phytools: an R package for phylogenetic comparative biology (and other things)
- L. Revell
- Biology
- 1 April 2012
A new, multifunctional phylogenetics package, phytools, for the R statistical computing environment is presented, with a focus on phylogenetic tree-building in 2.1.
Size-Correction and Principal Components for Interspecific Comparative Studies
- L. Revell
- Biology, Environmental ScienceEvolution; international journal of organic…
- 1 December 2009
It is shown that ignoring phylogeny in preliminary transformations can result in significantly elevated variance and type I error in the authors' statistical estimators, even if subsequent analysis of the transformed data is performed using phylogenetic methods.
Phylogenetic signal and linear regression on species data
- L. Revell
- Biology
- 1 December 2010
1. A common procedure in the regression analysis of interspecies data is to first test the independent and dependent variables X and Y for phylogenetic signal, and then use the presence of signal in…
Phylogenetic signal, evolutionary process, and rate.
Individual-based numerical simulations on stochastic phylogenetic trees are used to clarify the relationship between phylogenetic signal, rate, and evolutionary process and recommend against interpretations of evolutionary process or rate based on estimates of phylogenetics signal.
Exceptional Convergence on the Macroevolutionary Landscape in Island Lizard Radiations
For Caribbean Anolis lizards, diversification on similar Simpsonian landscapes leads to striking convergence of entire faunas on four islands, indicating that the adaptive landscape may give rise to predictable evolutionary patterns in nature, that adaptive peaks may be stable over macroevolutionary time, and that available geographic area influences the ability of lineages to discover new adaptive peaks.
ECOLOGICAL OPPORTUNITY AND THE RATE OF MORPHOLOGICAL EVOLUTION IN THE DIVERSIFICATION OF GREATER ANTILLEAN ANOLES
- D. Mahler, L. Revell, R. Glor, J. Losos
- BiologyEvolution; international journal of organic…
- 1 September 2010
The results provide a complementary perspective, indicating that the rate of phenotypic diversification declines with decreasing opportunity in an adaptive radiation.
Two new graphical methods for mapping trait evolution on phylogenies
- L. Revell
- Biology
- 1 August 2013
Two different graphical methods for visualizing phenotypic evolution on the tree using a type of projection of the tree into morphospace called a ‘traitgram’ should prove useful in summarizing complex comparative inferences about ancestral character reconstruction.
A PHYLOGENETIC TEST FOR ADAPTIVE CONVERGENCE IN ROCK-DWELLING LIZARDS
- L. Revell, Michele A. Johnson, J. Schulte, J. Kolbe, J. Losos
- BiologyEvolution; international journal of organic…
- 1 December 2007
Rock-dwelling lizards exhibited similarities in head depth as a result of both adaptation and exaptation, and the existence of similar advantageous structures among species independently occupying the same environment may not indicate adaptation.
Rapid evolution of a native species following invasion by a congener
- Y. Stuart, T. Campbell, Paul A Hohenlohe, R. Reynolds, L. Revell, J. Losos
- Biology, Environmental ScienceScience
- 24 October 2014
On small islands in Florida, it is found that the lizard Anolis carolinensis moved to higher perches following invasion by Anolis sagrei and, in response, adaptively evolved larger toepads after only 20 generations, illustrating that interspecific interactions between closely related species can drive evolutionary change on observable time scales.
Genome-wide interrogation advances resolution of recalcitrant groups in the tree of life
- D. Arcila, G. Ortí, R. Betancur-R
- BiologyNature Ecology &Evolution
- 13 January 2017
GGI is shown to be efficacy in resolving the controversial relationships within the largest freshwater fish radiation (Otophysi) based on newly generated DNA sequences for 1,051 loci from 225 species and supports the notion that ctenophores are the earliest-branching animal lineage, and adds insight into relationships within clades of yeasts, birds and mammals.
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