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Data from: Species delimitation and phylogeny in the genus Nasutitermes (Termitidae: Nasutitermitinae) in French Guiana
- 负责人：
- DOI：
- doi:10.5061/dryad.gh317
- 摘要：
- with exploratory species-delimitation tools, using the automatic barcode gap discovery method (ABGD) and a generalized mixed Yule-coalescent model (GMYC) to propose
Data from: Spatial heterogeneity in the Mediterranean Biodiversity Hotspot affects barcoding accuracy of its freshwater fishes
- 负责人：
- DOI：
- doi:10.5061/dryad.6fd1n
- 摘要：
- of barcode clusters with morphological determination was strongly dependent on the method of cluster delineation, but was highest with the GMYC
Data from: Molecular species-delimitation methods recover most song-delimited cicada species in the European Cicadetta montana complex
- 负责人：
- DOI：
- doi:10.5061/dryad.7db58
- 摘要：
- ral mixed Yule-coalescent (GMYC) and Bayesian Phylogenetics and Phylogeography (BPP), identified the majority of song-delimited species and were lar
Data from: A preliminary framework for DNA barcoding, incorporating the multispecies coalescent
- 负责人：
- DOI：
- doi:10.5061/dryad.st467
- 摘要：
- programs (e.g., BEST, BPP, *BEAST, MrBayes v. 3.2, STEM, and COAL). Although the general mixed Yule coalescent (GMYC) approach has also been developed
Data from: The challenge of species delimitation at the extremes: diversification without morphological change in Philippine sun skinks
- 负责人：
- DOI：
- doi:10.5061/dryad.307g0
- 摘要：
- Species represent one of the fundamental units of the evolutionary process, and an accurate understanding of species diversity is essential to studies across a wide range of biological subdisciplines. However, delimiting species remains challenging in evolutionary radiations where morphological diversification is rapid and accompanied by little genetic differentiation or when genetic lineage divergence is not accompanied by morphological change. We investigate the utility of a variety of recently developed approaches to examine genetic and morphological diversity, and delimit species in a morphologically conserved group of Southeast Asian lizards. We find that species diversity is vastly underestimated in this unique evolutionary radiation, and find an extreme case where extensive genetic divergence among lineages has been accompanied by little to no differentiation in external morphology. Although we note that different conclusions can be drawn when species are delimited using molecular phylogenetics, coalescent-based methods, or morphological data, it is clear that the use of a pluralistic approach leads to a more comprehensive appraisal of biodiversity, and greater appreciation for processes of diversification in this biologically important geographic region. Similarly, our approach demonstrates how recently developed methodologies can be utilized to obtain robust estimates of species limits in “non-adaptive” or “cryptic” evolutionary radiations.
Data from: Barcoding snakeheads (Teleostei, Channidae) revisited: discovering greater species diversity and resolving perpetuated taxonomic confusions
- 负责人：
- DOI：
- doi:10.5061/dryad.7h0g6
- 摘要：
- r, able to solve these cases of perpetuated taxonomic confusion. Different species delimitation approaches we employed (BIN, GMYC, and PTP) were congruent
, Ascomycota)
- 负责人：
- 关键词：
- DOI：
- doi:10.5061/dryad.5k7b5
- 摘要：
- : the “Automatic Barcode Gap Discovery” (ABGD), the Poisson tree process model (PTP), the General Mixed Yule Coalescent (GMYC), and the multispecies coalescent
Data from: Sex-biased dispersal obscures species boundaries in integrative species delimitation approaches
- 负责人：
- DOI：
- doi:10.5061/dryad.g97d432
- 摘要：
- r, this phenomenon has never been examined using empirical data. We evaluate the bias introduced by extreme female philopatry on a range of de novo (GMYC, PTP, ABGD
Data from: Assessing species boundaries using multilocus species delimitation in a morphologically conserved group of Neotropical freshwater fishes, the Poecilia sphenops species complex (Poeciliidae)
- 负责人：
- DOI：
- doi:10.5061/dryad.m1g3v
- 摘要：
- Accurately delimiting species is fundamentally important for understanding species diversity and distributions and devising effective strategies to conserve biodiversity. However, species delimitation is problematic in many taxa, including ‘non-adaptive radiations’ containing morphologically cryptic lineages. Fortunately, coalescent-based species delimitation methods hold promise for objectively estimating species limits in such radiations, using multilocus genetic data. Using coalescent-based approaches, we delimit species and infer evolutionary relationships in a morphologically conserved group of Central American freshwater fishes, the Poecilia sphenops species complex. Phylogenetic analyses of multiple genetic markers (sequences of two mitochondrial DNA genes and five nuclear loci) from 10/15 species and genetic lineages recognized in the group support the P. sphenops species complex as monophyletic with respect to outgroups, with eight mitochondrial ‘major-lineages’ diverged by ?2% pairwise genetic distances. From general mixed Yule-coalescent models, we discovered (conservatively) 10 species within our concatenated mitochondrial DNA dataset, 9 of which were strongly supported by subsequent multilocus Bayesian species delimitation and species tree analyses. Results suggested species-level diversity is underestimated or overestimated by at least ~15% in different lineages in the complex. Nonparametric statistics and coalescent simulations indicate genealogical discordance among our gene tree results has mainly derived from interspecific hybridization in the nuclear genome. However, mitochondrial DNA show little evidence for introgression, and our species delimitation results appear robust to effects of this process. Overall, our findings support the utility of combining multiple lines of genetic evidence and broad phylogeographical sampling to discover and validate species using coalescent-based methods. Our study also highlights the importance of testing for hybridization versus incomplete lineage sorting, which aids inference of not only species limits but also evolutionary processes influencing genetic diversity.
