Journal ArticleDOI
Coalescent-based species delimitation in an integrative taxonomy
TLDR
Along with other tools and data types, coalescent-based species delimitation will play an important role in an integrative taxonomy that emphasizes the identification of species limits and the processes that have promoted lineage diversification.Abstract:
The statistical rigor of species delimitation has increased dramatically over the past decade. Coalescent theory provides powerful models for population genetic inference, and is now increasingly important in phylogenetics and speciation research. By applying probabilistic models, coalescent-based species delimitation provides clear and objective testing of alternative hypotheses of evolutionary independence. As acquisition of multilocus data becomes increasingly automated, coalescent-based species delimitation will improve the discovery, resolution, consistency, and stability of the taxonomy of species. Along with other tools and data types, coalescent-based species delimitation will play an important role in an integrative taxonomy that emphasizes the identification of species limits and the processes that have promoted lineage diversification.read more
Citations
More filters
Journal ArticleDOI
A general species delimitation method with applications to phylogenetic placements
TL;DR: The Poisson tree processes (PTP) model is introduced to infer putative species boundaries on a given phylogenetic input tree and yields more accurate results than de novo species delimitation methods.
Journal ArticleDOI
How to fail at species delimitation.
TL;DR: Researchers should apply a wide range of species delimitation analyses to their data and place their trust in delimitations that are congruent across methods, for in most contexts it is better to fail to delimit species than it is to falsely delimit entities that do not represent actual evolutionary lineages.
Journal ArticleDOI
Multispecies coalescent delimits structure, not species
Jeet Sukumaran,L. Lacey Knowles +1 more
TL;DR: It is shown that the multispecies coalescent diagnoses genetic structure, not species, and that it does not statistically distinguish structure associated with population isolation vs. species boundaries.
Journal ArticleDOI
Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation
Daniel L. Rabosky,Francesco Santini,Jonathan M. Eastman,Stephen A. Smith,Brian L. Sidlauskas,Jonathan Chang,Michael E. Alfaro +6 more
TL;DR: It is demonstrated that rates of species diversification are highly correlated with the rate of body size evolution across the 30,000+ living species of ray-finned fishes that comprise the majority of vertebrate biological diversity.
Journal ArticleDOI
The BPP program for species tree estimation and species delimitation
Ziheng Yang,Ziheng Yang +1 more
TL;DR: An overview and a tutorial of the BPP program, which is a Bayesian MCMC program for analyzing multi-locus genomic sequence data under the multispecies coalescent model, is provided.
References
More filters
Journal ArticleDOI
Species Concepts and Species Delimitation
TL;DR: A unified species concept can be achieved by treating existence as a separately evolving metapopulation lineage as the only necessary property of species and the former secondary species criteria as different lines of evidence relevant to assessing lineage separation.
Journal ArticleDOI
Gene Trees in Species Trees
TL;DR: When gene copies are sampled from various species, the gene tree relating these copies might disagree with the species phylogeny, and discord can arise from horizontal transfer, lineage sorting, and gene duplication and ex- tinction.
Journal ArticleDOI
Sequence-Based Species Delimitation for the DNA Taxonomy of Undescribed Insects
Joan Pons,Joan Pons,Timothy G. Barraclough,Timothy G. Barraclough,Jesús Gómez-Zurita,Jesús Gómez-Zurita,Anabela Cardoso,Anabela Cardoso,Daniel P. Duran,Steaphan Hazell,Steaphan Hazell,Sophien Kamoun,William D. Sumlin,Alfried P. Vogler,Alfried P. Vogler +14 more
TL;DR: In this paper, the authors use mitochondrial DNA variation to delimit species in a poorly known beetle radiation in the genus Rivacindela from arid Australia, using a new likelihood method that determines the point of transition from species-level (speciation and extinction) to population-level evolutionary processes.