2022
The 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 ResearchConceptsGalapagos giant tortoisesGiant tortoisesMitochondrial DNA phylogenyDNA phylogenyMonophyletic groupCarapace morphologyPhylogeny GroupSame lineagePopulation sizeSpeciesTortoisesLineagesFemale tortoisesSingle specimenSingle individualPhylogenyCladeGenomeExtinctSaddlebackContinued existenceIslandsDiscoveryA new lineage of Galapagos giant tortoises identified from museum samples
Jensen E, Quinzin M, Miller J, Russello M, Garrick R, Edwards D, Glaberman S, Chiari Y, Poulakakis N, Tapia W, Gibbs J, Caccone A. A new lineage of Galapagos giant tortoises identified from museum samples. Heredity 2022, 128: 261-270. PMID: 35217806, PMCID: PMC8987048, DOI: 10.1038/s41437-022-00510-8.Peer-Reviewed Original ResearchConceptsGalapagos giant tortoisesMitochondrial control regionGiant tortoisesSingle nucleotide polymorphismsControl regionMuseum samplesGenome-wide single nucleotide polymorphismsDivergent mitochondrial lineagesSingle mitochondrial haplotypeContemporary populationsIconic radiationMitochondrial lineagesAdditional lineagesMitochondrial haplotypesNuclear markersSan CristóbalSecond lineageMicrosatellite lociNew lineagePinta IslandSame cladeEvolutionary processesLineagesGalapagos ArchipelagoEarly evolution
2019
The population genomics of multiple tsetse fly (Glossina fuscipes fuscipes) admixture zones in Uganda
Saarman NP, Opiro R, Hyseni C, Echodu R, Opiyo EA, Dion K, Johnson T, Aksoy S, Caccone A. The population genomics of multiple tsetse fly (Glossina fuscipes fuscipes) admixture zones in Uganda. Molecular Ecology 2019, 28: 66-85. PMID: 30471158, PMCID: PMC9642080, DOI: 10.1111/mec.14957.Peer-Reviewed Original ResearchConceptsAdmixture zonePopulation genomicsHybrid zoneMitochondrial cytochrome oxidase IGenome-wide admixtureProcess of speciationCytochrome oxidase IPatterns of divergenceMaternal inheritance patternDivergent lineagesReproductive barriersSecondary contactOxidase IEvolutionary biologyApproximate Bayesian computationGenetic lineagesParental typesGenetic markersInheritance patternGenomicsLineagesMultiple generationsBayesian computationSpeciationRiver network
2016
Potential arms race in the coevolution of primates and angiosperms: brazzein sweet proteins and gorilla taste receptors
Guevara EE, Veilleux CC, Saltonstall K, Caccone A, Mundy NI, Bradley BJ. Potential arms race in the coevolution of primates and angiosperms: brazzein sweet proteins and gorilla taste receptors. American Journal Of Biological Anthropology 2016, 161: 181-185. PMID: 27393125, DOI: 10.1002/ajpa.23046.Peer-Reviewed Original ResearchConceptsSweet proteinNew sequence dataAmino acid sitesSeed dispersersProtein evolutionAccelerated evolutionBiochemical mimicryPrimate lineageGorilla lineagePositive selectionSequence dataGorilla dietCaloric gainArms raceWestern gorillasBrazzeinAfrican primatesProteinLineagesCoevolutionPentadiplandra brazzeanaLocal plantsSpeciesSweet signalsMutations
2015
Description of a New Galapagos Giant Tortoise Species (Chelonoidis; Testudines: Testudinidae) from Cerro Fatal on Santa Cruz Island
Poulakakis N, Edwards D, Chiari Y, Garrick R, Russello M, Benavides E, Watkins-Colwell G, Glaberman S, Tapia W, Gibbs J, Cayot L, Caccone A. Description of a New Galapagos Giant Tortoise Species (Chelonoidis; Testudines: Testudinidae) from Cerro Fatal on Santa Cruz Island. PLOS ONE 2015, 10: e0138779. PMID: 26488886, PMCID: PMC4619298, DOI: 10.1371/journal.pone.0138779.Peer-Reviewed Original ResearchConceptsMultiple independent evolutionary lineagesGiant tortoise speciesIndependent evolutionary lineagesCompelling genetic evidenceGalapagos tortoisesRank of speciesSanta Cruz IslandGenetic distinctivenessAnalysis of DNAEvolutionary lineagesEvolutionary relationshipsNatural populationsDNA charactersDistinct lineagesIsland of originTaxonomic revisionMorphological charactersMuseum specimensNew speciesGenetic evidenceTortoise speciesLineagesSpeciesTortoisesType specimen
