Adalgisa Caccone
Senior Research Scientist and Lecturer in Ecology and Evolutionary BiologyCards
Contact Info
About
Titles
Senior Research Scientist and Lecturer in Ecology and Evolutionary Biology
Biography
Dr. Caccone is a senior research scientist in the Department of Ecology and Evolutionary Biology at Yale University, with secondary appointments in the School of Epidemiology and Public Health and the School of Forestry and Environmental Studies. She is also the director of a research and training center from the Yale Institute for Biospheric Studies (YIBS), the Center for Genetic Analyses of Biodiversity (http://cgab.yale.edu/), where students train to use population genetic and genomic tools for organismal levels analyses. Dr. Caccone is also the director a fee-for-service facility for DNA Sanger sequencing and fragment analyses (http://dna-analysis.yale.edu/). Her research interests are in the broad area of evolutionary genetics and genomics, using DNA analyses to shed light on a variety of related topics, including phylogeography, landscape genetics, invasion biology, and conservation genetics. For the past 20+ years she has been using population genetic approaches to help elucidate the evolutionary and ecological forces that have and are shaping vectors and parasite distributions. The underlying goal is to help control and monitor vector transmitted diseases by understanding the vector and parasites evolutionary history and demographics and their co-evolution. She worked on the main malaria vector in Africa, the mosquitoes from the Anopheles gambiae complex. In recent years her focus has shifted to other vectors (Glossina tsetse flies and Aedes aegypti and Ae. albopictus) and on parasites that cause sleeping sickness (Trypanosoma) and Lyme disease and babesiosis (Borellia and Babesia). She is studying the dynamics and evolutionary process shaping range expansions in Aedes albopictus at a global and local scale using genomic approaches to look at the role of neutral and adaptive polymorphisms. She is also working on population genetics and genomic of ticks (Ixodes scapularis) and Norwegian rats (Rattus norvegicus), using DNA analyses to understand invasion patterns at a micro- and macro-geographic scale, including an urban one. A new project in our laboratory is on the evolutionary genomics of hookworms and the genetic underpinnings of benzamidazole resistance.
Appointments
Department of Ecology & Evolutionary Biology
LecturerPrimaryDepartment of Ecology & Evolutionary Biology
Senior Research ScientistSecondarySchool of the Environment
Senior Research ScientistSecondary
Other Departments & Organizations
Research
Research at a Glance
Yale Co-Authors
Publications Timeline
Jeffrey Powell
Debbie Humphries, PhD, MPH, MA
Michael Cappello, MD
Serap Aksoy, PhD
Albert Ko, MD
James Knight, PhD
Publications
2024
Whole-genome sequencing confirms multiple species of Galapagos giant tortoises
Gaughran S, Gray R, Ochoa A, Jones M, Fusco N, Miller J, Poulakakis N, de Queiroz K, Caccone A, Jensen E. Whole-genome sequencing confirms multiple species of Galapagos giant tortoises. Evolution 2024, qpae164. PMID: 39548869, DOI: 10.1093/evolut/qpae164.Peer-Reviewed Original ResearchAltmetricInbreeding avoidance, competition and natal dispersal in a pair-living, genetically monogamous mammal, Azara’s owl monkey (Aotus azarae)
Corley M, de la Chica A, van der Heide G, Rotundo M, Caccone A, Fernandez-Duque E. Inbreeding avoidance, competition and natal dispersal in a pair-living, genetically monogamous mammal, Azara’s owl monkey (Aotus azarae). Royal Society Open Science 2024, 11: 240379. PMID: 39113772, PMCID: PMC11305132, DOI: 10.1098/rsos.240379.Peer-Reviewed Original ResearchAltmetricConceptsAzara's owl monkeysNatal dispersalInbreeding avoidanceMating systemPair-livingPotential matesNatal groupMaintenance of social organizationTiming of natal dispersalLife history stagesPopulation structureGenetic dataMonogamous mammalsWild populationsParental careIndividual fitnessEcological factorsRegulating dispersalAotus azaraeDispersal patternsInbreedingStep-parentsAgonistic conflictsMatingMammalsA genotyping array for the globally invasive vector mosquito, Aedes albopictus
