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SuperSAGE digital expression analysis of differential growth rate in a European sea bass population

2019Journal article Open access
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dc.contributor.authorLouro, Bruno
dc.contributor.authorMartins, Rute S.T.
dc.contributor.authorPinto, Patricia IS
dc.contributor.authorReinhardt, Richard
dc.contributor.authorde Koning, Dirk-Jan
dc.contributor.authorCanario, Adelino
dc.contributor.authorPower, Deborah
dc.date.accessioned2020-08-04T10:43:41Z
dc.date.available2020-08-04T10:43:41Z
dc.date.issued2019
dc.description.abstractOne of the goals of the aquaculture industry is to understand and control growth associated traits through selective breeding. In the present study the molecular basis of growth heterogeneity in the European sea bass (Dicentrarchus labrax) was addressed. To establish growth heterogeneity in a group of hatchery bred sea bass individuals were tagged and their specific growth rates (SGR) determined at monthly intervals. Gene expression in the brain, liver and white muscle from fish with the most divergent sustained SGR (6 individuals of the first and last quartile) was assessed using SuperSAGE (Serial Analysis Gene Expression) combined with next generation SOLiD4 sequencing. A total of approx. 11 million edited tags (26 bp), on average 2 million tags per SAGE library, that represented 47.071 unique transcripts were identified. Comparison of transcripts in fish with high and low SGR yielded 344, 698 and 601 differently expressed tags (0.01% false discovery rate and 4-fold change) in brain, liver and muscle, respectively. The tags were mapped onto the sea bass genome and approximately one third of the tags could be assigned to annotated genes. Pathway enrichment analysis revealed in liver, muscle and brain intricate gene expression changes in endocrine regulatory pathways involved in growth, metabolic and the stress axis, underlying divergent SGR in sea bass.pt_PT
dc.description.sponsorshipFunding by the European Commission of the European Union through the Network of Excellence Marine Genomics Europe (contract GOCE-CT-2004-505403) and by the Portuguese Foundation for Science and Technology (FCT)pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.doi10.1016/j.aaf.2018.03.001pt_PT
dc.identifier.urihttp://hdl.handle.net/10400.1/14590
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherElsevierpt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectEuropean sea basspt_PT
dc.subjectSpecific growth ratept_PT
dc.subjectGene expressionpt_PT
dc.subjectSuperSAGEpt_PT
dc.subjectPathwayspt_PT
dc.titleSuperSAGE digital expression analysis of differential growth rate in a European sea bass populationpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/5876/UID%2FMulti%2F04326%2F2013/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBPD%2F25247%2F2005/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBD%2F29171%2F2006/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBPD%2F66742%2F2009/PT
oaire.citation.endPage26pt_PT
oaire.citation.issue1pt_PT
oaire.citation.startPage17pt_PT
oaire.citation.titleAquaculture and Fisheriespt_PT
oaire.citation.volume4pt_PT
oaire.fundingStream5876
oaire.fundingStreamSFRH
oaire.fundingStreamSFRH
oaire.fundingStreamSFRH
person.familyNameLouro
person.familyNamePinto
person.familyNameCanario
person.familyNamePower
person.givenNameBruno
person.givenNamePatricia IS
person.givenNameAdelino
person.givenNameDeborah Mary
person.identifier643457
person.identifier143624
person.identifier.ciencia-idE51D-5CCB-B1C6
person.identifier.ciencia-id1F1E-D3B3-F804
person.identifier.ciencia-id891A-8A44-3CAE
person.identifier.orcid0000-0001-8164-581X
person.identifier.orcid0000-0001-7854-3898
person.identifier.orcid0000-0002-6244-6468
person.identifier.orcid0000-0003-1366-0246
person.identifier.ridM-3817-2013
person.identifier.ridC-7942-2009
person.identifier.scopus-author-id16028940200
person.identifier.scopus-author-id10240774300
person.identifier.scopus-author-id56568523700
person.identifier.scopus-author-id7101806760
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
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