Multispecies hybridization in birds

Divergent mitochondrial lineages arose within a large, panmictic population of the Savannah sparrow (Passerculus sandwichensis)

(2019) Phred M. Benham et al.   MOLECULAR ECOLOGY

Contrasted patterns of divergence and gene flow among five fish species in a Mongolian rift lake following glaciation

(2018) Ivana Roman et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Adaptive introgression: a plant perspective

(2018) Adriana Suarez-Gonzalez et al.   Biology Letters

Genetic structuring and secondary contact in the white-chested Amazilia hummingbird species complex

(2018) Flor Rodríguez-Gómez et al.   JOURNAL OF AVIAN BIOLOGY

Transgressive phenotypes and evidence of weak postzygotic isolation in F1 hybrids between closely related capuchino seedeaters

(2018) Leonardo Campagna et al.   PLoS One

A comprehensive genomic history of extinct and living elephants

(2018) Eleftheria Palkopoulou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares

(2018) Matthew R. Jones et al.   SCIENCE

Phenotypic and Genetic Structure Support Gene Flow Generating Gene Tree Discordances in an Amazonian Floodplain Endemic Species

(2018) Gregory Thom et al.   SYSTEMATIC BIOLOGY

Inferring Phylogenetic Networks Using PhyloNet

(2018) Dingqiao Wen et al.   SYSTEMATIC BIOLOGY

Supervised Machine Learning for Population Genetics: A New Paradigm

(2018) Daniel R. Schrider et al.   TRENDS IN GENETICS

Bayesian inference of phylogenetic networks from bi-allelic genetic markers

(2018) Jiafan Zhu et al.   PLoS Computational Biology

Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia

(2018) Daniel R. Schrider et al.   PLoS Genetics

Pervasive introgression facilitated domestication and adaptation in the Bos species complex

(2018) Dong-Dong Wu et al.   Nature Ecology & Evolution

Variation and constraints in hybrid genome formation

(2018) Anna Runemark et al.   Nature Ecology & Evolution

Bidirectional adaptive introgression between two ecologically divergent sparrow species

(2018) Jennifer Walsh et al.   EVOLUTION

A comparison of genomic islands of differentiation across three young avian species pairs

(2018) Darren E. Irwin et al.   MOLECULAR ECOLOGY

Recent chapters of Neotropical history overlooked in phylogeography: Shallow divergence explains phenotype and genotype uncoupling in Antilophia manakins

(2018) Fabio Raposo do Amaral et al.   MOLECULAR ECOLOGY

A tutorial on how not to over-interpret STRUCTURE and ADMIXTURE bar plots

(2018) Daniel J. Lawson et al.   Nature Communications

Population and Subspecies Differentiation in a High Latitude Breeding Wader, the Common Ringed Plover Charadrius hiaticula

(2018)   ARDEA

A wood-warbler produced through both interspecific and intergeneric hybridization

(2018) David P. L. Toews et al.   Biology Letters

Incomplete lineage sorting and introgression in the diversification of Chinese spot-billed ducks and mallards

(2018) Wenjuan Wang et al.   Current Zoology

Reticulate evolution within a spruce ( Picea ) species complex revealed by population genomic analysis

(2018) Yongshuai Sun et al.   EVOLUTION

Local PCA Shows How the Effect of Population Structure Differs Along the Genome

(2018) Han Li et al.   GENETICS

Parallel plumage colour evolution and introgressive hybridization in wheatears

(2018) Manuel Schweizer et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Exploring the hybrid speciation continuum in birds

(2018) Jente Ottenburghs   Ecology and Evolution

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

(2017) Timothée Bonnet et al.   EVOLUTION

Exploring Evolutionary Relationships Across the Genome Using Topology Weighting

(2017) Simon H. Martin et al.   GENETICS

Dissecting differentiation landscapes: a linked selection's perspective

(2017) R. Burri   JOURNAL OF EVOLUTIONARY BIOLOGY

PhyloNetworks: A Package for Phylogenetic Networks

(2017) Claudia Solís-Lemus et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bayesian Inference of Species Networks from Multilocus Sequence Data

(2017) Chi Zhang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic differentiation and patterns of gene flow between two long-tailed tit species (Aegithalos )

(2017) Dezhi Zhang et al.   MOLECULAR ECOLOGY

Evolution of novel mimicry rings facilitated by adaptive introgression in tropical butterflies

(2017) Juan Enciso-Romero et al.   MOLECULAR ECOLOGY

Perpendicular axes of differentiation generated by mitochondrial introgression

(2017) Hernán E. Morales et al.   MOLECULAR ECOLOGY

Isolation with asymmetric gene flow during the nonsynchronous divergence of dry forest birds

(2017) Jessica A. Oswald et al.   MOLECULAR ECOLOGY

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

Coestimating Reticulate Phylogenies and Gene Trees from Multilocus Sequence Data

(2017) Dingqiao Wen et al.   SYSTEMATIC BIOLOGY

Adaptive Genetic Exchange: A Tangled History of Admixture and Evolutionary Innovation

(2017) Michael L. Arnold et al.   TRENDS IN ECOLOGY & EVOLUTION

Exploring Evolutionary Relationships Across the Genome Using Topology Weighting

(2017) Simon H. Martin et al.   GENETICS

Avian introgression in the genomic era

(2017) Jente Ottenburghs et al.   Avian Research

The genomic mosaicism of hybrid speciation

(2017) Tore O. Elgvin et al.   Science Advances

Birds in a bush: Toward an avian phylogenetic network

(2016) Jente Ottenburghs et al.   AUK

Patterns of gene flow and selection across multiple species of Acrocephalus warblers: footprints of parallel selection on the Z chromosome

(2016) Radka Reifová et al.   BMC EVOLUTIONARY BIOLOGY

Plumage Genes and Little Else Distinguish the Genomes of Hybridizing Warblers

(2016) David P.L. Toews et al.   CURRENT BIOLOGY

Pritchard, Stephens, and Donnelly on Population Structure

(2016) J. Novembre   GENETICS

Strong reproductive isolation and narrow genomic tracts of differentiation among three woodpecker species in secondary contact

(2016) Christine Grossen et al.   MOLECULAR ECOLOGY

Genomics of speciation and introgression in Princess cichlid fishes from Lake Tanganyika

(2016) Hugo F. Gante et al.   MOLECULAR ECOLOGY

Recurrent hybridization and recent origin obscure phylogenetic relationships within the ‘white-headed’ gull ( Larus sp.) complex

(2016) Sarah A. Sonsthagen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Making sense of genomic islands of differentiation in light of speciation

(2016) Jochen B. W. Wolf et al.   NATURE REVIEWS GENETICS

Reticulation, divergence, and the phylogeography–phylogenetics continuum

(2016) Scott V. Edwards et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex

(2016) Nagarjun Vijay et al.   Nature Communications

How reticulated are species?

(2015) James Mallet et al.   BIOESSAYS

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

(2015) Jente Ottenburghs et al.   IBIS

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

Quantitative trait locus mapping identifies candidate alleles involved in adaptive introgression and range expansion in a wild sunflower

(2015) Kenneth D. Whitney et al.   MOLECULAR ECOLOGY

Evolution of Darwin’s finches and their beaks revealed by genome sequencing

(2015) Sangeet Lamichhaney et al.   NATURE

Methods and models for unravelling human evolutionary history

(2015) Joshua G. Schraiber et al.   NATURE REVIEWS GENETICS

Evidence for archaic adaptive introgression in humans

(2015) Fernando Racimo et al.   NATURE REVIEWS GENETICS

Detection and Polarization of Introgression in a Five-Taxon Phylogeny

(2015) James B. Pease et al.   SYSTEMATIC BIOLOGY

Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data

(2015) Alexander Nater et al.   SYSTEMATIC BIOLOGY

Bears in a Forest of Gene Trees: Phylogenetic Inference Is Complicated by Incomplete Lineage Sorting and Gene Flow

(2014) Verena E. Kutschera et al.   MOLECULAR BIOLOGY AND EVOLUTION

Testing hypotheses of mitochondrial gene-tree paraphyly: unravelling mitochondrial capture of the Streak-breasted Scimitar Babbler (Pomatorhinus ruficollis) by the Taiwan Scimitar Babbler (Pomatorhinus musicus)

(2014) Feng Dong et al.   MOLECULAR ECOLOGY

Reanalysis suggests that genomic islands of speciation are due to reduced diversity, not reduced gene flow

(2014) Tami E. Cruickshank et al.   MOLECULAR ECOLOGY

Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA

(2014) Emilia Huerta-Sánchez et al.   NATURE

Genomics and the origin of species

(2014) Ole Seehausen et al.   NATURE REVIEWS GENETICS

The genomic landscape underlying phenotypic integrity in the face of gene flow in crows

(2014) J. W. Poelstra et al.   SCIENCE

Interspecific hybridization contributes to high genetic diversity and apparent effective population size in an endemic population of mottled ducks (Anas fulvigula maculosa)

(2013) Jeffrey L. Peters et al.   CONSERVATION GENETICS

MIGRATION, MITOCHONDRIA, AND THE YELLOW-RUMPED WARBLER

(2013) David P. L. Toews et al.   EVOLUTION

Ecology, song similarity and phylogeny predict natural hybridization in an avian family

(2013) Pamela M. Willis et al.   EVOLUTIONARY ECOLOGY

Extensive mitochondrial introgression in North American Great Black-backed Gulls (Larus marinus) from the American Herring Gull (Larus smithsonianus) with little nuclear DNA impact

(2013) J-M Pons et al.   HEREDITY

Hybridization and speciation

(2013) R. Abbott et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Adaptive introgression in animals: examples and comparison to new mutation and standing variation as sources of adaptive variation

(2013) Philip W. Hedrick   MOLECULAR ECOLOGY

Parsimonious Inference of Hybridization in the Presence of Incomplete Lineage Sorting

(2013) Yun Yu et al.   SYSTEMATIC BIOLOGY

Inferring Phylogeny and Introgression using RADseq Data: An Example from Flowering Plants (Pedicularis: Orobanchaceae)

(2013) Deren A. R. Eaton et al.   SYSTEMATIC BIOLOGY

Establishing a genetic system to distinguish between domestic Mallards, Pacific Black Ducks and their hybrids

(2013) A. Taysom et al.   Conservation Genetics Resources

Demographic Divergence History of Pied Flycatcher and Collared Flycatcher Inferred from Whole-Genome Re-sequencing Data

(2013) Krystyna Nadachowska-Brzyska et al.   PLoS Genetics

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

The biogeography of mitochondrial and nuclear discordance in animals

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

Butterfly genome reveals promiscuous exchange of mimicry adaptations among species

(2012) Kanchon K. Dasmahapatra et al.   NATURE

Extensive introgressive hybridization within the northern oriole group (GenusIcterus) revealed by three-species isolation with migration analysis

(2012) Frode Jacobsen et al.   Ecology and Evolution

Adaptive Introgression across Species Boundaries in Heliconius Butterflies

(2012) Carolina Pardo-Diaz et al.   PLoS Genetics

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

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

Genetic Introgression: An Integral but neglected component of speciation in birds

(2011) Frank E. Rheindt et al.   AUK

fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios

(2011) Laurent Excoffier et al.   BIOINFORMATICS

Adaptive Introgression of Anticoagulant Rodent Poison Resistance by Hybridization between Old World Mice

(2011) Ying Song et al.   CURRENT BIOLOGY

Testing for Ancient Admixture between Closely Related Populations

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

Hybrid origin of Audubon’s warbler

(2011) ALAN BRELSFORD et al.   MOLECULAR ECOLOGY

Hybrid speciation in sparrows I: phenotypic intermediacy, genetic admixture and barriers to gene flow

(2011) JO S. HERMANSEN et al.   MOLECULAR ECOLOGY

Approximate Bayesian Computation in Evolution and Ecology

(2010) Mark A. Beaumont   Annual Review of Ecology Evolution and Systematics

Using differential introgression in hybrid zones to identify genomic regions involved in speciation

(2010) BRET A. PAYSEUR   Molecular Ecology Resources

Adaptive introgression of abiotic tolerance traits in the sunflower Helianthus annuus

(2010) Kenneth D. Whitney et al.   NEW PHYTOLOGIST

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

Approximate Bayesian Computation (ABC) in practice

(2010) Katalin Csilléry et al.   TRENDS IN ECOLOGY & EVOLUTION

Mitochondrial introgression and replacement between yellowhammers (Emberiza citrinella) and pine buntings (Emberiza leucocephalos) (Aves: Passeriformes)

(2009) DARREN E. IRWIN et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Fast model-based estimation of ancestry in unrelated individuals

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

Extensive hybridization in a contact zone between MacGillivray's warblersOporornistolmieiand mourning warblersO. philadelphiadetected using molecular and morphological analyses

(2009) Darren E. Irwin et al.   JOURNAL OF AVIAN BIOLOGY

Isolation with Migration Models for More Than Two Populations

(2009) Jody Hey   MOLECULAR BIOLOGY AND EVOLUTION

Molecular and Evolutionary History of Melanism in North American Gray Wolves

(2009) T. M. Anderson et al.   SCIENCE

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

Identification of endangered Hawaiian ducks (Anas wyvilliana), introduced North American mallards (A. platyrhynchos) and their hybrids using multilocus genotypes

(2008) Ada C. Fowler et al.   CONSERVATION GENETICS

A 2000 km genetic wake yields evidence for northern glacial refugia and hybrid zone movement in a pair of songbirds

(2008) M. Krosby et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Regulatory Genes Control a Key Morphological and Ecological Trait Transferred Between Species

(2008) M. Kim et al.   SCIENCE

Hybrid Wildfowl in Central Europe - an Overview

(2008) Christoph Randler   WATERBIRDS