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Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses

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What this work says

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

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Very high resolution interpolated climate surfaces for global land areas

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Historical Biogeography of the Drosophila melanogaster Species Subgroup

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Latitudinal clines inDrosophila melanogaster: Body size, allozyme frequencies, inversion frequencies, and the insulin-signalling pathway

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New Insights into the Ecological Interaction Between Grape Berry Microorganisms and Drosophila Flies During the Development of Sour Rot

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The association between inversion In(3R)Payne and clinally varying traits in Drosophila melanogaster

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Climatic selection on genes and traits after a 100 year-old invasion: a critical look at the temperate-tropical clines in Drosophila melanogaster from eastern Australia

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Genetic variation of Drosophila melanogaster natural populations

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Drosophila melanogaster's history as a human commensal

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Drosophila melanogaster recombination rate calculator

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Microbial influence on Drosophila biology

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Revisiting classic clines in Drosophila melanogaster in the age of genomics

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The Neutral Theory of Molecular Evolution

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Chromosomal inversion polymorphism in Afrotropical populations of Drosophila melanogaster

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Trypanosomatids are common and diverse parasites ofDrosophila

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Origin and decay of the P element-associated latitudinal cline in Australian Drosophila melanogaster

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Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster

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Adaptive protein evolution at the Adh locus in Drosophila

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The evolutionary dynamics of repetitive DNA in eukaryotes

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Genes mirror geography within Europe

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Tracing the peopling of the world through genomics

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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

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Sequencing pools of individuals — mining genome-wide polymorphism data without big funding

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Wolbachia: master manipulators of invertebrate biology

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Epistatic mutations under divergent selection govern phenotypic variation in the crow hybrid zone

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Genome-wide patterns of local adaptation in Western European Drosophila melanogaster natural populations

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Human X-chromosomal lineages in Europe reveal Middle Eastern and Asiatic contacts

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Indirect measures of gene flow and migration: FST≠1/(4Nm+1)

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An amino acid polymorphism in the couch potato gene forms the basis for climatic adaptation in Drosophila melanogaster

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Population genomics of the honey bee reveals strong signatures of positive selection on worker traits

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Gowinda: unbiased analysis of gene set enrichment for genome-wide association studies

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Individual variation of natural D.melanogaster-associated bacterial communities

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Demographic History of the Human CommensalDrosophila melanogaster

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A Test of Neutral Molecular Evolution Based on Nucleotide Data

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Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA.

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Length Variation of CAG/CAA Trinucleotide Repeats in Natural Populations of Drosophila melanogaster and Its Relation to the Recombination Rate

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INVERSION CLINES IN POPULATIONS OF DROSOPHILA MELANOGASTER

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Genetic Differentiation Between American and European Drosophila melanogaster Populations Could Be Attributed to Admixture of African Alleles

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Strong Evidence for Lineage and Sequence Specificity of Substitution Rates and Patterns in Drosophila

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On the Utility of Short Intron Sequences as a Reference for the Detection of Positive and Negative Selection in Drosophila

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Population Genomics of Transposable Elements in Drosophila melanogaster

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Chimeric Genes as a Source of Rapid Evolution in Drosophila melanogaster

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Detecting Selective Sweeps from Pooled Next-Generation Sequencing Samples

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Abundance and Distribution of Transposable Elements in Two Drosophila QTL Mapping Resources

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Genomic Evidence for Adaptive Inversion Clines inDrosophila melanogaster

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A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus

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Recurrent Collection of Drosophila melanogaster from Wild African Environments and Genomic Insights into Species History

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T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data

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Progress and Prospects in Evolutionary Biology

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On the Abundance and Distribution of Transposable Elements in the Genome of Drosophila melanogaster

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Population structure and human evolution

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Rapid seasonal evolution in innate immunity of wild Drosophila melanogaster

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Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation in Drosophila

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Early split between African and European populations of Drosophila melanogaster

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Mapping short DNA sequencing reads and calling variants using mapping quality scores

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Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison

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Pool‐hmm: a Python program for estimating the allele frequency spectrum and detecting selective sweeps from next generation sequencing of pooled samples

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Common structuring principles of the Drosophila melanogaster microbiome on a continental scale and between host and substrate

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A new FST‐based method to uncover local adaptation using environmental variables

