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Nat Commun. 2014 Dec 23;5:5770. doi: 10.1038/ncomms6770.

European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation.

Author information

1
1] Max Planck Genome-centre Cologne, Carl-von-Linné-Weg 10, D-50829 Köln, Germany [2] Max Planck Institute for Molecular Genetics, Ihnestrasse 63, D-14195 Berlin, Germany [3].
2
1] Max Planck Institute for Molecular Genetics, Ihnestrasse 63, D-14195 Berlin, Germany [2].
3
1] Institut des Sciences de l'Evolution (UMR 5554), CNRS-UM2-IRD, Place Eugène Bataillon, F-34095 Montpellier, France [2] Station Méditerranéenne de l'Environnement Littoral, Université Montpellier 2, 2 Rue des Chantiers, F-34200 Sète, France [3].
4
CCMAR-Centre of Marine Sciences, University of Algarve, Building 7, Campus de Gambelas, 8005-139 Faro, Portugal.
5
Institut des Sciences de l'Evolution (UMR 5554), CNRS-UM2-IRD, Place Eugène Bataillon, F-34095 Montpellier, France.
6
1] Max Planck Institute for Molecular Genetics, Ihnestrasse 63, D-14195 Berlin, Germany [2] BCRT, Charité-Universitätsmedizin Berlin, Augustenburger Platz 1, D-13353 Berlin, Germany.
7
Max Planck Institute for Molecular Genetics, Ihnestrasse 63, D-14195 Berlin, Germany.
8
Max Planck Genome-centre Cologne, Carl-von-Linné-Weg 10, D-50829 Köln, Germany.
9
Institut de Ciències del Mar, Consejo Superior de Investigaciones Científicas (CSIC), Passeig Marítim, 37-49, 08003 Barcelona, Spain.
10
1] Institut des Sciences de l'Evolution (UMR 5554), CNRS-UM2-IRD, Place Eugène Bataillon, F-34095 Montpellier, France [2] Station Méditerranéenne de l'Environnement Littoral, Université Montpellier 2, 2 Rue des Chantiers, F-34200 Sète, France.
11
Laboratory of Biodiversity and Evolutionary Genomics, University of Leuven, Charles Deberiotstraat 32, B-3000 Leuven, Belgium.
12
Dipartimento di Biomedicina Comparata e Alimentazione, Università di Padova, I-35124 Padova, Italy.
13
1] Max Planck Genome-centre Cologne, Carl-von-Linné-Weg 10, D-50829 Köln, Germany [2] Max Planck Institute for Molecular Genetics, Ihnestrasse 63, D-14195 Berlin, Germany.

Abstract

The European sea bass (Dicentrarchus labrax) is a temperate-zone euryhaline teleost of prime importance for aquaculture and fisheries. This species is subdivided into two naturally hybridizing lineages, one inhabiting the north-eastern Atlantic Ocean and the other the Mediterranean and Black seas. Here we provide a high-quality chromosome-scale assembly of its genome that shows a high degree of synteny with the more highly derived teleosts. We find expansions of gene families specifically associated with ion and water regulation, highlighting adaptation to variation in salinity. We further generate a genome-wide variation map through RAD-sequencing of Atlantic and Mediterranean populations. We show that variation in local recombination rates strongly influences the genomic landscape of diversity within and differentiation between lineages. Comparing predictions of alternative demographic models to the joint allele-frequency spectrum indicates that genomic islands of differentiation between sea bass lineages were generated by varying rates of introgression across the genome following a period of geographical isolation.

PMID:
25534655
PMCID:
PMC4284805
DOI:
10.1038/ncomms6770
[Indexed for MEDLINE]
Free PMC Article

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