2014
Lineage fusion in Galápagos giant tortoises
Garrick R, Benavides E, Russello M, Hyseni C, Edwards D, Gibbs J, Tapia W, Ciofi C, Caccone A. Lineage fusion in Galápagos giant tortoises. Molecular Ecology 2014, 23: 5276-5290. PMID: 25223395, DOI: 10.1111/mec.12919.Peer-Reviewed Original ResearchConceptsLineage fusionGiant tortoise speciesGalápagos giant tortoisesWidespread introgressive hybridizationLong generation timesWolf VolcanoCryptic lineagesReticulate evolutionIntrogressive hybridizationLineage splittingMicrosatellite dataGalápagos tortoisesPopulation geneticsEvolutionary phenomenaMate selectivityTortoise speciesGiant tortoisesLineagesGeneration timeRapid extinctionTortoisesPurebred femalesFusionIslandsHistorical reconstruction
2012
Genetic rediscovery of an ‘extinct’ Galápagos giant tortoise species
Garrick R, Benavides E, Russello M, Gibbs J, Poulakakis N, Dion K, Hyseni C, Kajdacsi B, Márquez, Bahan S, Ciofi C, Tapia W, Caccone A. Genetic rediscovery of an ‘extinct’ Galápagos giant tortoise species. Current Biology 2012, 22: r10-r11. PMID: 22240469, DOI: 10.1016/j.cub.2011.12.004.Peer-Reviewed Original ResearchConceptsFloreana IslandHybrid individualsGiant tortoise speciesUnique evolutionary lineagesGiant Galápagos tortoisesCaptive breeding programsEvolutionary lineagesGalápagos tortoisesHybrid offspringExtinct speciesGenetic footprintsTortoise speciesBreeding programsGalápagos IslandsGenetic signaturesExtant individualsIsabela IslandGenomeSpeciesMixed ancestryTortoisesAncestryIslandsLineagesLikely mechanism
2009
Morphometrics Parallel Genetics in a Newly Discovered and Endangered Taxon of Galápagos Tortoise
Chiari Y, Hyseni C, Fritts T, Glaberman S, Marquez C, Gibbs J, Claude J, Caccone A. Morphometrics Parallel Genetics in a Newly Discovered and Endangered Taxon of Galápagos Tortoise. PLOS ONE 2009, 4: e6272. PMID: 19609441, PMCID: PMC2707613, DOI: 10.1371/journal.pone.0006272.Peer-Reviewed Original ResearchConceptsGalápagos tortoisesGenetic variationGenetic distinctionTortoise populationsNon-neutral lociStrong genetic differentiationComplex heritable traitsDiagnostic morphological charactersShell morphologyShell shape variationGenetic differentiationMitochondrial dataMonophyletic lineageMorphological charactersGiant tortoisesHeritable traitGenetic dataMost islandsSanta CruzMolecular studiesShell shapeTurtle shellTortoisesLineagesParallel Genetic
2006
Mitochondrial DNA from Hemlock Woolly Adelgid (Hemiptera: Adelgidae) Suggests Cryptic Speciation and Pinpoints the Source of the Introduction to Eastern North America
Havill N, Montgomery M, Yu G, Shiyake S, Caccone A. Mitochondrial DNA from Hemlock Woolly Adelgid (Hemiptera: Adelgidae) Suggests Cryptic Speciation and Pinpoints the Source of the Introduction to Eastern North America. Annals Of The Entomological Society Of America 2006, 99: 195-203. DOI: 10.1603/0013-8746(2006)099[0195:mdfhwa]2.0.co;2.Peer-Reviewed Original ResearchEastern North AmericaWestern North AmericaMitochondrial DNANatural rangeA. tsugaeNorth AmericaCryptic speciationMitochondrial lineagesHemlock Woolly AdelgidTsuga speciesPhylogenetic analysisSingle haplotypeT. sieboldiiIntroduced pestMultiple haplotypesAdelges tsugae AnnandAdelgidWoolly AdelgidGeographic originMolecular methodsSouthern JapanLineagesHigher elevationsSevere mortalityT. diversifolia
