GenPhySE, Université de Toulouse, INRAE, ENVT, Castanet Tolosan, France.
CSIRO Agriculture & Food, Brisbane, QLD, Australia.
J Anim Breed Genet. 2020 Nov;137(6):599-608. doi: 10.1111/jbg.12500. Epub 2020 Aug 17.
The correlation between pedigree and genomic-based inbreeding coefficients is usually discussed in the literature. However, some of these correlations could be spurious. Using partial correlations and information theory, it is possible to distinguish a significant association between two variables which is independent from associations with a third variable. The objective of this study is to implement partial correlations and information theory to assess the relationship between different inbreeding coefficients using a selected population of rabbits. Data from pedigree and genomic information from a 200K SNP chip were available. After applying filtering criteria, the data set comprised 437 animals genotyped for 114,604 autosomal SNP. Fifteen pedigree- and genome-based inbreeding coefficients were estimated and used to build a network. Recent inbreeding coefficient based on runs of homozygosity had 9 edges linking it with different inbreeding coefficients. Partial correlations and information theory approach allowed to infer meaningful associations between inbreeding coefficients and highlighted the importance of the recent inbreeding based on runs of homozygosity, but a good proxy of it could be those pedigree-based definitions reflecting recent inbreeding.
家系和基于基因组的近交系数之间的相关性通常在文献中讨论。然而，其中一些相关性可能是虚假的。使用偏相关和信息理论，可以区分两个变量之间与第三个变量无关的显著关联。本研究的目的是使用选定的兔群实施偏相关和信息理论，以评估不同近交系数之间的关系。可用的是家系和来自 200K SNP 芯片的基因组信息。应用过滤标准后，数据集包括 437 只动物，对 114604 个常染色体 SNP 进行了基因分型。估计了 15 个基于家系和基因组的近交系数，并用于构建网络。基于纯合子运行的近期近交系数有 9 个边缘与不同的近交系数相连。偏相关和信息理论方法允许推断近交系数之间的有意义的关联，并强调了基于纯合子运行的近期近交系数的重要性，但它的一个很好的代理可以是那些反映近期近交的基于家系的定义。
