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Whole genome sequencing of turbot (Scophthalmus maximus; Pleuronectiformes): a fish adapted to demersal life

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dc.contributor.author Figueras, Antonio
dc.contributor.author Corvelo, André
dc.contributor.author Gómez Garrido, Jèssica
dc.contributor.author Gut, Marta
dc.contributor.author Gut, Ivo Glynne
dc.contributor.author Marcet Houben, Marina
dc.contributor.author Vlasova, Anna
dc.contributor.author Hermoso Pulido, Antonio
dc.contributor.author Guigó Serra, Roderic
dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-
dc.contributor.author Alioto, Tyler
dc.contributor.author Martínez, Paulino
dc.date.accessioned 2017-01-13T08:23:08Z
dc.date.available 2017-01-13T08:23:08Z
dc.date.issued 2016
dc.identifier.citation Figueras A, Robledo D, Corvelo A, Hermida M, Pereiro P, Rubiolo JA [et. al.]. Whole genome sequencing of turbot (Scophthalmus maximus; Pleuronectiformes): a fish adapted to demersal life. DNA Research. 2016; 23(3): 181-192. DOI: 10.1093/dnares/dsw007
dc.identifier.issn 1340-2838
dc.identifier.uri http://hdl.handle.net/10230/27885
dc.description.abstract The turbot is a flatfish (Pleuronectiformes) with increasing commercial value, which has prompted active genomic research aimed at more efficient selection. Here we present the sequence and annotation of the turbot genome, which represents a milestone for both boosting breeding programmes and ascertaining the origin and diversification of flatfish. We compare the turbot genome with model fish genomes to investigate teleost chromosome evolution. We observe a conserved macrosyntenic pattern within Percomorpha and identify large syntenic blocks within the turbot genome related to the teleost genome duplication. We identify gene family expansions and positive selection of genes associated with vision and metabolism of membrane lipids, which suggests adaptation to demersal lifestyle and to cold temperatures, respectively. Our data indicate a quick evolution and diversification of flatfish to adapt to benthic life and provide clues for understanding their controversial origin. Moreover, we investigate the genomic architecture of growth, sex determination and disease resistance, key traits for understanding local adaptation and boosting turbot production, by mapping candidate genes and previously reported quantitative trait loci. The genomic architecture of these productive traits has allowed the identification of candidate genes and enriched pathways that may represent useful information for future marker-assisted selection in turbot.
dc.description.sponsorship This work was funded by the Spanish Government: projects Consolider Ingenio: Aquagenomics (CSD2007-00002) and Metagenoma de la Península Ibérica (CSD2007-00005), Ministerio de Economía y Competitividad and European Regional Development Funds (AGL2012-35904), and Ministerio de Economía y Competitividad (AGL2014-51773 and AGL2014-57065-R); and Local Government Xunta de Galicia (GRC2014/010). P.P. and D.R. gratefully acknowledge the Spanish Ministerio de Educación for their FPU fellowships (AP2010-2408, AP2012-0254). Funding to pay the Open Access publication charges for this article was provided by the Ministerio de Economía y Competitividad (AGL2014-51773) and Xunta de Galicia (GRC2014/010).
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher Oxford University Press
dc.relation.ispartof DNA Research. 2016; 23(3): 181-192
dc.rights © The Author 2016. Published by Oxford University Press on behalf of Kazusa DNA Research Institute. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
dc.title Whole genome sequencing of turbot (Scophthalmus maximus; Pleuronectiformes): a fish adapted to demersal life
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1093/dnares/dsw007
dc.subject.keyword Turbot
dc.subject.keyword Genome sequencing
dc.subject.keyword Genetic map
dc.subject.keyword Genome evolution
dc.subject.keyword Productive traits
dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/AGL2014-51773
dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/AGL2014-57065-R
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

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