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

Kapun, Martin ; Barron, Maite G. ; Staubach, Fabian ; Obbard, Darren J. ; Axel, R. ; Vieira, Jorge ; Goubert, Clement ; Rota-Stabelli, Omar ; Kankare, Maaria and Bogaerts-Marquez, Maria , et al. (2020) In Molecular biology and evolution 37(9). p.2661-2678
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... (More)

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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organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Adaptation, Clines, Demography, Population genomics, Selection, SNPs, Structural variants
in
Molecular biology and evolution
volume
37
issue
9
pages
18 pages
publisher
Oxford University Press
external identifiers
  • pmid:32413142
  • scopus:85090025034
ISSN
0737-4038
DOI
10.1093/molbev/msaa120
language
English
LU publication?
yes
id
e0604039-d211-4987-a5ad-a94439ce4bf7
date added to LUP
2020-12-28 15:01:01
date last changed
2025-05-02 09:27:05
@article{e0604039-d211-4987-a5ad-a94439ce4bf7,
  abstract     = {{<p>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.</p>}},
  author       = {{Kapun, Martin and Barron, Maite G. and Staubach, Fabian and Obbard, Darren J. and Axel, R. and Vieira, Jorge and Goubert, Clement and Rota-Stabelli, Omar and Kankare, Maaria and Bogaerts-Marquez, Maria and Haudry, Annabelle and Waidele, Lena and Kozeretska, Iryna and Pasyukova, Elena G. and Loeschcke, Volker and Pascual, Marta and Vieira, Cristina P. and Serga, Svitlana and Montchamp-Moreau, Catherine and Abbott, Jessica and Gibert, Patricia and Porcelli, Damiano and Posnien, Nico and Sanchez-Gracia, Alejandro and Grath, Sonja and Sucena, Elio and Bergland, Alan O. and Guerreiro, Maria Pilar Garcia and Onder, Banu Sebnem and Argyridou, Eliza and Guio, Lain and Schou, Mads Fristrup and Deplancke, Bart and Vieira, Cristina and Ritchie, Michael G. and Zwaan, Bas J. and Tauber, Eran and Orengo, Dorcas J. and Puerma, Eva and Aguade, Montserrat and Schmidt, Paul and Parsch, John and Betancourt, Andrea J. and Flatt, Thomas and Gonzalez, Josefa}},
  issn         = {{0737-4038}},
  keywords     = {{Adaptation; Clines; Demography; Population genomics; Selection; SNPs; Structural variants}},
  language     = {{eng}},
  number       = {{9}},
  pages        = {{2661--2678}},
  publisher    = {{Oxford University Press}},
  series       = {{Molecular biology and evolution}},
  title        = {{Genomic analysis of european drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses}},
  url          = {{http://dx.doi.org/10.1093/molbev/msaa120}},
  doi          = {{10.1093/molbev/msaa120}},
  volume       = {{37}},
  year         = {{2020}},
}