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

2014-12Journal article Open access
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dc.contributor.authorTine, Mbaye
dc.contributor.authorKuhl, Heiner
dc.contributor.authorGagnaire, Pierre-Alexandre
dc.contributor.authorLouro, Bruno
dc.contributor.authorDesmarais, Erick
dc.contributor.authorMartins, Rute S. T.
dc.contributor.authorHecht, Jochen
dc.contributor.authorKnaust, Florian
dc.contributor.authorBelkhir, Khalid
dc.contributor.authorKlages, Sven
dc.contributor.authorDieterich, Roland
dc.contributor.authorStueber, Kurt
dc.contributor.authorPiferrer, Francesc
dc.contributor.authorGuinand, Bruno
dc.contributor.authorBierne, Nicolas
dc.contributor.authorVolckaert, Filip A. M.
dc.contributor.authorBargelloni, Luca
dc.contributor.authorPower, Deborah M.
dc.contributor.authorBonhomme, Francois
dc.contributor.authorCanario, Adelino V. M.
dc.contributor.authorReinhardt, Richard
dc.date.accessioned2018-12-07T14:52:48Z
dc.date.available2018-12-07T14:52:48Z
dc.date.issued2014-12
dc.description.abstractThe 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.
dc.description.sponsorshipMARINE GENOMICS EUROPE [EU-FP6 505403]; Max Planck Society; French ANR [LABRAD-SEQ 11-PDOC-009-01, REGULBASS 09-GENM-003]; Veneto Region [Progetto 12/MI/2004]; Foundation for Science and Technology of Portugal [SFRH/BPD/66742/2009, SFRH/BPD/89889/2012]; [LIFECYCLE EU-FP7 222719]; [BMBF-01GS0805]
dc.description.versioninfo:eu-repo/semantics/publishedVersion
dc.identifier.doi10.1038/ncomms6770
dc.identifier.issn2041-1723
dc.identifier.urihttp://hdl.handle.net/10400.1/11216
dc.language.isoeng
dc.peerreviewedyes
dc.publisherNature Publishing Group
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectRecombination rate variation
dc.subjectMicrosatellite linkage map
dc.subjectDicentrarchus labrax L.
dc.subjectClaudin gene family
dc.subjectChromosome evolution
dc.subjectSnp Discovery
dc.subjectDe-Novo
dc.subjectSequence
dc.subjectAnnotation
dc.subjectTransition
dc.titleEuropean sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation
dc.typejournal article
dspace.entity.typePublication
oaire.citation.startPage5770
oaire.citation.titleNature Communications
oaire.citation.volume5
person.familyNameLouro
person.familyNamePower
person.familyNameCanario
person.givenNameBruno
person.givenNameDeborah Mary
person.givenNameAdelino
person.identifier143624
person.identifier.ciencia-id891A-8A44-3CAE
person.identifier.ciencia-id1F1E-D3B3-F804
person.identifier.orcid0000-0001-8164-581X
person.identifier.orcid0000-0003-1366-0246
person.identifier.orcid0000-0002-6244-6468
person.identifier.ridC-7942-2009
person.identifier.scopus-author-id16028940200
person.identifier.scopus-author-id7101806760
person.identifier.scopus-author-id56568523700
rcaap.rightsopenAccess
rcaap.typearticle
relation.isAuthorOfPublication3b22b64f-ba2d-4c42-8bf9-34b569eb7b6c
relation.isAuthorOfPublicationc68f5ffb-63f6-4c70-8957-29e464fb59c0
relation.isAuthorOfPublication5f6e51ee-9113-469e-8b9e-f30f2d452521
relation.isAuthorOfPublication.latestForDiscovery5f6e51ee-9113-469e-8b9e-f30f2d452521

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