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Niche construction initiates the evolution of mutualistic interactions

inferredcites →https://doi.org/10.1111/evo.12546openalex-snapshot

A highly pleiotropic amino acid polymorphism in the Drosophila insulin receptor contributes to life-history adaptation

inferredcites →https://doi.org/10.1111/evo.12923openalex-snapshot

Persistence of a Wolbachia infection frequency cline in Drosophila melanogaster and the possible role of reproductive dormancy

inferredcites →https://doi.org/10.1111/evo.13759openalex-snapshot

A clinal polymorphism in the insulin signaling transcription factor foxo contributes to life‐history adaptation in Drosophila *

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Post-glacial re-colonization of European biota

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Yeast, not fruit volatiles mediate D rosophila melanogaster attraction, oviposition and development

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The latitudinal cline in the In(3R)Payne inversion polymorphism has shifted in the last 20 years in Australian Drosophila melanogaster populations

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Multiple introductions of the Spiroplasma bacterial endosymbiont into Drosophila

inferredcites →https://doi.org/10.1111/j.1365-294x.2009.04508.xopenalex-snapshot

Identification of a candidate adaptive polymorphism forDrosophilalife history by parallel independent clines on two continents

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Genome‐wide patterns of latitudinal differentiation among populations of D rosophila melanogaster from N orth A merica

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Unconstrained evolution in short introns? – An analysis of genome‐wide polymorphism and divergence data from D rosophila

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The Crow Corvus corone hybrid zone in southern Denmark and northern Germany

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REPRODUCTIVE DIAPAUSE AND LIFE-HISTORY CLINES IN NORTH AMERICAN POPULATIONS OF DROSOPHILA MELANOGASTER

inferredcites →https://doi.org/10.1111/j.1558-5646.2008.00427.xopenalex-snapshot

INCIPIENT SEXUAL ISOLATION AMONG COSMOPOLITANDROSOPHILA MELANOGASTERPOPULATIONS

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AFRICAN MORPHOLOGY, BEHAVIOR AND PHERMONES UNDERLIE INCIPIENT SEXUAL ISOLATION BETWEEN US AND CARIBBEANDROSOPHILA MELANOGASTER

inferredcites →https://doi.org/10.1111/jeb.12847openalex-snapshot

Parallel effects of the inversion In(3R)Payne on body size across the North American and Australian clines in Drosophila melanogaster

inferredcites →https://doi.org/10.1111/jeb.13310openalex-snapshot

An inversion supergene in Drosophila underpins latitudinal clines in survival traits

inferredcites →https://doi.org/10.1111/mec.12594openalex-snapshot

Inference of chromosomal inversion dynamics from P ool‐ S eq data in natural and laboratory populations of D rosophila melanogaster

inferredcites →https://doi.org/10.1111/mec.13137openalex-snapshot

Population genomic analysis uncovers African and European admixture in Drosophila melanogaster populations from the south‐eastern United States and Caribbean Islands

inferredcites →https://doi.org/10.1111/mec.13161openalex-snapshot

Genomic evidence for role of inversion 3 RP of Drosophila melanogaster in facilitating climate change adaptation

inferredcites →https://doi.org/10.1111/mec.13446openalex-snapshot

Comparative population genomics of latitudinal variation in Drosophila simulans and Drosophila melanogaster

inferredcites →https://doi.org/10.1111/mec.13455openalex-snapshot

Secondary contact and local adaptation contribute to genome‐wide patterns of clinal variation in Drosophila melanogaster

inferredcites →https://doi.org/10.1111/mec.13464openalex-snapshot

Population genetic evidence for cold adaptation in European Drosophila melanogaster populations

inferredcites →https://doi.org/10.1111/mec.14871openalex-snapshot

The adaptive significance of chromosomal inversion polymorphisms inDrosophila melanogaster

inferredcites →https://doi.org/10.1111/mec.14963openalex-snapshot

Population‐specific dynamics and selection patterns of transposable element insertions in European natural populations

inferredcites →https://doi.org/10.1126/science.1074170openalex-snapshot

A Single P450 Allele Associated with Insecticide Resistance in Drosophila

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A Rapid Shift in a Classic Clinal Pattern in Drosophila Reflecting Climate Change

inferredcites →https://doi.org/10.1126/science.1138412openalex-snapshot

Natural Selection Favors a Newly Derived timeless Allele in Drosophila melanogaster

inferredcites →https://doi.org/10.1128/aem.01741-12openalex-snapshot

Yeast Communities of Diverse Drosophila Species: Comparison of Two Symbiont Groups in the Same Hosts

inferredcites →https://doi.org/10.1186/1471-2105-9-386openalex-snapshot

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

inferredcites →https://doi.org/10.1186/1471-2148-8-271openalex-snapshot

Genetic conflict outweighs heterogametic incompatibility in the mouse hybrid zone?

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The complex transcriptional landscape of the anucleate human platelet

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The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective

inferredcites →https://doi.org/10.1186/gb-2005-6-8-r67openalex-snapshot

Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content

inferredcites →https://doi.org/10.1186/gb-2006-7-11-r112openalex-snapshot

Recurrent insertion and duplication generate networks of transposable element sequences in the Drosophila melanogaster genome

inferredcites →https://doi.org/10.1371/journal.pbio.0050310openalex-snapshot

Population Genomics: Whole-Genome Analysis of Polymorphism and Divergence in Drosophila simulans

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High Rate of Recent Transposable Element–Induced Adaptation in Drosophila melanogaster

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The Discovery, Distribution, and Evolution of Viruses Associated with Drosophila melanogaster

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Combined Evidence Annotation of Transposable Elements in Genome Sequences

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Inferring the Demographic History and Rate of Adaptive Substitution in Drosophila

inferredcites →https://doi.org/10.1371/journal.pgen.1000862openalex-snapshot

Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags

inferredcites →https://doi.org/10.1371/journal.pgen.1000905openalex-snapshot

Genome-Wide Patterns of Adaptation to Temperate Environments Associated with Transposable Elements in Drosophila

inferredcites →https://doi.org/10.1371/journal.pgen.1002487openalex-snapshot

Sequencing of Pooled DNA Samples (Pool-Seq) Uncovers Complex Dynamics of Transposable Element Insertions in Drosophila melanogaster

inferredcites →https://doi.org/10.1371/journal.pgen.1003080openalex-snapshot

Population Genomics of Sub-Saharan Drosophila melanogaster: African Diversity and Non-African Admixture

inferredcites →https://doi.org/10.1371/journal.pgen.1003129openalex-snapshot

Population Genomics of the Wolbachia Endosymbiont in Drosophila melanogaster

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Strong Purifying Selection at Synonymous Sites in D. melanogaster

inferredcites →https://doi.org/10.1371/journal.pgen.1004775openalex-snapshot

Genomic Evidence of Rapid and Stable Adaptive Oscillations over Seasonal Time Scales in Drosophila

inferredcites →https://doi.org/10.1371/journal.pgen.1007900openalex-snapshot

Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila

inferredcites →https://doi.org/10.1371/journal.pone.0015925openalex-snapshot

PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals

inferredcites →https://doi.org/10.1371/journal.pone.0026564openalex-snapshot

A DNA Virus of Drosophila

inferredcites →https://doi.org/10.1371/journal.pone.0061937openalex-snapshot

Discovery of Trypanosomatid Parasites in Globally Distributed Drosophila Species

inferredcites →https://doi.org/10.1371/journal.pone.0070749openalex-snapshot

Host Species and Environmental Effects on Bacterial Communities Associated with Drosophila in the Laboratory and in the Natural Environment

inferredcites →https://doi.org/10.1371/journal.ppat.1007050openalex-snapshot

Isolation of a natural DNA virus of Drosophila melanogaster, and characterisation of host resistance and immune responses

inferredcites →https://doi.org/10.1534/g3.114.016493openalex-snapshot

Similar Efficacies of Selection Shape Mitochondrial and Nuclear Genes in Both Drosophila melanogaster and Homo sapiens

inferredcites →https://doi.org/10.1534/genetics.105.049346openalex-snapshot

Evidence for a Selective Sweep in the wapl Region of Drosophila melanogaster

inferredcites →https://doi.org/10.1534/genetics.105.053173openalex-snapshot

Patterns of Diversity and Linkage Disequilibrium Within the Cosmopolitan Inversion In(3R)Payne in Drosophila melanogaster Are Indicative of Coadaptation

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Distinctly Different Sex Ratios in African and European Populations ofDrosophila melanogasterInferred From Chromosomewide Single Nucleotide Polymorphism Data

