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
Coronavirus 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 Research
2022
Present 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 populationThe 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