2005
A cryptic taxon of Galpagos tortoise in conservation peril
Russello M, Glaberman S, Gibbs J, Marquez C, Powell J, Caccone A. A cryptic taxon of Galpagos tortoise in conservation peril. Biology Letters 2005, 1: 287-290. PMID: 17148189, PMCID: PMC1617146, DOI: 10.1098/rsbl.2005.0317.Peer-Reviewed Original ResearchConceptsBiological diversityFormal taxonomic designationGenetic divergenceGalápagos tortoisesAccurate taxonomyDistinct lineagesTaxonomic investigationGenetic divisionTaxonomic designationsSingle taxonGiant tortoisesBad taxonomyEvolutionary heritageNew taxonTaxaAccessible islandsTortoisesHuman intellectual historyDiversityConservationSanta CruzTaxonomyLineagesGalápagosOrganisms
2003
Analysis of a Shift in Codon Usage in Drosophila
Powell JR, Sezzi E, Moriyama EN, Gleason JM, Caccone A. Analysis of a Shift in Codon Usage in Drosophila. Journal Of Molecular Evolution 2003, 57: s214-s225. PMID: 15008418, DOI: 10.1007/s00239-003-0030-3.Peer-Reviewed Original ResearchConceptsCodon usageD. melanogasterMutation biasSaltans species groupAmino acidsFour-fold degenerate sitesRelaxed selectionD. willistoniExtant speciesDrosophila willistoniSpecies groupsPosttranscriptional modificationsWobble positionDegenerate sitesFrozen accidentWillistoniLineagesRelative abundanceMelanogasterSpeciesTRNAGenesC compositionFurther insightDrosophila
2002
PHYLOGEOGRAPHY AND HISTORY OF GIANT GALAPAGOS TORTOISES
Caccone A, Gentile G, Gibbs JP, Fritts T, Snell HL, Betts J, Powell JR. PHYLOGEOGRAPHY AND HISTORY OF GIANT GALAPAGOS TORTOISES. Evolution 2002, 56: 2052-2066. PMID: 12449492, DOI: 10.1111/j.0014-3820.2002.tb00131.x.Peer-Reviewed Original ResearchConceptsMultiple colonizationsMaternal lineagesMitochondrial DNA sequence dataClear genetic differentiationDNA sequence dataSanta Cruz IslandBiological treasureComplex phylogeographyGenetic differentiationExtant islandsPinzón IslandMolecular clockDeep nodesExtant taxaSequence dataVolcan WolfYounger islandsInsular environmentsHuman transportPhylogeographyTortoise populationsTaxaIsabela IslandDistinct populationsLineagesPHYLOGEOGRAPHY AND HISTORY OF GIANT GALPAGOS TORTOISES
Caccone A, Gentile G, Gibbs J, Fritts T, Snell H, Betts J, Powell J. PHYLOGEOGRAPHY AND HISTORY OF GIANT GALPAGOS TORTOISES. Evolution 2002, 56: 2052-2066. DOI: 10.1554/0014-3820(2002)056[2052:pahogg]2.0.co;2.Peer-Reviewed Original ResearchMultiple colonizationsMaternal lineagesMitochondrial DNA sequence dataClear genetic differentiationDNA sequence dataSanta Cruz IslandBiological treasureComplex phylogeographyGenetic differentiationExtant islandsMolecular clockDeep nodesExtant taxaSequence dataVolcan WolfYounger islandsInsular environmentsHuman transportPhylogeographyTortoise populationsTaxaLineagesIsabela IslandDistinct populationsTortoises
1992
Complementary DNA-DNA hybridization in Drosophila
Caccone A, Gleason J, Powell J. Complementary DNA-DNA hybridization in Drosophila. Journal Of Molecular Evolution 1992, 34: 130-140. PMID: 1372940, DOI: 10.1007/bf00182390.Peer-Reviewed Original ResearchConceptsDNA-DNA hybridization experimentsSpecies of DrosophilaMost major lineagesDNA-DNA hybridizationSubgenus DrosophilaMelanogaster subgroupSubgenus SophophoraHawaiian DrosophilaObscura groupMonophyletic lineageExtant islandsWillistoni groupMajor lineagesAdult mRNADrosophilaPhylogenetic conclusionsHybridization experimentsLineagesComplementary DNAAmino acidsSophophoraMost groupsPhylogenyGenomeSubgenera