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Genomic Analysis of Adaptive Differentiation inDrosophila melanogaster

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The Next Generation of Molecular Markers From Massively Parallel Sequencing of Pooled DNA Samples

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Genomic Differentiation Between Temperate and Tropical Australian Populations ofDrosophila melanogaster

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Ecological Genomics of Anopheles gambiae Along a Latitudinal Cline: A Population-Resequencing Approach

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Genomic Variation in Natural Populations ofDrosophila melanogaster

inferredcites →https://doi.org/10.1534/genetics.112.145912openalex-snapshot

Demographic Inference Reveals African and European Admixture in the North AmericanDrosophila melanogasterPopulation

inferredcites →https://doi.org/10.1534/genetics.113.158147openalex-snapshot

An Age-of-Allele Test of Neutrality for Transposable Element Insertions

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The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

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Genetics on the Fly: A Primer on the Drosophila Model System

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Genetic Analysis of a Hybrid Zone Between the Fire-Bellied Toads, Bombina bombina and B. variegata, Near Cracow in Southern Poland

inferredcites →https://doi.org/10.25911/5d6e489737ebeopenalex-snapshot

Chromosome inversion polymorphisms in Drosophila Melanogaster

inferredcites →https://doi.org/10.3109/19401736.2015.1106496openalex-snapshot

Complete mitochondrial genome sequences of thirteen globally sourced strains of fruit fly ( Drosophila melanogaster ) form a powerful model for mitochondrial research

inferredcites →https://doi.org/10.3389/fmicb.2017.00751openalex-snapshot

Drosophila melanogaster as a High-Throughput Model for Host–Microbiota Interactions

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Twenty-Five New Viruses Associated with the Drosophilidae (Diptera)

inferredcites →https://doi.org/10.5194/hess-11-1633-2007openalex-snapshot

Updated world map of the Köppen-Geiger climate classification

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Population genomics of intrapatient HIV-1 evolution

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Robust manipulation of the behavior of Drosophila melanogaster by a fungal pathogen in the laboratory

What points at this work

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

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Population Genomics on the Fly: Recent Advances in Drosophila

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Altering the Temporal Regulation of One Transcription Factor Drives Evolutionary Trade-Offs between Head Sensory Organs

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Low levels of genetic differentiation with isolation by geography and environment in populations of Drosophila melanogaster from across China

inferred← citeshttps://doi.org/10.1038/s41598-018-34267-0openalex-snapshot

Genome-wide patterns of local adaptation in Western European Drosophila melanogaster natural populations

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Mitochondrial haplotypes affect metabolic phenotypes in the Drosophila Genetic Reference Panel

inferred← citeshttps://doi.org/10.1101/2020.03.11.985903openalex-snapshot

Genomic signals of admixture and reinforcement between two closely related species of European sepsid flies

inferred← citeshttps://doi.org/10.1101/466771openalex-snapshot

Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel

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Reconstructing the invasion route of DNA transposons using extant population samples

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Common structuring principles of the Drosophila melanogaster microbiome on a continental scale and between host and substrate

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Population‐specific dynamics and selection patterns of transposable element insertions in European natural populations

inferred← citeshttps://doi.org/10.1111/mec.16003openalex-snapshot

Cold adaptation drives population genomic divergence in the ecological specialist, Drosophila montana

inferred← citeshttps://doi.org/10.1186/s13100-020-00213-zopenalex-snapshot

Transposable elements in Drosophila

inferred← citeshttps://doi.org/10.1242/jeb.205831openalex-snapshot

Selection for reproduction under short photoperiods changes diapause-associated traits and induces widespread genomic divergence

inferred← citeshttps://doi.org/10.1371/journal.pgen.1007900openalex-snapshot

Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila

inferred← citeshttps://doi.org/10.1371/journal.ppat.1007050openalex-snapshot

Isolation of a natural DNA virus of Drosophila melanogaster, and characterisation of host resistance and immune responses

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Expansion of the Metazoan Virosphere: Progress, Pitfalls, and Prospects

inferred← citeshttps://doi.org/10.7554/elife.84759openalex-snapshot

Thermal phenotypic plasticity of pre- and post-copulatory male harm buffers sexual conflict in wild Drosophila melanogaster

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