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Quantitative Genetics Model as the Unifying Model for Defining Genomic Relationship and Inbreeding Coefficient

机译:定量遗传学模型作为定义基因组关系和近交系数的统一模型

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摘要

The traditional quantitative genetics model was used as the unifying approach to derive six existing and new definitions of genomic additive and dominance relationships. The theoretical differences of these definitions were in the assumptions of equal SNP effects (equivalent to across-SNP standardization), equal SNP variances (equivalent to within-SNP standardization), and expected or sample SNP additive and dominance variances. The six definitions of genomic additive and dominance relationships on average were consistent with the pedigree relationships, but had individual genomic specificity and large variations not observed from pedigree relationships. These large variations may allow finding least related genomes even within the same family for minimizing genomic relatedness among breeding individuals. The six definitions of genomic relationships generally had similar numerical results in genomic best linear unbiased predictions of additive effects (GBLUP) and similar genomic REML (GREML) estimates of additive heritability. Predicted SNP dominance effects and GREML estimates of dominance heritability were similar within definitions assuming equal SNP effects or within definitions assuming equal SNP variance, but had differences between these two groups of definitions. We proposed a new measure of genomic inbreeding coefficient based on parental genomic co-ancestry coefficient and genomic additive correlation as a genomic approach for predicting offspring inbreeding level. This genomic inbreeding coefficient had the highest correlation with pedigree inbreeding coefficient among the four methods evaluated for calculating genomic inbreeding coefficient in a Holstein sample and a swine sample.
机译:传统的定量遗传学模型被用作统一的方法,以得出基因组加性和优势关系的六个现有和新定义。这些定义的理论差异是在相等的SNP效果(等同于跨SNP标准化),相等的SNP差异(等同于SNP内标准化)以及预期或样本SNP加性和优势差异的假设下。平均而言,基因组加性和优势关系的六个定义与谱系关系一致,但是具有个别的基因组特异性,并且从谱系关系中未观察到很大的差异。这些大的变异甚至可以在同一家族中找到最少的相关基因组,以使繁殖个体之间的基因组相关性最小化。基因组关系的六个定义在加性效应的最佳基因组最佳线性无偏预测(GBLUP)和加性遗传力的相似的基因组REML(GREML)估计中通常具有相似的数值结果。在假设相等的SNP效应的定义内或假设相等的SNP方差的定义内,预测的SNP优势效应和GREML优势遗传力估计值相似,但两组定义之间存在差异。我们提出了一种基于亲本基因组同系系数和基因组加性相关性的基因组近亲系数的新方法,作为预测后代近亲水平的一种基因组方法。在评估荷斯坦样本和猪样本的基因组近交系数的四种评估方法中,该基因组近交系数与系谱近交系数的相关性最高。

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  • 作者

    Chunkao Wang; Yang Da;

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  • 年(卷),期 -1(9),12
  • 年度 -1
  • 页码 e114484
  • 总页数 23
  • 原文格式 PDF
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