage
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Pediatric Infectious Diseases
SEAMCO 0239, 464 Congress Ave, 2nd Floor,
New Haven, Connecticut 06519
United States