Mitonuclear discordance in wolf spiders: Genomic evidence for species integrity and introgression

A reassessment of explanations for discordant introgressions of mitochondrial and nuclear genomes

(2017) Timothée Bonnet et al.   EVOLUTION

Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations

(2017) Julian M. Catchen et al.   Molecular Ecology Resources

Assessing the potential of RAD-sequencing to resolve phylogenetic relationships within species radiations: The fly genus Chiastocheta (Diptera: Anthomyiidae) as a case study

(2017) Tomasz Suchan et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Cryptic speciation and gene flow in a migratory songbird Species Complex: Insights from the Red-Eyed Vireo ( Vireo olivaceus )

(2017) C.J. Battey et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

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

Development of a universal double-digest RAD sequencing approach for a group of nonmodel, ecologically and economically important insect and fish taxa

(2016) M. O. Burford Reiskind et al.   Molecular Ecology Resources

ddRAD-seq phylogenetics based on nucleotide, indel, and presence–absence polymorphisms: Analyses of two avian genera with contrasting histories

(2016) Jeffrey M. DaCosta et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

From writing to reading the encyclopedia of life

(2016) Paul D. N. Hebert et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Species-Level Para- and Polyphyly in DNA Barcode Gene Trees: Strong Operational Bias in European Lepidoptera

(2016) Marko Mutanen et al.   SYSTEMATIC BIOLOGY

Integrative Taxonomy Recognizes Evolutionary Units Despite Widespread Mitonuclear Discordance: Evidence from a Rotifer Cryptic Species Complex

(2016) Spiros Papakostas et al.   SYSTEMATIC BIOLOGY

Historical introgression among the American live oaks and the comparative nature of tests for introgression

(2015) Deren A. R. Eaton et al.   EVOLUTION

Negligible nuclear introgression despite complete mitochondrial capture between two species of chipmunks

(2015) Jeffrey M. Good et al.   EVOLUTION

Phylogenomic evidence for ancient hybridization in the genomes of living cats (Felidae)

(2015) Gang Li et al.   GENOME RESEARCH

Multiple endosymbiont infections and reproductive manipulations in a linyphiid spider population

(2015) M M Curry et al.   HEREDITY

Seascape genetics along environmental gradients in the Arabian Peninsula: insights from ddRAD sequencing of anemonefishes

(2015) Pablo Saenz-Agudelo et al.   MOLECULAR ECOLOGY

Genomic evidence of geographically widespread effect of gene flow from polar bears into brown bears

(2015) James A. Cahill et al.   MOLECULAR ECOLOGY

Untangling taxonomy: a DNA barcode reference library for Canadian spiders

(2015) Gergin A. Blagoev et al.   Molecular Ecology Resources

Assessing the utility of whole genome amplified DNA for next-generation molecular ecology

(2015) Christopher Blair et al.   Molecular Ecology Resources

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

The Application of DNA Barcodes for the Identification of Marine Crustaceans from the North Sea and Adjacent Regions

(2015) Michael J. Raupach et al.   PLoS One

PyRAD: assembly of de novo RADseq loci for phylogenetic analyses

(2014) Deren A. R. Eaton   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Application of RAD-based phylogenetics to complex relationships among variously related taxa in a species flock

(2014) Tetsumi Takahashi et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genotyping-by-sequencing as a tool to infer phylogeny and ancestral hybridization: A case study in Carex (Cyperaceae)

(2014) Marcial Escudero et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The incidence of species-level paraphyly in animals: A re-assessment

(2014) Howard A. Ross   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Transcontinental Challenge — A Test of DNA Barcode Performance for 1,541 Species of Canadian Noctuoidea (Lepidoptera)

(2014) Reza Zahiri et al.   PLoS One

Species boundaries of Pardosa concinna and P. lapponica (Araneae: Lycosidae) in the northern Nearctic: morphology and DNA barcodes

(2014) KATHRIN A. SIM et al.   ZOOTAXA

RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling

(2013) B. Arnold et al.   MOLECULAR ECOLOGY

Genetic Patterns in European Geometrid Moths Revealed by the Barcode Index Number (BIN) System

(2013) Axel Hausmann et al.   PLoS One

Introgression and Phenotypic Assimilation in Zimmerius Flycatchers (Tyrannidae): Population Genetic and Phylogenetic Inferences from Genome-Wide SNPs

(2013) Frank E. Rheindt et al.   SYSTEMATIC BIOLOGY

Characterization of whole genome amplified (WGA) DNA for use in genotyping assay development

(2012) Tao Han et al.   BMC GENOMICS

Diversity of tuco-tucos (Ctenomys, Rodentia) in the Northeastern wetlands from Argentina: mitochondrial phylogeny and chromosomal evolution

(2012) Diego A. Caraballo et al.   GENETICA

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

Exploring the effect of the Cardinium endosymbiont on spiders

(2012) A. STEFANINI et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Special features of RAD Sequencing data: implications for genotyping

(2012) John W. Davey et al.   MOLECULAR ECOLOGY

Genome-wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the Lake Victoria cichlid adaptive radiation

(2012) Catherine E. Wagner et al.   MOLECULAR ECOLOGY

The biogeography of mitochondrial and nuclear discordance in animals

(2012) DAVID P. L. TOEWS et al.   MOLECULAR ECOLOGY

Wolbachia and DNA Barcoding Insects: Patterns, Potential, and Problems

(2012) M. Alex Smith et al.   PLoS One

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

(2012) Joseph K. Pickrell et al.   PLoS Genetics

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Recurrent Introgression of Mitochondrial DNA Among Hares (Lepus spp.) Revealed by Species-Tree Inference and Coalescent Simulations

(2011) J. Melo-Ferreira et al.   SYSTEMATIC BIOLOGY

The Potential Role of Androgenesis in Cytoplasmic–Nuclear Phylogenetic Discordance

(2010) Shannon M. Hedtke et al.   SYSTEMATIC BIOLOGY

Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified

(2008) H. Song et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA