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Genome-wide admixture is common across the Heliconius radiation

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline

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PAUP * [Phylogenetic Analysis Using Parsimony (and Other Methods)]

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ASTRAL-III: Increased Scalability and Impacts of Contracting Low Support Branches

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Comparison of phylogenetic trees

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The Monarch Butterfly Genome Yields Insights into Long-Distance Migration

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Hybridization Reveals the Evolving Genomic Architecture of Speciation

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The Combined Landscape of Denisovan and Neanderthal Ancestry in Present-Day Humans

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Supergene Evolution Triggered by the Introgression of a Chromosomal Inversion

inferredcites →https://doi.org/10.1038/hdy.2017.7openalex-snapshot

Is homoploid hybrid speciation that rare? An empiricist’s view

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Speciation by hybridization in Heliconius butterflies

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Reconstructing Indian population history

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Butterfly genome reveals promiscuous exchange of mimicry adaptations among species

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Inferring ancient divergences requires genes with strong phylogenetic signals

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The genomic landscape of Neanderthal ancestry in present-day humans

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The genomic substrate for adaptive radiation in African cichlid fish

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The genetics of monarch butterfly migration and warning colouration

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

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The gene cortex controls mimicry and crypsis in butterflies and moths

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Genetic diversity of the African malaria vector Anopheles gambiae

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Adaptive introgression between Anopheles sibling species eliminates a major genomic island but not reproductive isolation

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A framework for variation discovery and genotyping using next-generation DNA sequencing data

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What do we mean when we talk about hybrid speciation?

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Mosaic genome evolution in a recent and rapid avian radiation

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Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand

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Estimating divergence times in large molecular phylogenies

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Reticulation, divergence, and the phylogeography–phylogenetics continuum

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Macroevolutionary shifts of WntA function potentiate butterfly wing-pattern diversity

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Single master regulatory gene coordinates the evolution and development of butterfly color and iridescence

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Approximate Likelihood-Ratio Test for Branches: A Fast, Accurate, and Powerful Alternative

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Fast and accurate short read alignment with Burrows–Wheeler transform

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trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

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The Sequence Alignment/Map format and SAMtools

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adegenet 1.3-1 : new tools for the analysis of genome-wide SNP data

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

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ASTRAL: genome-scale coalescent-based species tree estimation

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ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes

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Genome-Wide Characterization of Adaptation and Speciation in Tiger Swallowtail Butterflies Using De Novo Transcriptome Assemblies

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Bayesian Inference of Species Trees from Multilocus Data

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Testing for Ancient Admixture between Closely Related Populations

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Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets

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A Selective Sweep across Species Boundaries in Drosophila

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MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

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Novel Information Theory-Based Measures for Quantifying Incongruence among Phylogenetic Trees

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

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Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies

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Phylogenetic Discordance at the Species Boundary: Comparative Gene Genealogies Among Rapidly Radiating Heliconius Butterflies

inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026201openalex-snapshot

Multiple Comparisons of Log-Likelihoods with Applications to Phylogenetic Inference

inferredcites →https://doi.org/10.1093/sysbio/syr025openalex-snapshot

Missing Data in Phylogenetic Analysis: Reconciling Results from Simulations and Empirical Data

inferredcites →https://doi.org/10.1093/sysbio/syv007openalex-snapshot

Multilocus Species Trees Show the Recent Adaptive Radiation of the Mimetic Heliconius Butterflies

inferredcites →https://doi.org/10.1093/sysbio/syv023openalex-snapshot

Detection and Polarization of Introgression in a Five-Taxon Phylogeny

inferredcites →https://doi.org/10.1093/sysbio/syw082openalex-snapshot

Incomplete Lineage Sorting in Mammalian Phylogenomics

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Inferring Phylogenetic Networks Using PhyloNet

inferredcites →https://doi.org/10.1093/sysbio/syy020openalex-snapshot

The Effect of Gene Flow on Coalescent-based Species-Tree Inference

inferredcites →https://doi.org/10.1093/sysbio/syy033openalex-snapshot

Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations

inferredcites →https://doi.org/10.1098/rsbl.2007.0401openalex-snapshot

Genetic analysis of a wild-caught hybrid between non-sisterHeliconiusbutterfly species

