The Interrelationships of Placental Mammals and the Limits of Phylogenetic Inference

ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes

(2015) Siavash Mirarab et al.   BIOINFORMATICS

Eocene primates of South America and the African origins of New World monkeys

(2015) Mariano Bond et al.   NATURE

Mandibular and dental characteristics of Late Triassic mammaliaformHaramiyaviaand their ramifications for basal mammal evolution

(2015) Zhe-Xi Luo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The phylogenetic utility and functional constraint of microRNA flanking sequences

(2015) N. J. Kenny et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent

(2015) Sebastien Roch et al.   THEORETICAL POPULATION BIOLOGY

Ancient Transposable Elements Transformed the Uterine Regulatory Landscape and Transcriptome during the Evolution of Mammalian Pregnancy

(2015) Vincent J. Lynch et al.   Cell Reports

Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses

(2015) Md Shamsuzzoha Bayzid et al.   PLoS One

Animal Phylogeny and Its Evolutionary Implications

(2014) Casey W. Dunn et al.   Annual Review of Ecology Evolution and Systematics

ASTRAL: genome-scale coalescent-based species tree estimation

(2014) S. Mirarab et al.   BIOINFORMATICS

Neither phylogenomic nor palaeontological data support a Palaeogene origin of placental mammals

(2014) M. dos Reis et al.   Biology Letters

Toward consilience in reptile phylogeny: miRNAs support an archosaur, not lepidosaur, affinity for turtles

(2014) Daniel J. Field et al.   EVOLUTION & DEVELOPMENT

Three new Jurassic euharamiyidan species reinforce early divergence of mammals

(2014) Shundong Bi et al.   NATURE

First cranial remains of a gondwanatherian mammal reveal remarkable mosaicism

(2014) David W. Krause et al.   NATURE

Trait-based diversification shifts reflect differential extinction among fossil taxa

(2014) Peter J. Wagner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Calibration uncertainty in molecular dating analyses: there is no substitute for the prior evaluation of time priors

(2014) R. C. M. Warnock et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Statistical binning enables an accurate coalescent-based estimation of the avian tree

(2014) S. Mirarab et al.   SCIENCE

Phylogeny, Paleontology, and Primates: Do Incomplete Fossils Bias the Tree of Life?

(2014) David J. Pattinson et al.   SYSTEMATIC BIOLOGY

Making the Impossible Possible: Rooting the Tree of Placental Mammals

(2013) E. C. Teeling et al.   MOLECULAR BIOLOGY AND EVOLUTION

Heterogeneous Models Place the Root of the Placental Mammal Phylogeny

(2013) Claire C. Morgan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Less Is More in Mammalian Phylogenomics: AT-Rich Genes Minimize Tree Conflicts and Unravel the Root of Placental Mammals

(2013) Jonathan Romiguier et al.   MOLECULAR BIOLOGY AND EVOLUTION

miRNAs: Small Genes with Big Potential in Metazoan Phylogenetics

(2013) James E. Tarver et al.   MOLECULAR BIOLOGY AND EVOLUTION

A new arboreal haramiyid shows the diversity of crown mammals in the Jurassic period

(2013) Xiaoting Zheng et al.   NATURE

A Jurassic mammaliaform and the earliest mammalian evolutionary adaptations

(2013) Chang-Fu Zhou et al.   NATURE

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

(2013) M. A. O'Leary et al.   SCIENCE

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Evolutionary Biology for the 21st Century

(2013) Jonathan B. Losos et al.   PLOS BIOLOGY

Global continental and ocean basin reconstructions since 200Ma

(2012) M. Seton et al.   EARTH-SCIENCE REVIEWS

The interpretation of hidden support in combined data phylogenetics

(2012) RICHARD S. THOMPSON et al.   JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH

Resolution of the laurasiatherian phylogeny: Evidence from genomic data

(2012) Mariana F. Nery et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Resolving conflict in eutherian mammal phylogeny using phylogenomics and the multispecies coalescent model

(2012) S. Song et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny

(2012) M. dos Reis et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Riccardiothallus devonicus gen. et sp. nov., the earliest simple thalloid liverwort from the Lower Devonian of Yunnan, China

(2012) Cai-Qing Guo et al.   REVIEW OF PALAEOBOTANY AND PALYNOLOGY

A Total-Evidence Approach to Dating with Fossils, Applied to the Early Radiation of the Hymenoptera

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysis

(2011) J. E. McCormack et al.   GENOME RESEARCH

Approximate Likelihood Calculation on a Phylogeny for Bayesian Estimation of Divergence Times

(2011) M. d. Reis et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transitional mammalian middle ear from a new Cretaceous Jehol eutriconodont

(2011) Jin Meng et al.   NATURE

Impacts of the Cretaceous Terrestrial Revolution and KPg Extinction on Mammal Diversification

(2011) R. W. Meredith et al.   SCIENCE

The Trouble with Topology: Phylogenies without Fossils Provide a Revisionist Perspective of Evolutionary History in Topological Analyses of Diversity

(2011) James E. Tarver et al.   SYSTEMATIC BIOLOGY

Best Practices for Justifying Fossil Calibrations

(2011) James F. Parham et al.   SYSTEMATIC BIOLOGY

Mammalian Evolution May not Be Strictly Bifurcating

(2010) B. M. Hallstrom et al.   MOLECULAR BIOLOGY AND EVOLUTION

Is evolutionary history repeatedly rewritten in light of new fossil discoveries?

(2010) J. E. Tarver et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mosaic retroposon insertion patterns in placental mammals

(2009) G. Churakov et al.   GENOME RESEARCH

A new scheme for the opening of the South Atlantic Ocean and the dissection of an Aptian salt basin

(2009) Trond H. Torsvik et al.   GEOPHYSICAL JOURNAL INTERNATIONAL

Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals

(2009) H. Nishihara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene tree discordance, phylogenetic inference and the multispecies coalescent

(2009) James H. Degnan et al.   TRENDS IN ECOLOGY & EVOLUTION

Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Data Sets

(2008) Arjun B. Prasad et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY