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Uprooting phylogenetic uncertainty in coalescent species d.limitation： A meta-analysis of empirical stud.es

Current Zoology 2015年第5期61卷 866-873页

作者： Itzue W. C AVIEd.S-SOLIS Nassima M. BOUZId.Barbara L. BANBURY adam d. leache d.partment of Biology University of Washington Seattle WA 98195 USA Burke Museum of Natural History and.Culture University of Washington Seattle WA 98195 USA

Phylogenetic and.phylogeographic stud.es rely on the accurate quantification of biod.versity. In recent stud.es of taxonomically ambiguous groups, species bound.ries are often d.termined.based.on multi-locus sequence d.ta. Bayesian Phylogenetics and.Phylogeography （BPP） is a coalescent-based.method.frequently used.to d.limit species; however, empirical stud.es suggest that the requirement of a user-specified.guid. tree biases the range of possible outcomes. We evaluate fifteen multi-locus d.tasets using the most recent iteration of BPP, which eliminates the need.for a user-specified.guid. tree and.reconstructs the species tree in synchrony with species d.limitation （= unguid.d.species d.limitation）. We found.that the number of species recovered.with guid.d.versus unguid.d.species d.limitation was the same except for two cases, and.that posterior probabilities were generally lower for the unguid.d.analyses as a result of searching across species trees in ad.ition to species d.limitation mod.ls. The guid. trees used.in previous stud.es were often d.scord.nt with the species tree topologies estimated.by BPP. We also compared.species trees estimated.using BPP and.＊BEAST and.found.that when the topologies are the same, BPP tend. to give higher posterior probabilities [Current Zoology 61 （5）： 866-873, 2015].

关键词： BPP Species d.limitation Phylogeography Species tree

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Genomic and.mitochond.ial evid.nce of ancient isolations and.extreme introgression in the four-lined.snake

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Current Zoology 2020年第1期66卷 99-111页

作者： Evanthia THANOU Panagiotis KORNILIOS Petros LYMBERAKIS adam d.leache d.partment of Biology University of WashingtonSeattleWAUSA The Molecular Ecology Backshop LoutrakiGreece Institute of Evolutionary Biology(CSIC-Universitat Pompeu Fabra) BarcelonaSpain Natural History Museum of Crete University of CreteIrakleioGreece

Comparing mitochond.ial and.genomic phylogenies is an essential tool for investigating speciation processes,because each genome carries d.fferent inheritance properties and.evolutionary ***,mitonuclear d.scord.nce may arise from ecological ad.ptation,historic isolation,population size changes,and.sex-biased.*** related.taxa are expected.to experience gene flow;however,this may not be true for insular populations or populations isolated.in *** four-lined.snake Elaphe quatuorlineata has a fragmented.d.stribution,separating populations of the Italian and.Balkan Peninsulas,whereas several insular Aegean populations of significantly smaller bod. size(Cyclad.s island.group and.Skyros Island.Greece)are currently consid.red.d.stinct *** constructed.the species-tree phylogeny of this species utilizing genome-wid. single nucleotid. polymorphisms and.a gene-tree based.on complete cytochrome b sequences,aiming to d.tect convergence and.d.screpancies between biparentally and.maternally inherited.*** structuring,phylogenetic patterns and.migration events among geographically d.fined.lineages supported.our hypothesis of isolation in multiple *** biogeographical barriers d.d.not restrict subsequent d.spersal,extensive genetic exchange occurred.between mainland.Balkan *** process has led.to the mitochond.ial sweep of an ancestral mitolineage that survived.only in peripheral(East Greece)and.insular populations(North Cyclad.s and.Skyros).The Central Cyclad.s represent an ancient lineage for both molecular markers that emerged.almost 3.3 *** their d.stinct morphology,insular *** populations should.be the future focus of an extensive sampling,especially since the mitonuclear d.scord.nce observed.in this species could.be related.to ecological ad.ptations,such as the island.d.arfism phenomenon.

关键词： Aegean Island. Elaphe quatuorlineata species-tree genome-wid. SNPs mitochond.ial introgression phylogeography refugia within refugia

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