Title	Publication Date	Language	Citations
A Statistical Test for Host–Parasite Coevolution	2002/03/01	English	334
Detecting Hidden Diversification Shifts in Models of Trait-Dependent Speciation and Extinction	2016/03/25	English	334
Adding More Ecology into Species Delimitation: Ecological Niche Models and Phylogeography Help Define Cryptic Species in the Black Salamander (Aneides flavipunctatus)	2007/12/01	English	328
The Effect of Geographical Scale of Sampling on DNA Barcoding	2012/03/07	English	328
Evidence for Multiple Reversals of Asymmetric Mutational Constraints during the Evolution of the Mitochondrial Genome of Metazoa, and Consequences for Phylogenetic Inferences	2005/04/01	English	327
Genomic Outposts Serve the Phylogenomic Pioneers: Designing Novel Nuclear Markers for Genomic DNA Extractions of Lepidoptera	2008/04/01	English	324
A Phylogenetic Mixture Model for Detecting Pattern-Heterogeneity in Gene Sequence or Character-State Data	2004/08/01	English	322
The Effect of Ambiguous Data on Phylogenetic Estimates Obtained by Maximum Likelihood and Bayesian Inference	2009/02/01	English	320
Molecular Phylogenetics of Squamata: The Position of Snakes, Amphisbaenians, and Dibamids, and the Root of the Squamate Tree	2004/10/01	English	319
Estimating Species Phylogenies Using Coalescence Times among Sequences	2009/07/16	English	319
Between Two Extremes: Mitochondrial DNA is neither the Panacea nor the Nemesis of Phylogenetic and Taxonomic Inference	2005/12/01	English	318
The Unsolved Challenge to Phylogenetic Correlation Tests for Categorical Characters	2014/09/09	English	316
Phylogenetic Relationships of Agaric Fungi Based on Nuclear Large Subunit Ribosomal DNA Sequences	2000/06/01	English	316
The Utility of the Incongruence Length Difference Test	2002/07/01	English	311
Species Delimitation using Genome-Wide SNP Data	2014/03/12	English	309
Modeling Compositional Heterogeneity	2004/06/01	English	308
Missing Data in Phylogenetic Analysis: Reconciling Results from Simulations and Empirical Data	2011/03/28	English	308
Species Delimitation: New Approaches for Discovering Diversity	2007/12/01	English	306
Distances and Directions in Multidimensional Shape Spaces: Implications for Morphometric Applications	2005/08/01	English	303
Increased Taxon Sampling Is Advantageous for Phylogenetic Inference	2002/07/01	English	302
EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences	2018/09/21	English	298
Performance-Based Selection of Likelihood Models for Phylogeny Estimation	2003/10/01	English	298
Multivariate Regression Models and Geometric Morphometrics: The Search for Causal Factors in the Analysis of Shape	1999/03/01	English	296
Evolutionary Relationships Within the Ensatina Eschscholtzii Complex Confirm the Ring Species Interpretation	1992/09/01	English	296
Testing the Impact of Calibration on Molecular Divergence Times Using a Fossil-Rich Group: The Case of Nothofagus (Fagales)	2011/12/26	English	295
Phylogenetic Inference of Reciprocal Effects between Geographic Range Evolution and Diversification	2011/05/05	English	294
Testing and Quantifying Phylogenetic Signals and Homoplasy in Morphometric Data	2010/01/15	English	291
Accounting for Phylogenetic Uncertainty in Biogeography: A Bayesian Approach to Dispersal-Vicariance Analysis of the Thrushes (Aves: Turdus)	2008/04/01	English	290
Inferring Speciation Times under an Episodic Molecular Clock	2007/06/01	English	288
Applications of Ecological Niche Modeling for Species Delimitation: A Review and Empirical Evaluation Using Day Geckos (Phelsuma) from Madagascar	2007/12/01	English	282