Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Genomic analysis of European Drosophila populations reveals longitudinal structure and continent-wide selection

View ORCID ProfileMartin Kapun, View ORCID ProfileMaite Garazi Barron Aduriz, View ORCID ProfileFabian Staubach, View ORCID ProfileJorge Vieira, View ORCID ProfileDarren Obbard, View ORCID ProfileClement Goubert, View ORCID ProfileOmar Rota Stabelli, View ORCID ProfileMaaria Kankare, View ORCID ProfileAnnabelle Haudry, View ORCID ProfileR. Axel W. Wiberg, View ORCID ProfileLena Waidele, View ORCID ProfileIryna Kozeretska, View ORCID ProfileElena Pasyukova, View ORCID ProfileVolker Loeschcke, View ORCID ProfileMarta Pascual, View ORCID ProfileCristina P Vieira, View ORCID ProfileSvitlana Serga, View ORCID ProfileCatherine Montchamp-Moreau, View ORCID ProfileJessica Abbott, View ORCID ProfilePatricia Gibert, View ORCID ProfileDamiano Porcelli, View ORCID ProfileNico Posnien, View ORCID ProfileSonja Grath, View ORCID ProfileElio Sucena, View ORCID ProfileAlan Bergland, Maria Pilar Garcia Guerreiro, View ORCID ProfileBanu Sebnem Onder, View ORCID ProfileEliza Argyridou, View ORCID ProfileLain Guio, View ORCID ProfileMads Fristrup Schou, View ORCID ProfileBart Deplancke, View ORCID ProfileCristina Vieira, View ORCID ProfileMichael G Ritchie, View ORCID ProfileBas Zwaan, View ORCID ProfileEran Tauber, View ORCID ProfileDorcas Orengo, View ORCID ProfileEva Puerma, View ORCID ProfileMontserrat Aguade, View ORCID ProfilePaul Schmidt, View ORCID ProfileJohn Parsch, View ORCID ProfileAndrea Betancourt, View ORCID ProfileThomas Flatt, View ORCID ProfileJosefa Gonzalez
doi: https://doi.org/10.1101/313759
Martin Kapun
Department of Biology, University of Fribourg, CH-1700 Fribourg, Switzerland;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Martin Kapun
Maite Garazi Barron Aduriz
Institute of Evolutionary Biology, CSIC-Universitat Pompeu Fabra, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Maite Garazi Barron Aduriz
Fabian Staubach
Dept Evolutionary Biology and Ecology, Univ Freiburg, 79104 Freiburg, Germany;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Fabian Staubach
Jorge Vieira
Instituto de Biologia Molecular e Celular (IBMC) University of Porto, Porto, Portugal;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Jorge Vieira
Darren Obbard
Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, United Kingdom;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Darren Obbard
Clement Goubert
Lab de Biometrie et Biologie Evolutive, UMR CNRS 5558, Univ Lyon 1, Lyon, France;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Clement Goubert
Omar Rota Stabelli
Res and Innovation Centre, Fondazione Edmund Mach, San Michele all' Adige, Italy;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Omar Rota Stabelli
Maaria Kankare
Dept Biological and Environmental Science, Univ of Jyvaeskylae, Jyvaeskylae, Finland;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Maaria Kankare
Annabelle Haudry
Lab de Biometrie et Biologie Evolutive, UMR CNRS 5558, Univ Lyon 1, Lyon, France;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Annabelle Haudry
R. Axel W. Wiberg
Centre for Biological Diversity, School of Biology, Univ of St. Andrews, St Andrews, UK;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for R. Axel W. Wiberg
Lena Waidele
Dept Evolutionary Biology and Ecology, Univ Freiburg, 79104 Freiburg, Germany;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Lena Waidele
Iryna Kozeretska
General and Medical Genetics Dept, Taras Shevchenko National Univ Kyiv, Kyiv, Ukraine;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Iryna Kozeretska
Elena Pasyukova
Lab of Genome Variation, Institute of Molecular Genetics of RAS, Moscow, Russia;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Elena Pasyukova
Volker Loeschcke
Dept of Bioscience - Genetics, Ecology and Evolution, Aarhus Univ, Aarhus C, Denmark;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Volker Loeschcke
Marta Pascual
Depart de Genetica, Microbiologia i Estadistica, Univ de Barcelona, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Marta Pascual
Cristina P Vieira
Instituto de Biologia Molecular e Celular (IBMC) University of Porto, Porto, Portugal;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Cristina P Vieira
Svitlana Serga
