Discovery, characterization and validation of single nucleotide polymorphisms within 206 bovine genes that may be considered as candidate genes for beef production and quality
| Autor: | Alessandra Crisà, R. Perez Gomez, John L. Williams, M.L. Checa, P. Ajmone Marsan, D. Domínguez García, Valérie Amarger, Riccardo Negrini, Raffaele Mazza, Susana Dunner, Didier Delourme, Hubert Levéziel, Frédéric Grandjean, Cinzia Marchitelli, N. Razzaq, Alessio Valentini |
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| Přispěvatelé: | Parco Tecnologico Padano, Division of Genetics and Genomics, The Roslin Institute, Departamento de Producción Animal, Facultad de Veterinaria, Dipartimento di Produzioni Animali, Tuscia University, Latemar Unit, Istituto di Zootecnica, Università Cattolica del Sacro Cuore, Unité de Génétique Moléculaire Animale (UGMA), Université de Limoges (UNILIM)-Institut National de la Recherche Agronomique (INRA), Istituto di Zootecnica, Università cattolica del Sacro Cuore [Milano] (Unicatt), Unité de Génétique Moléculaire Animale (UMR GMA), Institut National de la Recherche Agronomique (INRA)-Université de Limoges (UNILIM) |
| Předmět: |
Candidate gene
dbSNP [SDV]Life Sciences [q-bio] Single-nucleotide polymorphism Biology Quantitative trait locus Polymorphism Single Nucleotide polymorphism meat 03 medical and health sciences Gene Frequency Genetics Animals Allele frequency 030304 developmental biology Radiation Hybrid Mapping 0303 health sciences 0402 animal and dairy science snp Sequence Analysis DNA 04 agricultural and veterinary sciences General Medicine Chromosomes Mammalian 040201 dairy & animal science SNP genotyping Minor allele frequency Bovine genome Phenotype cattle Body Composition Animal Science and Zoology |
| Zdroj: | Università Cattolica del Sacro Cuore-IRIS Animal Genetics Animal Genetics, Wiley-Blackwell, 2009, 40 (4), pp.486-491. ⟨10.1111/j.1365-2052.2009.01874.x⟩ |
| ISSN: | 0268-9146 1365-2052 |
| DOI: | 10.1111/j.1365-2052.2009.01874.x⟩ |
| Popis: | Chantier qualité GA; A large number of putative single nucleotide polymorphisms (SNPs) have been identified from the bovine genome-sequencing project. However, few of these have been validated and many will turn out to be sequencing artefacts or have low minor allele frequencies. In addition, there is little information available on SNPs within coding regions, which are likely to be responsible for phenotypic variation. Therefore, additional SNP discovery is necessary to identify and validate polymorphisms both in specific genes and genome-wide. Sequence-tagged sites within 286 genes were resequenced from a panel of animals representing a wide range of European cattle breeds. For 80 genes, no polymorphisms were identified, and 672 putative SNPs were identified within 206 genes. Fifteen European cattle breeds (436 individuals plus available parents) were genotyped with these putative SNPs, and 389 SNPs were confirmed to have minor allele frequencies above 10%. The genes containing SNPs were localized on chromosomes by radiation hybrid mapping and on the bovine genome sequence by Blast. Flanking microsatellite loci were identified, to facilitate the alignment of the genes containing the SNPs in relation to mapped quantitative trait loci. Of the 672 putative SNPs discovered in this work, only 11 were found among the validated SNPs and 100 were found among the approximately 2.3 million putative SNPs currently in dbSNP. The genes studied in this work could be considered as candidates for traits associated with beef production and the SNPs reported will help to assess the role of the genes in the genetic control of muscle development and meat quality. The allele frequency data presented allows the general utility of the SNPs to be assessed. |
| Databáze: | OpenAIRE |
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