Genomic Analysis of European Drosophila melanogaster Populations Reveals Longitudinal Structure, Continent-Wide Selection, and Previously Unknown DNA Viruses

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  • Martin Kapun, European Drosophila Population Genomics Consortium (DrosEU), University of Lausanne, University of Fribourg, University of Zurich, Medical University of Vienna
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  • Maite G. Barrón, European Drosophila Population Genomics Consortium (DrosEU), Pompeu Fabra University
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  • Fabian Staubach, European Drosophila Population Genomics Consortium (DrosEU), University of Freiburg
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  • Darren J. Obbard, European Drosophila Population Genomics Consortium (DrosEU), University of Edinburgh
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  • R. Axel W. Wiberg, European Drosophila Population Genomics Consortium (DrosEU), University of St Andrews, University of Basel
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  • Jorge Vieira, European Drosophila Population Genomics Consortium (DrosEU), University of Porto
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  • Clément Goubert, European Drosophila Population Genomics Consortium (DrosEU), Universite Claude Bernard Lyon 1, Cornell University
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  • Omar Rota-Stabelli, European Drosophila Population Genomics Consortium (DrosEU), Istituto Agrario San Michele all'Adige
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  • Maaria Kankare, European Drosophila Population Genomics Consortium (DrosEU), University of Jyväskylä
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  • María Bogaerts-Márquez, European Drosophila Population Genomics Consortium (DrosEU), Pompeu Fabra University
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  • Annabelle Haudry, European Drosophila Population Genomics Consortium (DrosEU), Universite Claude Bernard Lyon 1
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  • Lena Waidele, European Drosophila Population Genomics Consortium (DrosEU), University of Freiburg
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  • Iryna Kozeretska, European Drosophila Population Genomics Consortium (DrosEU), Kyiv National Taras Shevchenko University, Ministry of Education and Science of Ukraine
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  • Elena G. Pasyukova, European Drosophila Population Genomics Consortium (DrosEU), RAS - Institute of Molecular Genetics
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  • Volker Loeschcke
  • Marta Pascual, European Drosophila Population Genomics Consortium (DrosEU), University of Barcelona
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  • Cristina P. Vieira, European Drosophila Population Genomics Consortium (DrosEU), University of Porto
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  • Svitlana Serga, European Drosophila Population Genomics Consortium (DrosEU), Kyiv National Taras Shevchenko University
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  • Catherine Montchamp-Moreau, European Drosophila Population Genomics Consortium (DrosEU), CNRS
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  • Jessica Abbott, European Drosophila Population Genomics Consortium (DrosEU), Lund University
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  • Patricia Gibert, European Drosophila Population Genomics Consortium (DrosEU), Universite Claude Bernard Lyon 1
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  • Damiano Porcelli, Department of Animal and Plant Sciences, European Drosophila Population Genomics Consortium (DrosEU)
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  • Nico Posnien, European Drosophila Population Genomics Consortium (DrosEU), University of Göttingen
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  • Alejandro Sánchez-Gracia, European Drosophila Population Genomics Consortium (DrosEU), University of Barcelona
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  • Sonja Grath, European Drosophila Population Genomics Consortium (DrosEU), Ludwig Maximilian University of Munich
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  • Élio Sucena, European Drosophila Population Genomics Consortium (DrosEU), Instituto Gulbenkian de Ciencia, University of Lisbon
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  • Alan O. Bergland, European Drosophila Population Genomics Consortium (DrosEU), University of Virginia
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  • Maria Pilar Garcia Guerreiro, European Drosophila Population Genomics Consortium (DrosEU), Autonomous University of Barcelona
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  • Banu Sebnem Onder, European Drosophila Population Genomics Consortium (DrosEU), Hacettepe University
  • ,
  • Eliza Argyridou, European Drosophila Population Genomics Consortium (DrosEU), Ludwig Maximilian University of Munich
  • ,
  • Lain Guio, European Drosophila Population Genomics Consortium (DrosEU), Pompeu Fabra University
  • ,
  • Mads Fristrup Schou, European Drosophila Population Genomics Consortium (DrosEU), Lund University
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  • Bart Deplancke, European Drosophila Population Genomics Consortium (DrosEU), Swiss Federal Institute of Technology Lausanne
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  • Cristina Vieira, European Drosophila Population Genomics Consortium (DrosEU), Universite Claude Bernard Lyon 1
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  • Michael G. Ritchie, European Drosophila Population Genomics Consortium (DrosEU), University of St Andrews
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  • Bas J. Zwaan, European Drosophila Population Genomics Consortium (DrosEU), Wageningen University & Research
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  • Eran Tauber, European Drosophila Population Genomics Consortium (DrosEU), University of Haifa
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  • Dorcas J. Orengo, European Drosophila Population Genomics Consortium (DrosEU), University of Barcelona
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  • Eva Puerma, European Drosophila Population Genomics Consortium (DrosEU), University of Barcelona
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  • Montserrat Aguadé, European Drosophila Population Genomics Consortium (DrosEU), University of Barcelona
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  • Paul Schmidt, European Drosophila Population Genomics Consortium (DrosEU), University of Pennsylvania
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  • John Parsch, European Drosophila Population Genomics Consortium (DrosEU), Ludwig Maximilian University of Munich
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  • Andrea J. Betancourt, European Drosophila Population Genomics Consortium (DrosEU), University of Liverpool
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  • Thomas Flatt, European Drosophila Population Genomics Consortium (DrosEU), University of Lausanne, University of Fribourg
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  • Josefa González, European Drosophila Population Genomics Consortium (DrosEU), Pompeu Fabra University

Genetic variation is the fuel of evolution, with standing genetic variation especially important for short-term evolution and local adaptation. To date, studies of spatiotemporal patterns of genetic variation in natural populations have been challenging, as comprehensive sampling is logistically difficult, and sequencing of entire populations costly. Here, we address these issues using a collaborative approach, sequencing 48 pooled population samples from 32 locations, and perform the first continent-wide genomic analysis of genetic variation in European Drosophila melanogaster. Our analyses uncover longitudinal population structure, provide evidence for continent-wide selective sweeps, identify candidate genes for local climate adaptation, and document clines in chromosomal inversion and transposable element frequencies. We also characterize variation among populations in the composition of the fly microbiome, and identify five new DNA viruses in our samples.

OriginalsprogEngelsk
TidsskriftMolecular Biology and Evolution
Vol/bind37
Nummer9
Sider (fra-til)2661-2678
Antal sider18
ISSN0737-4038
DOI
StatusUdgivet - sep. 2020

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