inferredcites →https://doi.org/10.1098/rspb.2005.3056openalex-snapshot

Problems with mitochondrial DNA as a marker in population, phylogeographic and phylogenetic studies: the effects of inherited symbionts

inferredcites →https://doi.org/10.1098/rspb.2009.1303openalex-snapshot

Nymphalid butterflies diversify following near demise at the Cretaceous/Tertiary boundary

inferredcites →https://doi.org/10.1098/rstb.1985.0066openalex-snapshot

Genetics and the evolution of muellerian mimicry in heliconius butterflies

inferredcites →https://doi.org/10.1098/rstb.2011.0198openalex-snapshot

Genomic islands of divergence in hybridizing Heliconius butterflies identified by large-scale targeted sequencing

inferredcites →https://doi.org/10.1098/rstb.2013.0345openalex-snapshot

Genomics of homoploid hybrid speciation: diversity and transcriptional activity of long terminal repeat retrotransposons in hybrid sunflowers

inferredcites →https://doi.org/10.1101/gr.107524.110openalex-snapshot

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

inferredcites →https://doi.org/10.1101/gr.111120.110openalex-snapshot

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

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OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

inferredcites →https://doi.org/10.1101/gr.150615.112openalex-snapshot

Genomic architecture of adaptive color pattern divergence and convergence in Heliconius butterflies

inferredcites →https://doi.org/10.1101/gr.159426.113openalex-snapshot

Genome-wide evidence for speciation with gene flow in Heliconius butterflies

inferredcites →https://doi.org/10.1101/gr.169292.113openalex-snapshot

Population genomics of parallel hybrid zones in the mimetic butterflies, H. melpomene and H. erato

inferredcites →https://doi.org/10.1101/gr.926603openalex-snapshot

LAGAN and Multi-LAGAN: Efficient Tools for Large-Scale Multiple Alignment of Genomic DNA

inferredcites →https://doi.org/10.1111/bij.12091openalex-snapshot

Genetic differentiation without mimicry shift in a pair of hybridizingHeliconiusspecies (Lepidoptera: Nymphalidae)

inferredcites →https://doi.org/10.1111/cla.12198openalex-snapshot

Missing data, clade support and “reticulation”: the molecular systematics of Heliconius and related genera (Lepidoptera: Nymphalidae) re‐examined

inferredcites →https://doi.org/10.1111/evo.12099openalex-snapshot

PHYLOGENOMICS REVEALS EXTENSIVE RETICULATE EVOLUTION INXIPHOPHORUSFISHES

inferredcites →https://doi.org/10.1111/evo.12399openalex-snapshot

HOW COMMON IS HOMOPLOID HYBRID SPECIATION?

inferredcites →https://doi.org/10.1111/evo.12832openalex-snapshot

Irrational exuberance for resolved species trees

inferredcites →https://doi.org/10.1111/j.0014-3820.2006.tb01203.xopenalex-snapshot

MULTILOCUS ANALYSES OF ADMIXTURE AND INTROGRESSION AMONG HYBRIDIZING HELICONIUS BUTTERFLIES

inferredcites →https://doi.org/10.1111/j.1095-8312.2007.00830.xopenalex-snapshot

Do pollen feeding, pupal-mating and larval gregariousness have a single origin in Heliconius butterflies? Inferences from multilocus DNA sequence data

inferredcites →https://doi.org/10.1111/j.1095-8312.2011.01814.xopenalex-snapshot

Testing historical explanations for gradients in species richness in heliconiine butterflies of tropical America

inferredcites →https://doi.org/10.1111/j.1365-294x.2008.03898.xopenalex-snapshot

Homoploid hybrid speciation in animals

inferredcites →https://doi.org/10.1111/j.1365-294x.2012.05730.xopenalex-snapshot

Genome‐wide patterns of divergence and gene flow across a butterfly radiation

inferredcites →https://doi.org/10.1111/j.1420-9101.2012.02599.xopenalex-snapshot

Hybridization and speciation

inferredcites →https://doi.org/10.1111/mec.13685openalex-snapshot

Genomics of hybridization and its evolutionary consequences

inferredcites →https://doi.org/10.1126/science.1102210openalex-snapshot

A Draft Sequence for the Genome of the Domesticated Silkworm ( Bombyx mori )

