Identifying hybrids & the genomics of hybridization: Mallards & American black ducks of Eastern North America

The breakdown of genomic ancestry blocks in hybrid lineages given a finite number of recombination sites

(2018) Thijs Janzen et al.   EVOLUTION

Elevated Proportions of Deleterious Genetic Variation in Domestic Animals and Plants

(2018) Takashi Makino et al.   Genome Biology and Evolution

Cryptic Biological Invasions: a General Model of Hybridization

(2018) Claudio S. Quilodrán et al.   Scientific Reports

Genomic consequences of a recent three-way admixture in supplemented wild brown trout populations revealed by local ancestry tracts

(2018) Maeva Leitwein et al.   MOLECULAR ECOLOGY

Admixture between released and wild game birds: a changing genetic landscape in European mallards (Anas platyrhynchos)

(2017) P. Söderquist et al.   EUROPEAN JOURNAL OF WILDLIFE RESEARCH

Domestication and fitness in the wild: A multivariate view

(2017) Jarle Tufto   EVOLUTION

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

(2017) Timothée Bonnet et al.   EVOLUTION

Gene flow and selection interact to promote adaptive divergence in regions of low recombination

(2017) Kieran Samuk et al.   MOLECULAR ECOLOGY

The K = 2 conundrum

(2017) Jasmine K. Janes et al.   MOLECULAR ECOLOGY

A Hidden Markov Model Approach for Simultaneously Estimating Local Ancestry and Admixture Time Using Next Generation Sequence Data in Samples of Arbitrary Ploidy

(2017) Russell Corbett-Detig et al.   PLoS Genetics

Population genomic data delineate conservation units in mottled ducks ( Anas fulvigula )

(2016) Jeffrey L. Peters et al.   BIOLOGICAL CONSERVATION

Efficient analysis of large datasets and sex bias with ADMIXTURE

(2016) Suyash S. Shringarpure et al.   BMC BIOINFORMATICS

Hybridization and extinction

(2016) Marco Todesco et al.   Evolutionary Applications

Becoming pure: identifying generational classes of admixed individuals within lesser and greater scaup populations

(2016) Philip Lavretsky et al.   MOLECULAR ECOLOGY

pophelper: an R package and web app to analyse and visualize population structure

(2016) R. M. Francis   Molecular Ecology Resources

Is it a mottled duck? The key is in the feathers

(2016) Ronald R. Bielefeld et al.   WILDLIFE SOCIETY BULLETIN

The Avian Hybrids Project: gathering the scientific literature on avian hybridization

(2015) Jente Ottenburghs et al.   IBIS

Genetic admixture supports an ancient hybrid origin of the endangered Hawaiian duck

(2015) P. Lavretsky et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Speciation genomics and a role for the Z chromosome in the early stages of divergence between Mexican ducks and mallards

(2015) Philip Lavretsky et al.   MOLECULAR ECOLOGY

Rapid radiation and hybridization contribute to weak differentiation and hinder phylogenetic inferences in the New World Mallard complex (Anasspp.)

(2014) Philip Lavretsky et al.   AUK

Exploring fall migratory patterns of American black ducks using eight decades of band-recovery data

(2014) Philip Lavretsky et al.   JOURNAL OF WILDLIFE MANAGEMENT

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluating the Use of ABBA–BABA Statistics to Locate Introgressed Loci

(2014) Simon H. Martin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Amplification Biases and Consistent Recovery of Loci in a Double-Digest RAD-seq Protocol

(2014) Jeffrey M. DaCosta et al.   PLoS One

Phylogenetics of a recent radiation in the mallards and allies (Aves: Anas): Inferences from a genomic transect and the multispecies coalescent

(2013) Philip Lavretsky et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Assessing the genetic impact of massive restocking on wild mallard

(2012) J. Champagnon et al.   ANIMAL CONSERVATION

Global lack of flyway structure in a cosmopolitan bird revealed by a genome wide survey of single nucleotide polymorphisms

(2012) Robert H. S. Kraus et al.   MOLECULAR ECOLOGY

Enhancements to the ADMIXTURE algorithm for individual ancestry estimation

(2011) David H Alexander et al.   BMC BIOINFORMATICS

Genome wide SNP discovery, analysis and evaluation in mallard (Anas platyrhynchos)

(2011) Robert HS Kraus et al.   BMC GENOMICS

The genes underlying the process of speciation

(2011) Patrik Nosil et al.   TRENDS IN ECOLOGY & EVOLUTION

Comparing three different methods to detect selective loci using dominant markers

(2010) A. PÉREZ-FIGUEROA et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Natural selection in action during speciation

(2009) S. Via   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A quasi-Newton acceleration for high-dimensional optimization algorithms

(2009) Hua Zhou et al.   STATISTICS AND COMPUTING

Ecological explanations for (incomplete) speciation

(2009) Patrik Nosil et al.   TRENDS IN ECOLOGY & EVOLUTION

Gene flow and species delimitation

(2009) Rémy J. Petit et al.   TRENDS IN ECOLOGY & EVOLUTION

A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective

(2008) M. Foll et al.   GENETICS

Does gene flow destroy phylogenetic signal? The performance of three methods for estimating species phylogenies in the presence of gene flow

(2008) A ECKERT et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Detecting hybridization between wild species and their domesticated relatives

(2007) ETTORE RANDI   MOLECULAR ECOLOGY