Featured Publications
Climate change increases cross-species viral transmission risk
Carlson C, Albery G, Merow C, Trisos C, Zipfel C, Eskew E, Olival K, Ross N, Bansal S. Climate change increases cross-species viral transmission risk. Nature 2022, 607: 555-562. PMID: 35483403, DOI: 10.1038/s41586-022-04788-w.Peer-Reviewed Original ResearchConceptsViral sharingRange shiftsRange shifts of speciesHuman population densityGeographic range shiftsUnique dispersal abilityLand-use scenariosShifts of speciesGlobal environmental changeGeographically isolated speciesBiodiversity surveysBiodiversity hotspotHolding warmingMammal speciesDispersal abilityLand-useLand usePotential hotspotsClimate-changePopulation densityCross-species transmissionPhylogeographic modelsEnvironmental changesEcological transitionVirus species
2023
Trends in mosquito species distribution modeling: insights for vector surveillance and disease control
Lippi C, Mundis S, Sippy R, Flenniken J, Chaudhary A, Hecht G, Carlson C, Ryan S. Trends in mosquito species distribution modeling: insights for vector surveillance and disease control. Parasites & Vectors 2023, 16: 302. PMID: 37641089, PMCID: PMC10463544, DOI: 10.1186/s13071-023-05912-z.Peer-Reviewed Original ResearchConceptsSpecies distribution modelsSpecies distribution modelling methodsSpecies distribution modelling literatureDisease vectorsDistribution modelMosquito-borne disease riskInfectious disease vectorsGlobal changeMosquito speciesSpeciesMethodological focusNorth AmericaOutbreak riskDisease riskGeographyMosquitoesModeling effortsRegional modelSystematic reviewEcologyEcological drivers of sustained enzootic yellow fever virus transmission in Brazil, 2017–2021
Silva N, Albery G, Arruda M, Oliveira G, Costa T, de Mello É, Moreira G, Reis E, da Silva S, Silva M, de Almeida M, Becker D, Carlson C, Vasilakis N, Hanley K, Drumond B. Ecological drivers of sustained enzootic yellow fever virus transmission in Brazil, 2017–2021. PLOS Neglected Tropical Diseases 2023, 17: e0011407. PMID: 37276217, PMCID: PMC10270639, DOI: 10.1371/journal.pntd.0011407.Peer-Reviewed Original ResearchConceptsMinas Gerais StateYF virus infectionNon-human primatesYF virusHigher virus titersFree-living non-human primatesInfection intensityExposure to vectorsSylvatic yellow feverEnzootic cycleViral replication levelsHigh virus dosesNon-human primate infectionCarcassYellow feverSeasonVirus titersVirus doseVirus transmissionSoutheastern BrazilVirus infectionViral strainsInfectionCoronavirus sampling and surveillance in bats from 1996–2019: a systematic review and meta-analysis
Cohen L, Fagre A, Chen B, Carlson C, Becker D. Coronavirus sampling and surveillance in bats from 1996–2019: a systematic review and meta-analysis. Nature Microbiology 2023, 8: 1176-1186. PMID: 37231088, PMCID: PMC10234814, DOI: 10.1038/s41564-023-01375-1.Peer-Reviewed Original ResearchExploring the Mosquito–Arbovirus Network: A Survey of Vector Competence Experiments
Chen B, Sweeny A, Wu V, Christofferson R, Ebel G, Fagre A, Gallichotte E, Kading R, Ryan S, Carlson C. Exploring the Mosquito–Arbovirus Network: A Survey of Vector Competence Experiments. American Journal Of Tropical Medicine And Hygiene 2023, 108: 987-994. PMID: 37037424, PMCID: PMC10160896, DOI: 10.4269/ajtmh.22-0511.Peer-Reviewed Original ResearchRapid range shifts in African Anopheles mosquitoes over the last century
Carlson C, Bannon E, Mendenhall E, Newfield T, Bansal S. Rapid range shifts in African Anopheles mosquitoes over the last century. Biology Letters 2023, 19: 20220365. PMID: 36789530, PMCID: PMC9929507, DOI: 10.1098/rsbl.2022.0365.Peer-Reviewed Original Research
2022
A minimum data standard for vector competence experiments
Wu V, Chen B, Christofferson R, Ebel G, Fagre A, Gallichotte E, Sweeny A, Carlson C, Ryan S. A minimum data standard for vector competence experiments. Scientific Data 2022, 9: 634. PMID: 36261651, PMCID: PMC9582208, DOI: 10.1038/s41597-022-01741-4.Peer-Reviewed Original ResearchA treaty to break the pandemic cycle
Phelan A, Carlson C. A treaty to break the pandemic cycle. Science 2022, 377: 475-477. PMID: 35857484, DOI: 10.1126/science.abq5917.Peer-Reviewed Original ResearchPresent and future distribution of bat hosts of sarbecoviruses: implications for conservation and public health
Muylaert R, Kingston T, Luo J, Vancine M, Galli N, Carlson C, John R, Rulli M, Hayman D. Present and future distribution of bat hosts of sarbecoviruses: implications for conservation and public health. Proceedings Of The Royal Society B 2022, 289: 20220397. PMID: 35611534, PMCID: PMC9130791, DOI: 10.1098/rspb.2022.0397.Peer-Reviewed Original ResearchConceptsLoss of population connectivityPredictors of species distributionsReservoirs of diverse virusesBiodiversity extinction crisisProject future scenariosModel current distributionHotspots shiftLandscape relationshipsLocal extinctionSpecies distributionHuman encroachmentExtinction crisisSARS-like virusesPopulation connectivityTemperature seasonalityNatural habitatsGlobal changeHost distributionEcological nichesFuture scenariosBat hostsHotspotsDiverse virusesViral spilloverHuman populationUrban-adapted mammal species have more known pathogens
Albery G, Carlson C, Cohen L, Eskew E, Gibb R, Ryan S, Sweeny A, Becker D. Urban-adapted mammal species have more known pathogens. Nature Ecology & Evolution 2022, 6: 794-801. PMID: 35501480, DOI: 10.1038/s41559-022-01723-0.Peer-Reviewed Original ResearchConceptsParasite richnessIncreased zoonotic disease riskUrban-adapted speciesWildlife disease dynamicsZoonotic disease riskSampling biasUrban mammalsMammal speciesDocumented parasitismFrequent contact with humansAnthropogenic changesGeographic predictorsParasite discoveryRichnessUrban animalsHost-parasite combinationsInvestigated speciesContact with humansDisease dynamicsZoonotic parasitesUrban environmentSpeciesMounting concernMammalsParasitesVirus isolation data improve host predictions for New World rodent orthohantaviruses
Mull N, Carlson C, Forbes K, Becker D. Virus isolation data improve host predictions for New World rodent orthohantaviruses. Journal Of Animal Ecology 2022, 91: 1290-1302. PMID: 35362148, DOI: 10.1111/1365-2656.13694.Peer-Reviewed Original ResearchConceptsRisk of pathogen spilloverHost associationsMulti-host pathogensRT-PCR dataVirus isolation dataBRT modelsTrait profilesEcological traitsReservoir host speciesPathogen spilloverRT-PCRHost speciesPathogen maintenancePathogen hostsRegression treesBRTHost predictionHost competenceHantavirus cardiopulmonary syndromeZoonotic reservoirsPrioritizing surveillanceRodent phylogenyMultiple data typesIsolation dataMuroid rodentsAssessing the risk of human‐to‐wildlife pathogen transmission for conservation and public health
Fagre A, Cohen L, Eskew E, Farrell M, Glennon E, Joseph M, Frank H, Ryan S, Carlson C, Albery G. Assessing the risk of human‐to‐wildlife pathogen transmission for conservation and public health. Ecology Letters 2022, 25: 1534-1549. PMID: 35318793, PMCID: PMC9313783, DOI: 10.1111/ele.14003.Peer-Reviewed Original ResearchConceptsNon-human primatesPathogen transmissionThreatened animalsThreaten conservationHuman healthRisk assessmentHuman pathogensPrimatesIncreasing concernSampling biasPublic healthConservationTransmission of pathogensDocumented examplesPathogensEvidence of sampling biasTransmission eventsHuman parasitesWildlifeThe Global Virome in One Network (VIRION): an Atlas of Vertebrate-Virus Associations
Carlson C, Gibb R, Albery G, Brierley L, Connor R, Dallas T, Eskew E, Fagre A, Farrell M, Frank H, Muylaert R, Poisot T, Rasmussen A, Ryan S, Seifert S. The Global Virome in One Network (VIRION): an Atlas of Vertebrate-Virus Associations. MBio 2022, 13: e02985-21. PMID: 35229639, PMCID: PMC8941870, DOI: 10.1128/mbio.02985-21.Peer-Reviewed Original ResearchConceptsGlobal viromeNetworks of species interactionsEstimated total diversityHost-virus networksVertebrate host speciesTaxonomic validityBird diversityReport metadataSpecies interactionsMammal diversityViruses infecting humansHost speciesViromeTaxonomic backboneViral diversityHigher classificationVirionsDiversityVertebratesUnique interactionsHarmonized formatVirusTaxonomicallyMacroecologyData setsOptimising predictive models to prioritise viral discovery in zoonotic reservoirs
