Genomic predictions for economically important traits in Brazilian Braford and Hereford beef cattle using true and imputed genotypes

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• 作者：Mario L. Piccoli ; Luiz F. Brito ; José Braccini ; Fernando F. Cardoso&#8230
• 关键词：Brazilian beef cattle ; Genomic selection ; Genotyping costs ; Genomic breeding values ; Imputation
• 刊名：BMC Genetics
• 出版年：2017
• 出版时间：December 2017
• 年：2017
• 卷：18
• 期：1
• 全文大小：469KB
• 刊物主题：Life Sciences, general; Animal Genetics and Genomics; Microbial Genetics and Genomics; Plant Genetics & Genomics; Genetics and Population Dynamics;
• 出版者：BioMed Central
• ISSN：1471-2156
• 卷排序：18

文摘

BackgroundGenomic selection (GS) has played an important role in cattle breeding programs. However, genotyping prices are still a challenge for implementation of GS in beef cattle and there is still a lack of information about the use of low-density Single Nucleotide Polymorphisms (SNP) chip panels for genomic predictions in breeds such as Brazilian Braford and Hereford. Therefore, this study investigated the effect of using imputed genotypes in the accuracy of genomic predictions for twenty economically important traits in Brazilian Braford and Hereford beef cattle. Various scenarios composed by different percentages of animals with imputed genotypes and different sizes of the training population were compared. De-regressed EBVs (estimated breeding values) were used as pseudo-phenotypes in a Genomic Best Linear Unbiased Prediction (GBLUP) model using two different mimicked panels derived from the 50 K (8 K and 15 K SNP panels), which were subsequently imputed to the 50 K panel. In addition, genomic prediction accuracies generated from a 777 K SNP (imputed from the 50 K SNP) were presented as another alternate scenario.