inferredcites →https://doi.org/10.1126/science.1224344openalex-snapshot

A High-Coverage Genome Sequence from an Archaic Denisovan Individual

inferredcites →https://doi.org/10.1126/science.1253451openalex-snapshot

Whole-genome analyses resolve early branches in the tree of life of modern birds

inferredcites →https://doi.org/10.1126/science.1258524openalex-snapshot

Extensive introgression in a malaria vector species complex revealed by phylogenomics

inferredcites →https://doi.org/10.1146/annurev-animal-021815-111216openalex-snapshot

Perspectives from the Avian Phylogenomics Project: Questions that Can Be Answered with Sequencing All Genomes of a Vertebrate Class

inferredcites →https://doi.org/10.1186/1471-2105-8-428openalex-snapshot

Cubic exact solutions for the estimation of pairwise haplotype frequencies: implications for linkage disequilibrium analyses and a web tool 'CubeX'

inferredcites →https://doi.org/10.1186/1471-2148-10-210openalex-snapshot

BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments

inferredcites →https://doi.org/10.1186/1471-2148-10-302openalex-snapshot

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

inferredcites →https://doi.org/10.1186/1471-2148-13-25openalex-snapshot

Comprehensive phylogenetic analysis of all species of swordtails and platies (Pisces: Genus Xiphophorus) uncovers a hybrid origin of a swordtail fish, Xiphophorus monticolus, and demonstrates that the sexually selected sword originated in the ancestral lineage of the genus, but was lost again…

inferredcites →https://doi.org/10.1186/1471-2148-7-28openalex-snapshot

Natural hybridization in heliconiine butterflies: the species boundary as a continuum

inferredcites →https://doi.org/10.1186/1471-2164-9-345openalex-snapshot

Highly conserved gene order and numerous novel repetitive elements in genomic regions linked to wing pattern variation in Heliconius butterflies

inferredcites →https://doi.org/10.1186/1741-7007-4-11openalex-snapshot

Polyphyly and gene flow between non-sibling Heliconius species

inferredcites →https://doi.org/10.1186/s12862-015-0420-3openalex-snapshot

Extensive range overlap between heliconiine sister species: evidence for sympatric speciation in butterflies?

inferredcites →https://doi.org/10.1186/s13742-015-0047-8openalex-snapshot

Second-generation PLINK: rising to the challenge of larger and richer datasets

inferredcites →https://doi.org/10.1371/journal.pbio.1002353openalex-snapshot

Evolutionary Novelty in a Butterfly Wing Pattern through Enhancer Shuffling

inferredcites →https://doi.org/10.1371/journal.pbio.2006288openalex-snapshot

Recombination rate variation shapes barriers to introgression across butterfly genomes

inferredcites →https://doi.org/10.1371/journal.pgen.1000930openalex-snapshot

Genetic Evidence for Hybrid Trait Speciation in Heliconius Butterflies

inferredcites →https://doi.org/10.1371/journal.pgen.1002967openalex-snapshot

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

inferredcites →https://doi.org/10.1371/journal.pgen.1003620openalex-snapshot

Female Behaviour Drives Expression and Evolution of Gustatory Receptors in Butterflies

inferredcites →https://doi.org/10.1371/journal.pone.0009490openalex-snapshot

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

inferredcites →https://doi.org/10.1534/g3.116.034744openalex-snapshot

Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data

inferredcites →https://doi.org/10.1534/genetics.114.172387openalex-snapshot

The Functional Basis of Wing Patterning in Heliconius Butterflies: The Molecules Behind Mimicry

inferredcites →https://doi.org/10.1534/genetics.115.183913openalex-snapshot

Admixture, Population Structure, and F -Statistics

inferredcites →https://doi.org/10.2307/2387664openalex-snapshot

Evolution in Modern Amazonian Non-Forest Islands: Heliconius hermathena

inferredcites →https://doi.org/10.7208/9780226063195-017openalex-snapshot

Adaptive Novelty through Introgression in Heliconius Wing Patterns: Evidence for a Shared Genetic “Toolbox” from Synthetic Hybrid Zones and a Theory of Diversification

