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A gene-based radiation hybrid map of the gilthead sea bream Sparus aurata refines and exploits conserved synteny with Tetraodon nigroviridis

2007-02-07Journal article Open access
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dc.contributor.authorSarropoulou, Elena
dc.contributor.authorFranch, Rafaella
dc.contributor.authorLouro, Bruno
dc.contributor.authorPower, Deborah
dc.contributor.authorBargelloni, Luca
dc.contributor.authorMagoulas, Antonio
dc.contributor.authorSenger, Fabrice
dc.contributor.authorKotoulas, Georgios
dc.contributor.authorGeisler, Robert
dc.date.accessioned2014-10-15T09:06:00Z
dc.date.available2014-10-15T09:06:00Z
dc.date.issued2007-02-07
dc.description.abstractBackground: Comparative teleost studies are of great interest since they are important in aquaculture and in evolutionary issues. Comparing genomes of fully sequenced model fish species with those of farmed fish species through comparative mapping offers shortcuts for quantitative trait loci (QTL) detections and for studying genome evolution through the identification of regions of conserved synteny in teleosts. Here a comparative mapping study is presented by radiation hybrid (RH) mapping genes of the gilthead sea bream Sparus aurata, a non-model teleost fish of commercial and evolutionary interest, as it represents the worldwide distributed species-rich family of Sparidae. Results: An additional 74 microsatellite markers and 428 gene-based markers appropriate for comparative mapping studies were mapped on the existing RH map of Sparus aurata. The anchoring of the RH map to the genetic linkage map resulted in 24 groups matching the karyotype of Sparus aurata. Homologous sequences to Tetraodon were identified for 301 of the gene-based markers positioned on the RH map of Sparus aurata. Comparison between Sparus aurata RH groups and Tetraodon chromosomes (karyotype of Tetraodon consists of 21 chromosomes) in this study reveals an unambiguous one-to-one relationship suggesting that three Tetraodon chromosomes correspond to six Sparus aurata radiation hybrid groups. The exploitation of this conserved synteny relationship is furthermore demonstrated by in silico mapping of gilthead sea bream expressed sequence tags (EST) that give a significant similarity hit to Tetraodon. Conclusion: The addition of primarily gene-based markers increased substantially the density of the existing RH map and facilitated comparative analysis. The anchoring of this gene-based radiation hybrid map to the genome maps of model species broadened the pool of candidate genes that mainly control growth, disease resistance, sex determination and reversal, reproduction as well as environmental tolerance in this species, all traits of great importance for QTL mapping and marker assisted selection. Furthermore this comparative mapping approach will facilitate to give insights into chromosome evolution and into the genetic make up of the gilthead sea bream.por
dc.description.sponsorshipThis work was supported by the European Commission's 5th Framework Programme (Contract No. QLRT-CT-2000-01797, BRIDGE-MAP). The authors would like to acknowledge Marine Genomics Europe Network for providing cDNA sequences and Dimitrios Chatziplis for discussions concerning the comparison of the genetic linkage map to the radiation hybrid map. Furthermore, they thank Silke Rudolph-Geiger for mapping part of the loci and Ramona Doll for helping loading agarose gels.por
dc.identifier.citationElena Sarropoulou, Rafaella Franch, Bruno Louro, Deborah M Power, Luca Bargelloni, Antonios Magoulas, Fabrice Senger, Matina Tsalavouta, Tomaso Patarnello, Francis Galibert, Georgios Kotoulas, Robert Geisler, "A gene-based radiation hybrid map of the gilthead sea bream Sparus aurata refines and exploits conserved synteny with Tetraodon nigroviridis" in BMC Genomics 2007 7;8:44. Epub 2007 Feb 7.por
dc.identifier.doihttp://dx.doi.org/ 10.1186/1471-2164-8-44
dc.identifier.issn1471-2164
dc.identifier.otherAUT: DPO00386;
dc.identifier.urihttp://hdl.handle.net/10400.1/5311
dc.language.isoengpor
dc.peerreviewedyespor
dc.publisherBioMed Centralpor
dc.relation.publisherversionhttp://www.biomedcentral.com/1471-2164/8/44por
dc.subjectSparus auratapor
dc.subjectTetraodon nigroviridispor
dc.titleA gene-based radiation hybrid map of the gilthead sea bream Sparus aurata refines and exploits conserved synteny with Tetraodon nigroviridispor
dc.typejournal article
dspace.entity.typePublication
oaire.citation.issue44por
oaire.citation.titleBMC Genomicspor
oaire.citation.volume8por
person.familyNameLouro
person.familyNamePower
person.givenNameBruno
person.givenNameDeborah Mary
person.identifier.ciencia-id891A-8A44-3CAE
person.identifier.orcid0000-0001-8164-581X
person.identifier.orcid0000-0003-1366-0246
person.identifier.scopus-author-id16028940200
person.identifier.scopus-author-id7101806760
rcaap.rightsopenAccesspor
rcaap.typearticlepor
relation.isAuthorOfPublication3b22b64f-ba2d-4c42-8bf9-34b569eb7b6c
relation.isAuthorOfPublicationc68f5ffb-63f6-4c70-8957-29e464fb59c0
relation.isAuthorOfPublication.latestForDiscoveryc68f5ffb-63f6-4c70-8957-29e464fb59c0

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