• 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 birdExpand
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Profiling phylogenetic informativeness.
  • J. Townsend
  • Biology, Medicine
  • Systematic biology
  • 1 April 2007
The resolution of four controversial topics in phylogenetic experimental design hinges upon the informativeness of characters about the historical relationships among taxa. These controversies regardExpand
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Horizontal gene transfer, genome innovation and evolution
To what extent is the tree of life the best representation of the evolutionary history of microorganisms? Recent work has shown that, among sets of prokaryotic genomes in which most homologous genesExpand
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Phylogenetic and phylogenomic overview of the Polyporales
We present a phylogenetic and phylogenomic overview of the Polyporales. The newly sequenced genomes of Bjerkandera adusta, Ganoderma sp., and Phlebia brevispora are introduced and an overview of 10Expand
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The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits.
We present a 6-gene, 420-species maximum-likelihood phylogeny of Ascomycota, the largest phylum of Fungi. This analysis is the most taxonomically complete to date with species sampled from all 15Expand
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Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments
BackgroundMethods of microarray analysis that suit experimentalists using the technology are vital. Many methodologies discard the quantitative results inherent in cDNA microarray comparisons orExpand
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Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi
The claim that eukaryotic micro-organisms have global geographic ranges, constituting a significant departure from the situation with macro-organisms, has been supported by studies of morphologicalExpand
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Strategies for containing Ebola in West Africa
The ongoing Ebola outbreak poses an alarming risk to the countries of West Africa and beyond. To assess the effectiveness of containment strategies, we developed a stochastic model of EbolaExpand
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Population structure and gene evolution in Saccharomyces cerevisiae.
The fully sequenced genomes of four species within the Saccharomyces sensu stricto complex provide a wealth of information for molecular-evolutionary inference. Yet virtually nothing is known aboutExpand
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PhyDesign: an online application for profiling phylogenetic informativeness
BackgroundThe rapid increase in number of sequenced genomes for species across of the tree of life is revealing a diverse suite of orthologous genes that could potentially be employed to informExpand
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