Enlarged Multilocus Data set Provides Surprisingly Younger Time of Origin for the Plethodontidae, the Largest Family of Salamanders

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

(2014) Tianqi Zhu et al.   SYSTEMATIC BIOLOGY

Biogeographic Analysis Reveals Ancient Continental Vicariance and Recent Oceanic Dispersal in Amphibians

(2014) R. Alexander Pyron   SYSTEMATIC BIOLOGY

The Impact of the Rate Prior on Bayesian Estimation of Divergence Times with Multiple Loci

(2014) Mario Dos Reis et al.   SYSTEMATIC BIOLOGY

Heterochrony repolarized: a phylogenetic analysis of developmental timing in plethodontid salamanders

(2014) Ronald M Bonett et al.   EvoDevo

The enigmatic history of the European, Asian and American plethodontid salamanders

(2013) David B. Wake   AMPHIBIA-REPTILIA

A Versatile and Highly Efficient Toolkit Including 102 Nuclear Markers for Vertebrate Phylogenomics, Tested by Resolving the Higher Level Relationships of the Caudata

(2013) Xing Xing Shen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Biogeography and body size shuffling of aquatic salamander communities on a shifting refuge

(2013) R. M. Bonett et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

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

Estimating divergence dates and evaluating dating methods using phylogenomic and mitochondrial data in squamate reptiles

(2012) Daniel G. Mulcahy et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Resolution of ray-finned fish phylogeny and timing of diversification

(2012) T. J. Near 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

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Exploring Patterns and Extent of Bias in Estimating Divergence Time from Mitochondrial DNA Sequence Data in a Particular Lineage: A Case Study of Salamanders (Order Caudata)

(2011) Y. Zheng et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

A multigenic perspective on phylogenetic relationships in the largest family of salamanders, the Plethodontidae

(2011) David R. Vieites et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A large-scale phylogeny of Amphibia including over 2800 species, and a revised classification of extant frogs, salamanders, and caecilians

(2011) R. Alexander Pyron et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Divergence Time Estimation Using Fossils as Terminal Taxa and the Origins of Lissamphibia

(2011) R. Alexander Pyron   SYSTEMATIC BIOLOGY

A maximum pseudo-likelihood approach for estimating species trees under the coalescent model

(2010) Liang Liu et al.   BMC EVOLUTIONARY BIOLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

What Salamanders Have Taught Us About Evolution

(2009) David B. Wake   Annual Review of Ecology Evolution and Systematics

CAN PARALLEL DIVERSIFICATION OCCUR IN SYMPATRY? REPEATED PATTERNS OF BODY-SIZE EVOLUTION IN COEXISTING CLADES OF NORTH AMERICAN SALAMANDERS

(2009) Kenneth H. Kozak et al.   EVOLUTION

Higher-level salamander relationships and divergence dates inferred from complete mitochondrial genomes

(2009) Peng Zhang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Likelihood Method for Assessing Molecular Divergence Time Estimates and the Placement of Fossil Calibrations

(2009) R. Alexander Pyron   SYSTEMATIC BIOLOGY

A model of evolution and structure for multiple sequence alignment

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

Maximum Likelihood Inference of Geographic Range Evolution by Dispersal, Local Extinction, and Cladogenesis

(2008) Richard H. Ree et al.   SYSTEMATIC BIOLOGY

Biogeography and evolution of European cave salamanders, Hydromantes (Urodela: Plethodontidae), inferred from mtDNA sequences

(2007) S. Carranza et al.   JOURNAL OF BIOGEOGRAPHY