General and Med Genetics Dept, Taras Shevchenko National Univ of Kyiv, Kyiv, Ukraine;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Svitlana Serga
Catherine Montchamp-Moreau
Laboratoire Evolution, Genomes, Comportement et Ecologie (EGCE), Univ Paris Saclay;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Catherine Montchamp-Moreau
Jessica Abbott
Department of Biology, Section for Evolutionary Ecology, Lund, Sweden;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Jessica Abbott
Patricia Gibert
Lab de Biometrie et Biologie Evolutive, UMR CNRS 5558, Univ Lyon 1, Lyon, France;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Patricia Gibert
Damiano Porcelli
Department of Animal and Plant Sciences, Sheffield, United Kingdom;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Damiano Porcelli
Nico Posnien
Univ Goettingen, Johann-Friedrich-Blumenbach-Institut fuer Zoologie und Anthropologie;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Nico Posnien
Sonja Grath
Div of Evolutionary Biol, Faculty of Biology, Ludwig-Maximilians-Universitaet Muenchen;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Sonja Grath
Elio Sucena
Instituto Gulbenkian de Ciencia, Oeiras, Portugal;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Elio Sucena
Alan Bergland
Department of Biology, University of Virginia, Charlottesville, VA, USA;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Alan Bergland
Maria Pilar Garcia Guerreiro
Dept de Genetica i Microbiologia, Universitat Autonoma de Barcelona, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Banu Sebnem Onder
Department of Biology, Faculty of Science, Hacettepe University, Ankara, Turkey;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Banu Sebnem Onder
Eliza Argyridou
Div of Evolutionary Biol, Faculty of Biology, Ludwig-Maximilians-Universitaet Muenchen;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Eliza Argyridou
Lain Guio
Institute of Evolutionary Biology, CSIC-Universitat Pompeu Fabra, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Lain Guio
Mads Fristrup Schou
Dept of Bioscience - Genetics, Ecology and Evolution, Aarhus Univ, Aarhus C, Denmark;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Mads Fristrup Schou
Bart Deplancke
Lab of Syst Biol and Genetics, EPFL-SV-IBI-UPDEPLA, CH-1015 Lausanne, Switzerland;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Bart Deplancke
Cristina Vieira
Lab de Biometrie et Biologie Evolutive, UMR CNRS 5558, Univ Lyon 1, Lyon, France;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Cristina Vieira
Michael G Ritchie
Centre for Biological Diversity, School of Biol, Univ of St. Andrews, St Andrews, UK;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Michael G Ritchie
Bas Zwaan
Lab of Genetics, Dept of Plant Sciences, Wageningen Univ, Wageningen, Netherlands;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Bas Zwaan
Eran Tauber
Dept of Evolutionary and Environ Biol and Institute of Evolution, Univ of Haifa;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Eran Tauber
Dorcas Orengo
Dept de Genetica, Microbiologia i Estadistica, Univ de Barcelona, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Dorcas Orengo
Eva Puerma
Dept de Genetica, Microbiologia i Estadistica, Univ de Barcelona, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Eva Puerma
Montserrat Aguade
Dept de Genetica, Microbiologia i Estadistica, Univ de Barcelona, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Montserrat Aguade
Paul Schmidt
Department of Biology, University of Pennsylvania, Philadelphia, USA;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Paul Schmidt
John Parsch
Divi of Evol Biol, Faculty of Biology, Ludwig-Maximilians-Universitaet Muenchen;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for John Parsch
Andrea Betancourt
Institute of Integrative Biology, University of Liverpool, Liverpool, United Kingdom
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Andrea Betancourt
Thomas Flatt
Department of Biology, University of Fribourg, CH-1700 Fribourg, Switzerland;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Thomas Flatt
Josefa Gonzalez
Institute of Evolutionary Biology, CSIC-Universitat Pompeu Fabra, Barcelona, Spain;
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Josefa Gonzalez
  • For correspondence: josefa.gonzalez@ibe.upf-csic.es
  • Abstract
  • Info/History
  • Metrics
  • Supplementary material
  • Preview PDF
Loading

