Strategies for Partitioning Clock Models in Phylogenomic Dating: Application to the Angiosperm Evolutionary Timescale

Resolution of deep eudicot phylogeny and their temporal diversification using nuclear genes from transcriptomic and genomic datasets

(2017) Liping Zeng et al.   NEW PHYTOLOGIST

The ancestral flower of angiosperms and its early diversification

(2017) Hervé Sauquet et al.   Nature Communications

Estimating the number and assignment of clock models in analyses of multigene datasets

(2016) Sebastián Duchêne et al.   BIOINFORMATICS

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

(2016)   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Evolutionary timescale of monocots determined by the fossilized birth-death model using a large number of fossil records

(2016) Satoshi Eguchi et al.   EVOLUTION

Advances in Time Estimation Methods for Molecular Data

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices

(2016) Olga Chernomor et al.   SYSTEMATIC BIOLOGY

Five major shifts of diversification through the long evolutionary history of Magnoliidae (angiosperms)

(2015) Julien Massoni et al.   BMC EVOLUTIONARY BIOLOGY

Evaluating the Adequacy of Molecular Clock Models Using Posterior Predictive Simulations

(2015) David A. Duchêne et al.   MOLECULAR BIOLOGY AND EVOLUTION

A metacalibrated time-tree documents the early rise of flowering plant phylogenetic diversity

(2015) Susana Magallón et al.   NEW PHYTOLOGIST

Heterogeneous Rates of Molecular Evolution and Diversification Could Explain the Triassic Age Estimate for Angiosperms

(2015) Jeremy M. Beaulieu et al.   SYSTEMATIC BIOLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular-clock methods for estimating evolutionary rates and timescales

(2014) Simon Y. W. Ho et al.   MOLECULAR ECOLOGY

Using multiple relaxed-clock models to estimate evolutionary timescales from DNA sequence data

(2014) Sebastián Duchêne et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylotranscriptomic analysis of the origin and early diversification of land plants

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

Whole-genome analyses resolve early branches in the tree of life of modern birds

(2014) E. D. Jarvis et al.   SCIENCE

Characterization of the Uncertainty of Divergence Time Estimation under Relaxed Molecular Clock Models Using Multiple Loci

(2014) Tianqi Zhu et al.   SYSTEMATIC BIOLOGY

The changing face of the molecular evolutionary clock

(2014) Simon Y.W. Ho   TRENDS IN ECOLOGY & EVOLUTION

Resolution of deep angiosperm phylogeny using conserved nuclear genes and estimates of early divergence times

(2014) Liping Zeng et al.   Nature Communications

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

ClockstaR: choosing the number of relaxed-clock models in molecular phylogenetic analysis

(2013) Sebastián Duchêne et al.   BIOINFORMATICS

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Taller plants have lower rates of molecular evolution

(2013) Robert Lanfear et al.   Nature Communications

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

The unbearable uncertainty of Bayesian divergence time estimation

(2012) Mario DOS REIS et al.   Journal of Systematics and Evolution

Angiosperm phylogeny: 17 genes, 640 taxa

(2011) Douglas E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

The Patterns and Causes of Variation in Plant Nucleotide Substitution Rates

(2011) Brandon Gaut et al.   Annual Review of Ecology Evolution and Systematics

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

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

Establishing a time-scale for plant evolution

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

Recent Synchronous Radiation of a Living Fossil

(2011) N. S. Nagalingum et al.   SCIENCE

Testing the Impact of Calibration on Molecular Divergence Times Using a Fossil-Rich Group: The Case of Nothofagus (Fagales)

(2011) Hervé Sauquet et al.   SYSTEMATIC BIOLOGY

The age and diversification of the angiosperms re-revisited

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

Fossil Record and Age of the Asteridae

(2010) Marcela Martínez-Millán   BOTANICAL REVIEW

Tropidogyne, a New Genus of Early Cretaceous Eudicots (Angiospermae) from Burmese Amber

(2010) Kenton L. Chambers et al.   NOVON

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 analysis of 83 plastid genes further resolves the early diversification of eudicots

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

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

Relaxed Molecular Clocks, the Bias–Variance Trade-off, and the Quality of Phylogenetic Inference

(2009) Joel O. Wertheim et al.   SYSTEMATIC BIOLOGY

Angiosperm diversification through time

(2008) Susana Magallón et al.   AMERICAN JOURNAL OF BOTANY

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

(2008) S. A. Smith et al.   SCIENCE