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.cub.2019.10.010openalex-snapshot

Interplay between Developmental Flexibility and Determinism in the Evolution of Mimetic Heliconius Wing Patterns

inferred← citeshttps://doi.org/10.1016/j.ympev.2021.107291openalex-snapshot

Sequential colonization of oceanic archipelagos led to a species-level radiation in the common chaffinch complex (Aves: Fringilla coelebs)

inferred← citeshttps://doi.org/10.1038/s41467-020-15099-xopenalex-snapshot

Stable species boundaries despite ten million years of hybridization in tropical eels

inferred← citeshttps://doi.org/10.1093/gbe/evab069openalex-snapshot

Synteny-Based Genome Assembly for 16 Species of Heliconius Butterflies, and an Assessment of Structural Variation across the Genus

inferred← citeshttps://doi.org/10.1093/gbe/evz202openalex-snapshot

Comparative Transcriptomics Provides Insights into Reticulate and Adaptive Evolution of a Butterfly Radiation

inferred← citeshttps://doi.org/10.1093/jhered/esz057openalex-snapshot

Adaptive Radiation Genomics of Two Ecologically Divergent Hawai‘ian Honeycreepers: The ‘akiapōlā‘au and the Hawai‘i ‘amakihi

inferred← citeshttps://doi.org/10.1093/molbev/msz294openalex-snapshot

Ancestral Hybridization Facilitated Species Diversification in the Lake Malawi Cichlid Fish Adaptive Radiation

inferred← citeshttps://doi.org/10.1093/sysbio/syaa088openalex-snapshot

The Legacy of Recurrent Introgression during the Radiation of Hares

inferred← citeshttps://doi.org/10.1101/2020.05.26.116533openalex-snapshot

Cortex cis -regulatory switches establish scale colour identity and pattern diversity in Heliconius

inferred← citeshttps://doi.org/10.1101/2020.06.19.160283openalex-snapshot

The legacy of recurrent introgression during the radiation of hares

inferred← citeshttps://doi.org/10.1101/635631openalex-snapshot

Stable Species Boundaries Despite Ten Million Years of Hybridization in Tropical Eels

inferred← citeshttps://doi.org/10.1111/1755-0998.13265openalex-snapshot

Dsuite ‐ Fast D ‐statistics and related admixture evidence from VCF files

inferred← citeshttps://doi.org/10.1111/jeb.13626openalex-snapshot

Hybridization and transgressive exploration of colour pattern and wing morphology in Heliconius butterflies

inferred← citeshttps://doi.org/10.1126/science.aaw2090openalex-snapshot

Genomic architecture and introgression shape a butterfly radiation

inferred← citeshttps://doi.org/10.1186/s12915-020-00797-1openalex-snapshot

The roles of hybridization and habitat fragmentation in the evolution of Brazil’s enigmatic longwing butterflies, Heliconius nattereri and H. hermathena

inferred← citeshttps://doi.org/10.1371/journal.pbio.3000597openalex-snapshot

Selective sweeps on novel and introgressed variation shape mimicry loci in a butterfly adaptive radiation

inferred← citeshttps://doi.org/10.22541/au.160157511.10593343openalex-snapshot

Reconciling genomic and ecological species delimitation using a confusing group of butterflies

inferred← citeshttps://doi.org/10.47749/t/unicamp.2020.1127249openalex-snapshot

Population genetics of the white sand ecosystem specialist butterfly Heliconius hermathena (Lepidoptera:Nymphalidae) assessed by mitogenome analysis

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Comparison Theorems of Phylogenetic Spaces and the Moduli Spaces of Curves

inferred← citeshttps://doi.org/10.7554/elife.68549openalex-snapshot

Cortex cis-regulatory switches establish scale colour identity and pattern diversity in Heliconius

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