Abstract

Genetic variation is the fuel of evolution. However, analyzing evolutionary dynamics in natural populations is challenging, sequencing of entire populations remains costly and comprehensive sampling logistically difficult. To tackle this issue and to define relevant spatial and temporal scales of variation, we have founded the European Drosophila Population Genomics Consortium (DrosEU). Here we present the first analysis of 48 D. melanogaster population samples collected across Europe in 2014. Our analysis uncovers novel patterns of variation at multiple levels: genome-wide neutral SNPs, mtDNA haplotypes, inversions, and TEs showing previously cryptic longitudinal population structure; signatures of selective sweeps shared among populations; presumably adaptive clines in inversions; and geographic variation in TEs. Additionally, we document highly variable microbiota and identify several new Drosophila viruses. Our study reveals novel aspects of the population biology of D. melanogaster and illustrates the power of extensive sampling and pooled sequencing of populations on a continent-wide scale.

Footnotes

  • Title and Abstract updated and streamlined; Figures and supplemental Figures included in the Text; Minor edits to the Main text; Reference list updated

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Back to top
PreviousNext
Posted June 04, 2018.
Download PDF

Supplementary Material

Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Genomic analysis of European Drosophila populations reveals longitudinal structure and continent-wide selection
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
Share
Genomic analysis of European Drosophila populations reveals longitudinal structure and continent-wide selection
Martin Kapun, Maite Garazi Barron Aduriz, Fabian Staubach, Jorge Vieira, Darren Obbard, Clement Goubert, Omar Rota Stabelli, Maaria Kankare, Annabelle Haudry, R. Axel W. Wiberg, Lena Waidele, Iryna Kozeretska, Elena Pasyukova, Volker Loeschcke, Marta Pascual, Cristina P Vieira, Svitlana Serga, Catherine Montchamp-Moreau, Jessica Abbott, Patricia Gibert, Damiano Porcelli, Nico Posnien, Sonja Grath, Elio Sucena, Alan Bergland, Maria Pilar Garcia Guerreiro, Banu Sebnem Onder, Eliza Argyridou, Lain Guio, Mads Fristrup Schou, Bart Deplancke, Cristina Vieira, Michael G Ritchie, Bas Zwaan, Eran Tauber, Dorcas Orengo, Eva Puerma, Montserrat Aguade, Paul Schmidt, John Parsch, Andrea Betancourt, Thomas Flatt, Josefa Gonzalez
bioRxiv 313759; doi: https://doi.org/10.1101/313759
Digg logo Reddit logo Twitter logo CiteULike logo Facebook logo Google logo Mendeley logo
Citation Tools
Genomic analysis of European Drosophila populations reveals longitudinal structure and continent-wide selection
Martin Kapun, Maite Garazi Barron Aduriz, Fabian Staubach, Jorge Vieira, Darren Obbard, Clement Goubert, Omar Rota Stabelli, Maaria Kankare, Annabelle Haudry, R. Axel W. Wiberg, Lena Waidele, Iryna Kozeretska, Elena Pasyukova, Volker Loeschcke, Marta Pascual, Cristina P Vieira, Svitlana Serga, Catherine Montchamp-Moreau, Jessica Abbott, Patricia Gibert, Damiano Porcelli, Nico Posnien, Sonja Grath, Elio Sucena, Alan Bergland, Maria Pilar Garcia Guerreiro, Banu Sebnem Onder, Eliza Argyridou, Lain Guio, Mads Fristrup Schou, Bart Deplancke, Cristina Vieira, Michael G Ritchie, Bas Zwaan, Eran Tauber, Dorcas Orengo, Eva Puerma, Montserrat Aguade, Paul Schmidt, John Parsch, Andrea Betancourt, Thomas Flatt, Josefa Gonzalez
bioRxiv 313759; doi: https://doi.org/10.1101/313759

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Evolutionary Biology
Subject Areas
All Articles
  • Animal Behavior and Cognition (998)
  • Biochemistry (1489)
  • Bioengineering (943)
  • Bioinformatics (6821)
  • Biophysics (2418)
  • Cancer Biology (1783)
  • Cell Biology (2527)
  • Clinical Trials (106)
  • Developmental Biology (1691)
  • Ecology (2564)
  • Epidemiology (1491)
  • Evolutionary Biology (5018)
  • Genetics (3613)
  • Genomics (4625)
  • Immunology (1164)
  • Microbiology (4244)
  • Molecular Biology (1622)
  • Neuroscience (10777)
  • Paleontology (82)
  • Pathology (236)
  • Pharmacology and Toxicology (409)
  • Physiology (555)
  • Plant Biology (1455)
  • Scientific Communication and Education (411)
  • Synthetic Biology (542)
  • Systems Biology (1871)
  • Zoology (259)