Cosme L, Corley M, Johnson T, Severson D, Yan G, Wang X, Beebe N, Maynard A, Bonizzoni M, Khorramnejad A, Martins A, Lima J, Munstermann L, Surendran S, Chen C, Maringer K, Wahid I, Mukherjee S, Xu J, Fontaine M, Estallo E, Stein M, Livdahl T, Scaraffia P, Carter B, Mogi M, Tuno N, Mains J, Medley K, Bowles D, Gill R, Eritja R, González-Obando R, Trang H, Boyer S, Abunyewa A, Hackett K, Wu T, Nguyễn J, Shen J, Zhao H, Crawford J, Armbruster P, Caccone A. A genotyping array for the globally invasive vector mosquito, Aedes albopictus. Parasites & Vectors 2024, 17: 106. PMID: 38439081, PMCID: PMC10910840, DOI: 10.1186/s13071-024-06158-z.Peer-Reviewed Original ResearchAltmetricMeSH Keywords and ConceptsConceptsWhole-genome sequencingLow-coverage whole-genome sequencingSNP chipRepetitive elementsGenomic analysisNative rangePatterns of genomic variationWhole-genome sequencing dataSNP chip genotypesPopulation genomic analysesProtein-coding genesLevels of admixtureOrigin of invasionNon-coding regionsPercentage of repetitive elementsGenotyping of samplesChip genotypesGenetic clustersAncestry analysisGenomic variationGenotyping arraysGenotyping platformsMendelian genesGenetic variationGenotyping methods
2023
Population genomic structure of a widespread, urban‐dwelling mammal: The eastern grey squirrel (Sciurus carolinensis)
Fusco N, Cosentino B, Gibbs J, Allen M, Blumenfeld A, Boettner G, Carlen E, Collins M, Dennison C, DiGiacopo D, Picard A, Edmonson J, Fisher‐Reid M, Fyffe R, Gallo T, Grant A, Harbold W, Heard S, Lafferty D, Lehtinen R, Marino S, McDonald J, Mortelliti A, Murray M, Newman A, Oswald K, Ott‐Conn C, Richardson J, Rimbach R, Salaman P, Steele M, Stothart M, Urban M, Vandegrift K, Vanek J, Vanderluit S, Vezina L, Caccone A. Population genomic structure of a widespread, urban‐dwelling mammal: The eastern grey squirrel (Sciurus carolinensis). Molecular Ecology 2023, 33: e17230. PMID: 38078558, DOI: 10.1111/mec.17230.Peer-Reviewed Original ResearchCitationsAltmetricGalapagos giant tortoise trafficking case demonstrates the utility and applications of long‐term comprehensive genetic monitoring
Quinzin M, Bishop A, Miller J, Poulakakis N, Tapia W, Torres‐Rojo F, Sevilla C, Caccone A. Galapagos giant tortoise trafficking case demonstrates the utility and applications of long‐term comprehensive genetic monitoring. Animal Conservation 2023, 26: 826-838. DOI: 10.1111/acv.12870.Peer-Reviewed Original ResearchCitationsAltmetricConceptsGalapagos giant tortoisesGiant tortoisesIllegal wildlife tradeGenetic analysisNuclear microsatellite markersGenetic repositoryBreeding CenterStandard genetic markersComprehensive genetic characterizationWild speciesIsland of originGenetic monitoringMicrosatellite markersGenetic markersGenetic characterizationSpecies protectionGalapagos IslandsLa conservaciónWildlife tradeSpeciesJuvenile tortoisesTortoisesSan CristobalJuvenilesFirst documentation
2022
Population genetics of an invasive mosquito vector, Aedes albopictus in the Northeastern USA
Gloria-Soria A, Shragai T, Ciota A, Duval T, Alto B, Martins A, Westby K, Medley K, Unlu I, Campbell S, Kawalkowski M, Tsuda Y, Higa Y, Indelicato N, Leisnham P, Caccone A, Armstrong P. Population genetics of an invasive mosquito vector, Aedes albopictus in the Northeastern USA. NeoBiota 2022, 78: 99-127. PMID: 37408738, PMCID: PMC10321554, DOI: 10.3897/neobiota.78.84986.Peer-Reviewed Original ResearchCitationsAltmetricConceptsPopulations of AeGenetic structureGenetic diversityPopulation geneticsGenetic cladesMicrosatellite markersAsian tiger mosquitoNortheastern USARange northwardsNorthern rangeAlbopictus populationsFounder effectPopulation turnoverVector suppressionEast coastTiger mosquitoEastern USAInvasive mosquito vectorsMosquito vectorsAedes albopictusLocal populationWarming conditionsAlbopictusCold wintersConsecutive yearsTemporal Monitoring of the Floreana Island Galapagos Giant Tortoise Captive Breeding Program
Gray R, Fusco N, Miller J, Tapia W, Mariani C, Caccone A, Jensen E. Temporal Monitoring of the Floreana Island Galapagos Giant Tortoise Captive Breeding Program. Integrative And Comparative Biology 2022, 62: 1864-1871. PMID: 35906184, DOI: 10.1093/icb/icac129.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsCaptive breeding programsBreeding programsEffective population sizeGalapagos giant tortoisesCaptive breedingGenetic diversityGenetic trackingReproductive outputSpecies restorationGiant tortoisesConservation managersBreeding outcomesMicrosatellite markersGenetic analysisMore foundersBreeding cyclePopulation sizeBreeding facilitiesTortoisesValue of hybridsParentageOffspringGenomeHybridsBreedingMultiple introductions and overwintering shape the progressive invasion of Aedes albopictus beyond the Alps
