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A Phylogenomic Study of Birds Reveals Their Evolutionary History
TLDR
This study examined ∼32 kilobases of aligned nuclear DNA sequences from 19 independent loci for 169 species, representing all major extant groups, and recovered a robust phylogeny from a genome-wide signal supported by multiple analytical methods.
Mitochondrial genomes and avian phylogeny: complex characters and resolvability without explosive radiations.
TLDR
By showing the avian tree is, in principle, resolvable, it is demonstrated that the radiation of birds is amenable to standard evolutionary analysis.
A molecular phylogeny of the pheasants and partridges suggests that these lineages are not monophyletic.
TLDR
The molecular phylogenetic analyses indicated that the pheasants and partridges arose through a rapid radiation, making it difficult to establish higher level relationships, but was able to establish six major lineages containing pheasant and partridge taxa.
Earth history and the passerine superradiation
TLDR
Recon reconstructing passerine evolutionary history and producing the most comprehensive time-calibrated phylogenetic hypothesis of the group, which suggests more complex mechanisms than temperature change or ecological opportunity have controlled macroscale patterns of passerine speciation.
Analysis of a Rapid Evolutionary Radiation Using Ultraconserved Elements: Evidence for a Bias in Some Multispecies Coalescent Methods.
TLDR
The results suggest that UCE data have excellent prospects for the resolution of difficult evolutionary radiations, though specific attention may need to be given to the details of the methods used to estimate species trees.
Phylogeny and Systematics of Lemnaceae, the Duckweed Family
TLDR
Combined data analysis confirms the monophyly of Landoltia, Lemna, Spirodela, Wolffia, and Wolffiella and establishes a single, well-resolved, maximum parsimony tree with 30/36 nodes supported by bootstrap values that exceed 90%.
Avoiding Missing Data Biases in Phylogenomic Inference: An Empirical Study in the Landfowl (Aves: Galliformes).
TLDR
These analyses provide a well-resolved phylogeny of landfowl, including strong support for previously problematic relationships such as those among junglefowl (Gallus), and clarify the position of two enigmatic galliform genera not sampled in previous molecular phylogenetic studies.
Phylogenomic evidence for multiple losses of flight in ratite birds
TLDR
A phylogenetic analyses of 20 unlinked nuclear genes reveal a genome-wide signal that unequivocally places tinamous within ratites, making ratites polyphyletic and suggesting multiple losses of flight.
Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling
TLDR
If incongruence among trees estimated using phylogenomic methods largely reflects problems with model fit developing more “biologically‐realistic” models is likely to be critical for efforts to reconstruct the tree of life.
Building the avian tree of life using a large-scale, sparse supermatrix.
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