Molecular phylogenies map to biogeography better than morphological ones

The Ediacaran Origin of Ecdysozoa: Integrating Fossil and Phylogenomic Data

(2022) Richard J. Howard et al.   JOURNAL OF THE GEOLOGICAL SOCIETY

Testing the Utility of Alternative Metrics of Branch Support to Address the Ancient Evolutionary Radiation of Tunas, Stromateoids, and Allies (Teleostei: Pelagiaria)

(2021) Dahiana Arcila et al.   SYSTEMATIC BIOLOGY

Morphology and Bayesian tip-dating recover deep Cretaceous-age divergences among major chrysidid lineages (Hymenoptera: Chrysididae)

(2021) Daercio A A Lucena et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Morphological phylogenetics evaluated using novel evolutionary simulations

(2020) Joseph N Keating et al.   SYSTEMATIC BIOLOGY

Adaptive innovation of green plants by horizontal gene transfer

(2020) Rujia Chen et al.   BIOTECHNOLOGY ADVANCES

Homoplasy-based partitioning outperforms alternatives in Bayesian analysis of discrete morphological data

(2019) Brunno B Rosa et al.   SYSTEMATIC BIOLOGY

The geometry of habitat fragmentation: Effects of species distribution patterns on extinction risk due to habitat conversion

(2019) Felix May et al.   Ecology and Evolution

Exploring potential establishment of marine rafting species after transoceanic long-distance dispersal

(2019) Christina Simkanin et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Bayesian and parsimony approaches reconstruct informative trees from simulated morphological datasets

(2019) Martin R. Smith   Biology Letters

Phylogenetic incongruence and homoplasy in the appendages and bodies of arthropods: why broad character sampling is best

(2019) Andrew R Brinkworth et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Parsimony, not Bayesian analysis, recovers more stratigraphically congruent phylogenetic trees

(2018) Robert S. Sansom et al.   Biology Letters

A molecular phylogeny of selligueoid ferns (Polypodiaceae): Implications for a natural delimitation despite homoplasy and rapid radiation

(2018) Lijuan He et al.   TAXON

Phylogeny, biogeography and diversification patterns of side-necked turtles (Testudines: Pleurodira)

(2018) Gabriel S. Ferreira et al.   Royal Society Open Science

Improvements in the fossil record may largely resolve current conflicts between morphological and molecular estimates of mammal phylogeny

(2018) Robin M. D. Beck et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Comparison of different strategies for using fossil calibrations to generate the time prior in Bayesian molecular clock dating

(2017) Jose Barba-Montoya et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Archaea and the origin of eukaryotes

(2017) Laura Eme et al.   NATURE REVIEWS MICROBIOLOGY

Probabilistic methods surpass parsimony when assessing clade support in phylogenetic analyses of discrete morphological data

(2017) Joseph E. O'Reilly et al.   PALAEONTOLOGY

Differences between hard and soft phylogenetic data

(2017) Robert S. Sansom et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Past Sure is Tense: On Interpreting Phylogenetic Divergence Time Estimates

(2017) Joseph W Brown et al.   SYSTEMATIC BIOLOGY

Is geography an accurate predictor of evolutionary history in the millipede family Xystodesmidae?

(2017) Jackson C. Means et al.   PeerJ

Bayesian methods outperform parsimony but at the expense of precision in the estimation of phylogeny from discrete morphological data

(2016) Joseph E. O'Reilly et al.   Biology Letters

The sequence of sequencers: The history of sequencing DNA

(2016) James M. Heather et al.   GENOMICS

Measuring Stratigraphic Congruence Across Trees, Higher Taxa, and Time

(2016) Anne O'Connor et al.   SYSTEMATIC BIOLOGY

The definition, recognition, and interpretation of convergent evolution, and two new measures for quantifying and assessing the significance of convergence

(2015) C. Tristan Stayton   EVOLUTION

Post-molecular systematics and the future of phylogenetics

(2015) R. Alexander Pyron   TRENDS IN ECOLOGY & EVOLUTION

What limits the morphological disparity of clades?

(2015) Jack W. Oyston et al.   Interface Focus

HIGH RATES OF EVOLUTION PRECEDED THE ORIGIN OF BIRDS

(2014) Mark N. Puttick et al.   EVOLUTION

The drivers of tropical speciation

(2014) Brian Tilston Smith et al.   NATURE

Horizontal gene acquisitions by eukaryotes as drivers of adaptive evolution

(2013) Gerald Schönknecht et al.   BIOESSAYS

The Placental Mammal Ancestor and the Post-K-Pg Radiation of Placentals

(2013) M. A. O'Leary et al.   SCIENCE

Fossilization causes organisms to appear erroneously primitive by distorting evolutionary trees

(2013) Robert S. Sansom et al.   Scientific Reports

The global diversity of birds in space and time

(2012) W. Jetz et al.   NATURE

Phylogenetic Methods in Biogeography

(2011) Fredrik Ronquist et al.   Annual Review of Ecology Evolution and Systematics

Problematic character coding methods in morphology and their effects

(2011) MARTIN D. BRAZEAU   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Of mites and millipedes: Recent progress in resolving the base of the arthropod tree

(2010) Jason Caravas et al.   BIOESSAYS

Weighted bootstrapping: a correction method for assessing the robustness of phylogenetic trees

(2010) Vladimir Makarenkov et al.   BMC EVOLUTIONARY BIOLOGY

An analysis of the equilibrium of migration models for biogeography-based optimization

(2010) Haiping Ma   INFORMATION SCIENCES

Trees before and after Darwin

(2010) Pascal Tassy   JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH

Arthropod relationships revealed by phylogenomic analysis of nuclear protein-coding sequences

(2010) Jerome C. Regier et al.   NATURE

Biogeography and climatic change as a context to human dispersal out of Africa and within Eurasia

(2010) Jan van der Made   QUATERNARY SCIENCE REVIEWS

The new framework for understanding placental mammal evolution

(2009) Robert J. Asher et al.   BIOESSAYS

Molecular evolution of dengue viruses: Contributions of phylogenetics to understanding the history and epidemiology of the preeminent arboviral disease

(2009) Scott C. Weaver et al.   INFECTION GENETICS AND EVOLUTION

Stratocladistics: Integrating Temporal Data and Character Data in Phylogenetic Inference

(2008) Daniel C. Fisher   Annual Review of Ecology Evolution and Systematics

Broad phylogenomic sampling improves resolution of the animal tree of life

(2008) Casey W. Dunn et al.   NATURE

Improvement of molecular phylogenetic inference and the phylogeny of Bilateria

(2008) N. Lartillot et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Modified Gap Excess Ratio (GER*) and the Stratigraphic Congruence of Dinosaur Phylogenies

(2008) Matthew A. Wills et al.   SYSTEMATIC BIOLOGY