• Publications
  • Influence
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
Although reconstruction of the phylogeny of living birds has progressed tremendously in the last decade, the evolutionary history of Neoaves—a clade that encompasses nearly all living bird
When trees grow too long: investigating the causes of highly inaccurate bayesian branch-length estimates.
TLDR
It is demonstrated that inaccurate branch-length estimates result from either poor mixing of MCMC chains or posterior distributions with excessive weight at long tree lengths, and a formula is provided to calculate an exponential rate parameter for the branch- length prior that should eliminate inference of biased branch lengths in many cases.
Anchored hybrid enrichment for massively high-throughput phylogenomics.
TLDR
A new, cost-efficient, and rapid approach to obtaining data from hundreds of loci for potentially hundreds of individuals for deep and shallow phylogenetic studies, found that hybrid enrichment using conserved probes (anchored enrichment) can recover a large number of unlinked loci that are useful at a diversity of phylogenetic timescales.
The Effect of Ambiguous Data on Phylogenetic Estimates Obtained by Maximum Likelihood and Bayesian Inference
TLDR
The results of this study have major implications for all analyses that rely on accurate estimates of topology or branch lengths, including divergence time estimation, ancestral state reconstruction, tree-dependent comparative methods, rate variation analysis, phylogenetic hypothesis testing, and phylogeographic analysis.
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
TLDR
The results of the divergence time analyses are congruent with the palaeontological record, supporting a major radiation of crown birds in the wake of the Cretaceous–Palaeogene (K–Pg) mass extinction.
Diversification of Conspecific Signals in Sympatry: Geographic Overlap Drives Multidimensional Reproductive Character Displacement in Frogs
  • E. Lemmon
  • Biology, Medicine
    Evolution; international journal of organic…
  • 24 April 2009
TLDR
Patterns of acoustic signal divergence in two- and three-species assemblages of chorus frogs (Pseudacris) suggest that interactions between species can promote diversification within species, potentially contributing to reproductive isolation among conspecific populations.
High-Throughput Genomic Data in Systematics and Phylogenetics
TLDR
This review presents recent advances in laboratory methods for collection of high-throughput phylogenetic data and challenges and constraints for phylogenetic analysis of these data, and offers recommendations for the most promising protocols and data-analysis workflows currently available.
Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics.
TLDR
Many of S&G's criticisms of MSC models are invalidated when concatenation is appropriately viewed as a special case of the MSC, which in turn is aSpecial case of emerging network models in phylogenomics.
GEOLOGICAL AND CLIMATIC FORCES DRIVING SPECIATION IN THE CONTINENTALLY DISTRIBUTED TRILLING CHORUS FROGS (PSEUDACRIS)
TLDR
It is found that by reducing gene flow, rivers have the potential to cause divergence of lineages, and populations in areas affected by Quaternary glaciation and aridification have reduced levels of genetic variation compared to those from more equable regions, suggesting recent colonization.
A likelihood framework for estimating phylogeographic history on a continuous landscape.
TLDR
A new statistical framework is developed that can be used to both test a priori hypotheses and estimate phylogeographic history of a gene (and the statistical confidence in that history) in the absence of such hypotheses.
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