Vavassori L, Honnen A, Saarman N, Caccone A, Müller P. Multiple introductions and overwintering shape the progressive invasion of Aedes albopictus beyond the Alps. Ecology And Evolution 2022, 12: e9138. PMID: 35903757, PMCID: PMC9313497, DOI: 10.1002/ece3.9138.Peer-Reviewed Original ResearchCitationsAltmetricConceptsDouble-digest restriction site-associated DNA sequencingRestriction site-associated DNA sequencingWeak genetic structurePopulation genomic dataAsian native rangeGenome-wide SNPsHuman-aided dispersalBiogeographic barriersGenetic structureNative rangeGenetic clustersInvasive speciesRecent invasionGenetic patternsGenomic dataSNP dataGenetic admixtureMultiple introductionsDisease vectorsNorthward expansionDNA sequencingMosquito populationsAedes albopictusProgressive invasionFull siblingsApplication of multiplex amplicon deep-sequencing (MAD-seq) to screen for putative drug resistance markers in the Necator americanus isotype-1 β-tubulin gene
George S, Suwondo P, Akorli J, Otchere J, Harrison LM, Bilguvar K, Knight JR, Humphries D, Wilson MD, Caccone A, Cappello M. Application of multiplex amplicon deep-sequencing (MAD-seq) to screen for putative drug resistance markers in the Necator americanus isotype-1 β-tubulin gene. Scientific Reports 2022, 12: 11459. PMID: 35794459, PMCID: PMC9259660, DOI: 10.1038/s41598-022-15718-1.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsSingle nucleotide polymorphismsPeriodic mass drug administrationHigh-risk groupCross-sectional studyDrug resistance markersMass drug administrationResistance-associated mutationsHookworm Necator americanusPost-treatment samplesIsotype-1 β-tubulin geneHookworm infectionPersistent infectionResistance markersDrug AdministrationNecator americanusInfection statusVeterinary nematodesInfectionMarkersNucleotide polymorphismsSensitive toolBenzimidazole drugsNucleotide allelesThe Galapagos giant tortoise Chelonoidis phantasticus is not extinct
Jensen E, Gaughran S, Fusco N, Poulakakis N, Tapia W, Sevilla C, Málaga J, Mariani C, Gibbs J, Caccone A. The Galapagos giant tortoise Chelonoidis phantasticus is not extinct. Communications Biology 2022, 5: 546. PMID: 35681083, PMCID: PMC9184544, DOI: 10.1038/s42003-022-03483-w.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsGalapagos giant tortoisesGiant tortoisesMitochondrial DNA phylogenyDNA phylogenyMonophyletic groupCarapace morphologyPhylogeny GroupSame lineagePopulation sizeSpeciesTortoisesLineagesFemale tortoisesSingle specimenSingle individualPhylogenyCladeGenomeExtinctSaddlebackContinued existenceIslandsDiscovery
Academic Achievements & Community Involvement
activity Aldabra tortoises
ResearchDetails01/01/2008 - PresentSeychellesAbstract/SynopsisProfessor Caccone is working with the Nature Protection Trust of the Seychelles on a project on the conservation genetics of Aldabra tortoises.
activity Amazonian Fishes
ResearchDetails01/01/2008 - PresentBrazilAbstract/SynopsisProfessor Caccone works with the Universitadade do Amazonas on the evolutionary divergence and biogeography of Amazonian Fishes.
activity Conservation Genetics of Amur Tigers
ResearchDetails01/01/2008 - PresentRussia; RussiaAbstract/SynopsisProfessor Caccone works with the Pacific Institute of Geography, Russian Academy of Science, Vladivostock, on the conservation genetics of the Amur tiger.
activity Deer Populations
ResearchDetails01/01/2008 - PresentItalyAbstract/SynopsisProfessor Caccone works with the Universita' di Roma "Tor Vergata," Roma, on the conservation genetics of roe deer populations.
activity European newts
ResearchDetails01/01/2008 - PresentNetherlandsAbstract/SynopsisProfessor Caccone is working with the National Museum of Natural History, Leiden, Netherlands, on the phylogeny of European newts.
News
News
- November 13, 2017Source: ScienceLine
A Brazilian city is using DNA to combat the ancient scourge of rats
- September 12, 2017Source: Yale Daily News
To isolate lyme disease bacteria, yale researchers “go fishing”
- August 28, 2017
Ancient History of Lyme Disease in North America Revealed with Bacterial Genomes
- November 03, 1999
Yale Researchers May Have Solved Mystery About Why "Lonesome George" Refuses to Mate