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Fourteen nuclear genes provide phylogenetic resolution for difficult nodes in the turtle tree of life.
Evolutionary Processes of Diversification in a Model Island Archipelago
An ongoing renaissance of species discovery is characterized and how a 25-year Pleistocene island connectivity paradigm continues to provide some explanatory power, but has been augmented by increased understanding of the archipelago's geological history and ecological gradients is described.
THE CHALLENGE OF SPECIES DELIMITATION AT THE EXTREMES: DIVERSIFICATION WITHOUT MORPHOLOGICAL CHANGE IN PHILIPPINE SUN SKINKS
- A. J. Barley, Jordan White, A. Diesmos, Rafe M. Brown
- Biology, Environmental ScienceEvolution; international journal of organic…
- 1 December 2013
It is found that species diversity is vastly underestimated in this unique evolutionary radiation of Southeast Asian lizards, and an extreme case where extensive genetic divergence among lineages has been accompanied by little to no differentiation in external morphology is found.
Sun skink diversification across the Indian–Southeast Asian biogeographical interface
- A. J. Barley, Aniruddha Datta-roy, K. P. Karanth, Rafe M. Brown
- Environmental Science, Biology
- 1 February 2015
This work combined extensive geographical and genetic sampling from across multiple biogeographical realms to examine the timing and location of diversification in Asian sun skinks, a clade characterized by problematic species boundaries and a particularly enigmatic evolutionary history.
Impact of Model Violations on the Inference of Species Boundaries Under the Multispecies Coalescent
Simulation is used to characterize the sensitivity of inference under the multispecies coalescent (MSC) to several violations of model assumptions thought to be common in empirical data, and the fit of the MSC model to empirical data in the context of species delimitation is assessed.
Assessing the performance of DNA barcoding using posterior predictive simulations
The success of DNA barcoding varies widely across DNA substitution models and that model choice has a substantial impact on the number of operational taxonomic units identified, illustrating the importance of considering both model selection and model adequacy in studies quantifying biodiversity.
Phylogenomics and species delimitation in the knob-scaled lizards of the genus Xenosaurus (Squamata: Xenosauridae) using ddRADseq data reveal a substantial underestimation of diversity.
Habitat structure directly affects aggression in convict cichlids Archocentrus nigrofasciatus
It is found that increased habitat structural complexity decreases aggressive behavior in convict cichlids, and both the average duration of a chasing bout and the number of bites directed at the subordinate fish increased when there was a low amount of structure, but thenumber of chases did not.
Phylogeography of a widespread lizard complex reflects patterns of both geographic and ecological isolation
- Levi N. Gray, A. J. Barley, S. Poe, R. C. Thomson, Adrián Nieto‐Montes de Oca, Ian J. Wang
- BiologyMolecular ecology
- 1 February 2019
Comparisons of parapatric sister lineages suggest that ecological niche divergence contributed to isolation by environment in this system, reflecting the natural history differences among populations in divergent environments.
Model-based species delimitation: are coalescent species reproductively isolated?
An empirical test of coalescent based and reproductive isolation based methods of inferring species boundaries are concordant for 77% of the species pairs, and it is found that the amount of prezygotic isolation between two species is a strong predictor of the posterior probability of species boundaries based on DNA sequence data, regardless of whether thespecies pairs are sympatrically or allopatrical distributed.