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Title:   Author  item
                                            SILVA, MARCOS - Labex - Embrapaitem
                                            Vanraden, Paulitem
                                            Van Tassell, Curtis

                                                         - *Curt*item
                                            Sonstegard, Taditem
                                            MATUKUMALLI, LAKSHMI - George Mason Universityitem
                                            Schroeder, Steven

                                                         - *Steve*item
                                            Kim, Eui-Sooitem
                                            Wiggans, George
  Submitted to: Brazilian Animal Science Society
                                    Publication Type: Peer Reviewed Journal
                                    Publication Acceptance Date: 4/15/2009
                                    Publication  Date: 7/17/2009
                                    Citation: Silva, M., Van Raden, P.M., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Kim, E., Wiggans, G.R. 2009. Análise de Associação por Todo o Genoma para Identificar Locos Relacionados ao Lucro Líquido, à Vida Produtiva e ao Escore de Células Somáticas na raça Jersey1. Brazilian Animal Science Society.Interpretive Summary: A genome scan was conducted in the US Jersey population to identify QTL affecting net merit, productive life, and somatic cell score. Data used at this study were traditional genetic evaluations computed from DHI records by Animal Improvement Programs Laboratory, USDA/EUA. DNA has been acquired for 2,380 animals from Jersey breed and genetic evaluations released in Feb/2009 (http://greenbook.usjersey.com/) for 2,081 animals were used for the whole-genome association. Genotyping was performed using Illumina’s BovineSNP50 BeadChip with approximately 54,000 SNPs. For GWA study, any SNP with low call rate (<99%), departure from Hardy-Weinberg equilibrium (exact test p<0.01), and minor allele frequency below 5 percent, were excluded from the final analysis (30,342 markers retained). Bonferroni corrected level of 0.01 were used. For all traits, significant SNPs were found on many chromosomes, especially on BTAs 3, 4, 5, 6, 10, 12, 23, and 25. Most parts of the significant SNPs were located in similar positions on the chromosomes for all traits. Some of them localized within a single linkage disequilibrium (LD) block. Results suggest that marker solutions from genomic evaluations may be useful for identifying chromosomal regions that merit further study.
                                Technical Abstract: A genome scan was conducted in the US Jersey population to identify QTL affecting net merit, productive life, and somatic cell score. Data used at this study were DHI records from the national database of the Animal Improvement Programs Laboratory, USDA (Beltsville, MD). DNA was acquired for 2,380 animals from Jersey breed and genetic evaluations released in Feb/2009 (http://greenbook.usjersey.com/) from 2,081 animals was used for the whole-genome association. Genotyping was performed using Illumina’s BovineSNP50 BeadChip with approximately 54,000 SNPs. For GWA analysis, any SNP with low call rate (<99%), departure from Hardy-Weinberg equilibrium (exact test p<0.01), and minor allele frequency below 5 percent, were excluded from the final analysis (30,342 markers retained). Bonferroni corrected level of 0.01 were used. For all traits, significant SNPs were found on many chromosomes, especially on BTAs 3, 4, 5, 6, 10, 12, 23, and 25. For the most part of the significant SNPs were located in similar positions on the chromosomes for all traits. Some were localized within a single linkage disequilibrium (LD) block. Results suggest that marker solutions from genomic evaluations may be useful for identifying chromosomal regions that merit further study.


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