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

Martin Kapun 1 Maite Barrón 2 Fabian Staubach 3 Darren Obbard 4 R Axel W. Wiberg 5, 6 Jorge Vieira 7 Clément Goubert 8 Omar Rota-Stabelli 9 Maaria Kankare 10 María Bogaerts-Márquez 2 Annabelle Haudry 8 Lena Waidele 3 Iryna Kozeretska 11 Elena G Pasyukov 12 Volker Loeschcke 13 Marta Pascual 14 Cristina P Vieira 15, 16, 17, 8 Svitlana Serga 11 Catherine Montchamp-Moreau 18 Jessica Abbott 19 Patricia Gibert 20, 8 Damiano Porcelli 21 Nico Posnien 22 Alejandro Sánchez-Gracia 14 Sonja Grath 23 Élio Sucena 24 Alan Bergland 25 Maria Pilar Garcia Guerreiro 26 Banu Sebnem Onder 27 Eliza Argyridou 23 Lain Guio 2 Fristrup Schou 19 Bart Deplancke 28 Cristina Vieira 8 Michael Ritchie 5 Bas Zwaan 29 Eran Tauber 30 Dorcas Orengo 14 Eva Puerma 14 Montserrat Aguadé 14 Paul Schmidt 31 John Parsch 23 Andrea Betancourt 32 Thomas Flatt 33 Josefa González 2
15 Eléments transposables, évolution, populations
GINSENG - Département génétique, interactions et évolution des génomes [LBBE]
20 Génétique et évolution des interactions hôtes-parasites
GINSENG - Département génétique, interactions et évolution des génomes [LBBE]
Abstract : 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.
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Martin Kapun, Maite Barrón, Fabian Staubach, Darren Obbard, R Axel W. Wiberg, et al.. Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses. Molecular Biology and Evolution, Oxford University Press (OUP), 2020, 37 (9), pp.2661-2678. ⟨10.1093/molbev/msaa120⟩. ⟨hal-03014405⟩

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