Synthesizing phylogenetic knowledge for ecological research

Predicting tropical insect herbivore abundance from host plant traits and phylogeny

(2012) Timothy J. S. Whitfeld et al.   ECOLOGY

Shocks to the system: community assembly of the oak savanna in a 40-year fire frequency experiment

(2012) Jeannine Cavender-Bares et al.   ECOLOGY

Phylogenetic diversity–area curves

(2012) Matthew R. Helmus et al.   ECOLOGY

Phylogenetic and functional characteristics of household yard floras and their changes along an urbanization gradient

(2012) Sonja Knapp et al.   ECOLOGY

Understanding angiosperm diversification using small and large phylogenetic trees

(2011) S. A. Smith et al.   AMERICAN JOURNAL OF BOTANY

Consequences of climate change on the tree of life in Europe

(2011) Wilfried Thuiller et al.   NATURE

Establishing a time-scale for plant evolution

(2011) John T. Clarke et al.   NEW PHYTOLOGIST

Conservative Supertrees

(2011) F. R. McMorris et al.   SYSTEMATIC BIOLOGY

Missing Data in Phylogenetic Analysis: Reconciling Results from Simulations and Empirical Data

(2011) John J. Wiens et al.   SYSTEMATIC BIOLOGY

Resolving Difficult Phylogenetic Questions: Why More Sequences Are Not Enough

(2011) Hervé Philippe et al.   PLOS BIOLOGY

Robinson-Foulds Supertrees

(2010) Mukul S Bansal et al.   Algorithms for Molecular Biology

The age and diversification of the angiosperms re-revisited

(2010) Charles D. Bell et al.   AMERICAN JOURNAL OF BOTANY

Phylogenomics with incomplete taxon coverage: the limits to inference

(2010) Michael J Sanderson et al.   BMC EVOLUTIONARY BIOLOGY

web2py for Scientific Applications

(2010) Massimo Di Pierro   COMPUTING IN SCIENCE & ENGINEERING

Phylogenetic community structure and phylogenetic turnover across space and edaphic gradients in western Amazonian tree communities

(2010) Paul V. A. Fine et al.   ECOGRAPHY

Functional trait and phylogenetic tests of community assembly across spatial scales in an Amazonian forest

(2010) Nathan J. B. Kraft et al.   ECOLOGICAL MONOGRAPHS

Guild-specific patterns of species richness and host specialization in plant-herbivore food webs from a tropical forest

(2010) Vojtech Novotny et al.   JOURNAL OF ANIMAL ECOLOGY

The phylogeny of advanced snakes (Colubroidea), with discovery of a new subfamily and comparison of support methods for likelihood trees

(2010) R. Alexander Pyron et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Advances in the Use of DNA Barcodes to Build a Community Phylogeny for Tropical Trees in a Puerto Rican Forest Dynamics Plot

(2010) W. John Kress et al.   PLoS One

An uncorrelated relaxed-clock analysis suggests an earlier origin for flowering plants

(2010) S. A. Smith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic analyses reveal the shady history of C4 grasses

(2010) E. J. Edwards et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deterministic tropical tree community turnover: evidence from patterns of functional beta diversity along an elevational gradient

(2010) N. G. Swenson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Species Selection Maintains Self-Incompatibility

(2010) E. E. Goldberg et al.   SCIENCE

Using Fossils to Break Long Branches in Molecular Dating: A Comparison of Relaxed Clocks Applied to the Origin of Angiosperms

(2010) Susana Magallón   SYSTEMATIC BIOLOGY

Phylogeny and Phylogenetic Nomenclature of the Campanulidae based on an Expanded Sample of Genes and Taxa

(2010) David C. Tank et al.   SYSTEMATIC BOTANY

Mega-phylogeny approach for comparative biology: an alternative to supertree and supermatrix approaches

(2009) Stephen A Smith et al.   BMC EVOLUTIONARY BIOLOGY

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III

(2009)   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

The merging of community ecology and phylogenetic biology

(2009) Jeannine Cavender-Bares et al.   ECOLOGY LETTERS

Phylogenetic signatures of facilitation and competition in successional communities

(2009) Miguel Verdú et al.   JOURNAL OF ECOLOGY

Plant DNA barcodes and a community phylogeny of a tropical forest dynamics plot in Panama

(2009) W. J. Kress et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Life history influences rates of climatic niche evolution in flowering plants

(2009) S. A. Smith et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Effect of Ambiguous Data on Phylogenetic Estimates Obtained by Maximum Likelihood and Bayesian Inference

(2009) Alan R. Lemmon et al.   SYSTEMATIC BIOLOGY

Sparse Supermatrices for Phylogenetic Inference: Taxonomy, Alignment, Rogue Taxa, and the Phylogeny of Living Turtles

(2009) Robert C. Thomson et al.   SYSTEMATIC BIOLOGY

PhyloWidget: web-based visualizations for the tree of life

(2008) G. E. Jordan et al.   BIOINFORMATICS

Phylocom: software for the analysis of phylogenetic community structure and trait evolution

(2008) Campbell O. Webb et al.   BIOINFORMATICS

Emerging patterns in the comparative analysis of phylogenetic community structure

(2008) S. M. VAMOSI et al.   MOLECULAR ECOLOGY

Broad phylogenomic sampling improves resolution of the animal tree of life

(2008) Casey W. Dunn et al.   NATURE

Evolutionary history and the effect of biodiversity on plant productivity

(2008) M. W. Cadotte et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic patterns of species loss in Thoreau's woods are driven by climate change

(2008) C. G. Willis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rates of Molecular Evolution Are Linked to Life History in Flowering Plants

(2008) S. A. Smith et al.   SCIENCE

The PhyLoTA Browser: Processing GenBank for Molecular Phylogenetics Research

(2008) Michael J. Sanderson et al.   SYSTEMATIC BIOLOGY

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY