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Genomic and mitochondrial evidence of ancient isolations and extreme introgression in the four-lined snake

Current Zoology 2020年第1期66卷 99-111页

作者： Evanthia THANOU Panagiotis KORNILIOS Petros LYMBERAKIS adam d.leache department 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 mitochondrial and genomic phylogenies is an essential tool for investigating speciation processes,because each genome carries different inheritance properties and evolutionary ***,mitonuclear discordance may arise from ecological adaptation,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 distribution,separating populations of the Italian and Balkan Peninsulas,whereas several insular Aegean populations of significantly smaller body size(Cyclades island group and Skyros Island,Greece)are currently considered distinct *** constructed the species-tree phylogeny of this species utilizing genome-wide single nucleotide polymorphisms and a gene-tree based on complete cytochrome b sequences,aiming to detect convergence and discrepancies between biparentally and maternally inherited *** structuring,phylogenetic patterns and migration events among geographically defined lineages supported our hypothesis of isolation in multiple *** biogeographical barriers did not restrict subsequent dispersal,extensive genetic exchange occurred between mainland Balkan *** process has led to the mitochondrial sweep of an ancestral mitolineage that survived only in peripheral(East Greece)and insular populations(North Cyclades and Skyros).The Central Cyclades represent an ancient lineage for both molecular markers that emerged almost 3.3 *** their distinct morphology,insular *** populations should be the future focus of an extensive sampling,especially since the mitonuclear discordance observed in this species could be related to ecological adaptations,such as the island-dwarfism phenomenon.

关键词： Aegean Islands Elaphe quatuorlineata species-tree genome-wide SNPs mitochondrial introgression phylogeography refugia within refugia

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Uprooting phylogenetic uncertainty in coalescent species delimitation： A meta-analysis of empirical studies

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Current Zoology 2015年第5期61卷 866-873页

作者： Itzue W. C AVIEdES-SOLIS Nassima M. BOUZId Barbara L. BANBURY adam d. leache department 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 studies rely on the accurate quantification of biodiversity. In recent studies of taxonomically ambiguous groups, species boundaries are often determined based on multi-locus sequence data. Bayesian Phylogenetics and Phylogeography （BPP） is a coalescent-based method frequently used to delimit species; however, empirical studies suggest that the requirement of a user-specified guide tree biases the range of possible outcomes. We evaluate fifteen multi-locus datasets using the most recent iteration of BPP, which eliminates the need for a user-specified guide tree and reconstructs the species tree in synchrony with species delimitation （= unguided species delimitation）. We found that the number of species recovered with guided versus unguided species delimitation was the same except for two cases, and that posterior probabilities were generally lower for the unguided analyses as a result of searching across species trees in addition to species delimitation models. The guide trees used in previous studies were often discordant 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 tends to give higher posterior probabilities [Current Zoology 61 （5）： 866-873, 2015].

关键词： BPP Species delimitation Phylogeography Species tree

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