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

Research output: Contribution to journalArticle


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.


  • Martin Kapun
  • Maite G. Barron
  • Fabian Staubach
  • Darren J. Obbard
  • R. Axel
  • Jorge Vieira
  • Clement Goubert
  • Omar Rota-Stabelli
  • Maaria Kankare
  • Maria Bogaerts-Marquez
  • Annabelle Haudry
  • Lena Waidele
  • Iryna Kozeretska
  • Elena G. Pasyukova
  • Volker Loeschcke
  • Marta Pascual
  • Cristina P. Vieira
  • Svitlana Serga
  • Catherine Montchamp-Moreau
  • Patricia Gibert
  • Damiano Porcelli
  • Nico Posnien
  • Alejandro Sanchez-Gracia
  • Sonja Grath
  • Elio Sucena
  • Alan O. Bergland
  • Maria Pilar Garcia Guerreiro
  • Banu Sebnem Onder
  • Eliza Argyridou
  • Lain Guio
  • Bart Deplancke
  • Cristina Vieira
  • Michael G. Ritchie
  • Bas J. Zwaan
  • Eran Tauber
  • Dorcas J. Orengo
  • Eva Puerma
  • Montserrat Aguade
  • Paul Schmidt
  • John Parsch
  • Andrea J. Betancourt
  • Thomas Flatt
  • Josefa Gonzalez
External organisations
  • University of Lausanne
  • University of Fribourg
  • Pompeu Fabra University
  • Albert-Ludwigs University Freiburg
  • University of Edinburgh
  • University of St Andrews
  • Instituto de Biologia Molecular e Celular
  • University of Porto
  • Claude Bernard University Lyon 1
  • Cornell University
  • Edmund Mach Foundation
  • University of Jyväskylä
  • Taras Shevchenko National University of Kyiv
  • Aarhus University
  • University of Barcelona
  • University of Paris-Saclay
  • University of Sheffield
  • University of Göttingen
  • World Orthopaedic Concern
  • Gulbenkian Institute Of Science (IGC)
  • New University of Lisbon
  • University of Virginia
  • Autonomous University of Barcelona
  • Hacettepe University
  • Swiss Federal Institute of Technology
  • Wageningen University
  • University of Haifa
  • University of Pennsylvania
  • University of Liverpool
  • European Drosophila Population Genomics Consortium (DrosEU)
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Biological Sciences


  • Adaptation, Clines, Demography, Population genomics, Selection, SNPs, Structural variants
Original languageEnglish
Pages (from-to)2661-2678
Number of pages18
JournalMolecular biology and evolution
Issue number9
Publication statusPublished - 2020
Publication categoryResearch