Becker D, Albery G, Sjodin A, Poisot T, Bergner L, Chen B, Cohen L, Dallas T, Eskew E, Fagre A, Farrell M, Guth S, Han B, Simmons N, Stock M, Teeling E, Carlson C. Optimising predictive models to prioritise viral discovery in zoonotic reservoirs. The Lancet Microbe 2022, 3: e625-e637. PMID: 35036970, PMCID: PMC8747432, DOI: 10.1016/s2666-5247(21)00245-7.Peer-Reviewed Original ResearchConceptsSystematic model validationTrait-based modelsHost-virus associationsBat hostsHost ecologyWildlife samplesBat speciesNovel hostsSampling recommendationsBridge hostsWildlifeWildlife reservoirsTarget prioritisationBatsStatistical modelMachine learning modelsModel performanceViral discoveryProcess of predictionAnalytical pipelinePrediction modelBetacoronavirusLearning modelsEcologyEnsemble modelMammal virus diversity estimates are unstable due to accelerating discovery effort
Gibb R, Albery G, Mollentze N, Eskew E, Brierley L, Ryan S, Seifert S, Carlson C. Mammal virus diversity estimates are unstable due to accelerating discovery effort. Biology Letters 2022, 18: 20210427. PMID: 34982955, PMCID: PMC8727147, DOI: 10.1098/rsbl.2021.0427.Peer-Reviewed Original ResearchConceptsViral richnessHost speciesReliability of ecological inferenceGeographic sampling biasEvidence of declineViral diversityHost-virus associationsRearrangement of speciesSampling effortVirus discovery ratesEcological inferenceDiscovery effortsMammal hostsWild mammalsDiversity estimatesSampled hostsVirus diversityShort-term changesRichnessSampling biasSpeciesAssociation dataDiscovery rateDiversityCompare inferences
2021
The science of the host–virus network
Albery G, Becker D, Brierley L, Brook C, Christofferson R, Cohen L, Dallas T, Eskew E, Fagre A, Farrell M, Glennon E, Guth S, Joseph M, Mollentze N, Neely B, Poisot T, Rasmussen A, Ryan S, Seifert S, Sjodin A, Sorrell E, Carlson C. The science of the host–virus network. Nature Microbiology 2021, 6: 1483-1492. PMID: 34819645, DOI: 10.1038/s41564-021-00999-5.Peer-Reviewed Original ResearchPlague risk in the western United States over seven decades of environmental change
Carlson C, Bevins S, Schmid B. Plague risk in the western United States over seven decades of environmental change. Global Change Biology 2021, 28: 753-769. PMID: 34796590, PMCID: PMC9299200, DOI: 10.1111/gcb.15966.Peer-Reviewed Original ResearchConceptsWestern United StatesRodent communitiesSpillover riskRodent species richnessEnvironmental changesImpacts of climate changeClimate change impactsInfectious disease distributionsLong-term persistenceSpecies richnessMid-elevationsSoil biochemistryChange impactsDisease geographyChanging climateLong-term trendsClimate changePlague reservoirsReservoirs of plagueWildlife reservoirsSpillover eventsInterannual variationsPlague ecologyClimateHuman casesSynzootics
Sweeny A, Albery G, Becker D, Eskew E, Carlson C. Synzootics. Journal Of Animal Ecology 2021, 90: 2744-2754. PMID: 34546566, DOI: 10.1111/1365-2656.13595.Peer-Reviewed Original ResearchThe future of zoonotic risk prediction
Carlson C, Farrell M, Grange Z, Han B, Mollentze N, Phelan A, Rasmussen A, Albery G, Bett B, Brett-Major D, Cohen L, Dallas T, Eskew E, Fagre A, Forbes K, Gibb R, Halabi S, Hammer C, Katz R, Kindrachuk J, Muylaert R, Nutter F, Ogola J, Olival K, Rourke M, Ryan S, Ross N, Seifert S, Sironen T, Standley C, Taylor K, Venter M, Webala P. The future of zoonotic risk prediction. Philosophical Transactions Of The Royal Society B Biological Sciences 2021, 376: 20200358. PMID: 34538140, PMCID: PMC8450624, DOI: 10.1098/rstb.2020.0358.Peer-Reviewed Original ResearchTrends and Opportunities in Tick-Borne Disease Geography
Lippi C, Ryan S, White A, Gaff H, Carlson C. Trends and Opportunities in Tick-Borne Disease Geography. Journal Of Medical Entomology 2021, 58: 2021-2029. PMID: 34027972, PMCID: PMC8577696, DOI: 10.1093/jme/tjab086.Peer-Reviewed Original Research