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Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip

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Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip

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dc.contributor.author Fernández, A.I. es_ES
dc.contributor.author Pérez-Montarelo, D. es_ES
dc.contributor.author Barragan, C. es_ES
dc.contributor.author Ramayo-Caldas, Y. es_ES
dc.contributor.author Ibáñez-Escriche, Noelia es_ES
dc.contributor.author Castelló, A. es_ES
dc.contributor.author Noguera, J.L. es_ES
dc.contributor.author Silió, L. es_ES
dc.contributor.author Folch, J.M. es_ES
dc.contributor.author Rodríguez, M.C. es_ES
dc.date.accessioned 2020-09-19T03:34:17Z
dc.date.available 2020-09-19T03:34:17Z
dc.date.issued 2012-05-20 es_ES
dc.identifier.uri http://hdl.handle.net/10251/150440
dc.description.abstract [EN] Background: The traditional strategy to map QTL is to use linkage analysis employing a limited number of markers. These analyses report wide QTL confidence intervals, making very difficult to identify the gene and polymorphisms underlying the QTL effects. The arrival of genome-wide panels of SNPs makes available thousands of markers increasing the information content and therefore the likelihood of detecting and fine mapping QTL regions. The aims of the current study are to confirm previous QTL regions for growth and body composition traits in different generations of an Iberian x Landrace intercross (IBMAP) and especially identify new ones with narrow confidence intervals by employing the PorcineSNP60 BeadChip in linkage analyses. Results: Three generations (F3, Backcross 1 and Backcross 2) of the IBMAP and their related animals were genotyped with PorcineSNP60 BeadChip. A total of 8,417 SNPs equidistantly distributed across autosomes were selected after filtering by quality, position and frequency to perform the QTL scan. The joint and separate analyses of the different IBMAP generations allowed confirming QTL regions previously identified in chromosomes 4 and 6 as well as new ones mainly for backfat thickness in chromosomes 4, 5, 11, 14 and 17 and shoulder weight in chromosomes 1, 2, 9 and 13; and many other to the chromosome-wide signification level. In addition, most of the detected QTLs displayed narrow confidence intervals, making easier the selection of positional candidate genes. Conclusions: The use of higher density of markers has allowed to confirm results obtained in previous QTL scans carried out with microsatellites. Moreover several new QTL regions have been now identified in regions probably not covered by markers in previous scans, most of these QTLs displayed narrow confidence intervals. Finally, prominent putative biological and positional candidate genes underlying those QTL effects are listed based on recent porcine genome annotation. es_ES
dc.description.sponsorship This work was funded by MICINN projects AGL2008-04818-C03/GAN and CSD2007-00036. DPM was funded by a FPI Ph.D grant from the Spanish Ministerio de Educacion (BES-2009-025417). YR was funded by a FPU Ph.D grant from the Spanish Ministerio de Educacion (AP2008-01450). We want to thanks to Dr. Martien Groenen (Wageningen, NL) for the SNP annotation on porcine genome assembly, to Anna Mercade for her technical assistance with the SNPs genotyping and to Rita Benitez and Fabian Garcia for technical support. es_ES
dc.language Inglés es_ES
dc.publisher Springer (Biomed Central Ltd.) es_ES
dc.relation.ispartof BMC Genetics es_ES
dc.rights Reconocimiento (by) es_ES
dc.subject QTL es_ES
dc.subject PorcineSNP60 Beadchip es_ES
dc.subject Growth es_ES
dc.subject Fatness es_ES
dc.subject Body conformation es_ES
dc.subject.classification PRODUCCION ANIMAL es_ES
dc.title Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip es_ES
dc.type Artículo es_ES
dc.identifier.doi 10.1186/1471-2156-13-41 es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MICINN//AGL2008-04818-C03-03/ES/GENES CANDIDATOS E IDENTIFICACION GENOMICA DE LOCI Y RUTAS GENICAS QUE AFECTAN A LA CALIDAD DE LA CARNE EN CERDOS/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MICINN//AGL2008-04818-C03-02/ES/GENES CANDIDATOS E IDENTIFICACION GENOMICA DE LOCI Y RUTAS GENETICAS QUE AFECTAN A LA CALIDAD DE LA CARNE EN CERDOS/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MECD//AP2008-01450/ES/AP2008-01450/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MICINN//AGL2008-04818-C03-01/ES/GENES CANDIDATOS E IDENTIFICACION GENOMICA DE LOCI Y RUTAS GENETICAS QUE AFECTAN A LA CALIDAD DE LA CARNE EN CERDOS/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MEC//CSD2007-00036/ES/Centro de Genómica Básica y de orientación Agroalimentaria/ es_ES
dc.relation.projectID info:eu-repo/grantAgreement/MICINN//BES-2009-025417-2/ES/BES-2009-025417-2/ es_ES
dc.rights.accessRights Abierto es_ES
dc.contributor.affiliation Universitat Politècnica de València. Departamento de Ciencia Animal - Departament de Ciència Animal es_ES
dc.description.bibliographicCitation Fernández, A.; Pérez-Montarelo, D.; Barragan, C.; Ramayo-Caldas, Y.; Ibáñez-Escriche, N.; Castelló, A.; Noguera, J.... (2012). Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip. BMC Genetics. 13:1-11. https://doi.org/10.1186/1471-2156-13-41 es_ES
dc.description.accrualMethod S es_ES
dc.relation.publisherversion https://doi.org/10.1186/1471-2156-13-41 es_ES
dc.description.upvformatpinicio 1 es_ES
dc.description.upvformatpfin 11 es_ES
dc.type.version info:eu-repo/semantics/publishedVersion es_ES
dc.description.volume 13 es_ES
dc.identifier.eissn 1471-2156 es_ES
dc.identifier.pmid 22607048 es_ES
dc.identifier.pmcid PMC3432624 es_ES
dc.relation.pasarela S\395264 es_ES
dc.contributor.funder Ministerio de Ciencia e Innovación es_ES
dc.contributor.funder Ministerio de Educación y Ciencia es_ES
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