使用 LDL′ 变换的标准遗传模型和递归遗传模型之间方差成分的等效性

IF 3.6 1区 农林科学 Q1 AGRICULTURE, DAIRY & ANIMAL SCIENCE Genetics Selection Evolution Pub Date : 2024-05-02 DOI:10.1186/s12711-024-00901-x
Luis Varona, David López-Carbonell, Houssemeddine Srihi, Carlos Hervás-Rivero, Óscar González-Recio, Juan Altarriba
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引用次数: 0

摘要

递归模型是结构方程模型的一个类别,它提出了性状之间的因果关系。与多性状模型相比,这些模型的参数化程度较高,需要对参数空间施加限制以确保统计识别。然而,在某些情况下,递归模型和多重性状模型的可能性是等同的。因此,可以通过 LDL′或块-LDL′变换,将多性状混合模型得出的方差分量估计值转换为多个递归模型下的估计值。该方法适用于一个数据集,该数据集包括皮瑞尼卡肉牛品种的五个性状(出生体重-BW、90 天体重-W90、210 天体重-W210、冷胴体重-CCW 和体型-CON)。这些表型记录在 149029 头牛中分布不均,数据缺失率很高。所使用的血统由 343 753 个个体组成。使用 Gibbs 采样器,采用贝叶斯方法建立了一个多性状混合模型。吉布斯采样器每次迭代得到的方差分量随后被用来估计三个不同递归模型中的方差分量。将 LDL′ 或 block-LDL′ 转换应用于从多性状混合模型中得到的方差分量估计值,可以在多组递归模型中进行推断,唯一的前提是似然等效。此外,在递归模型领域进行推断时,上述变换简化了对缺失数据的处理。
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Equivalence of variance components between standard and recursive genetic models using LDL′ transformations
Recursive models are a category of structural equation models that propose a causal relationship between traits. These models are more parameterized than multiple trait models, and they require imposing restrictions on the parameter space to ensure statistical identification. Nevertheless, in certain situations, the likelihood of recursive models and multiple trait models are equivalent. Consequently, the estimates of variance components derived from the multiple trait mixed model can be converted into estimates under several recursive models through LDL′ or block-LDL′ transformations. The procedure was employed on a dataset comprising five traits (birth weight—BW, weight at 90 days—W90, weight at 210 days—W210, cold carcass weight—CCW and conformation—CON) from the Pirenaica beef cattle breed. These phenotypic records were unequally distributed among 149,029 individuals and had a high percentage of missing data. The pedigree used consisted of 343,753 individuals. A Bayesian approach involving a multiple-trait mixed model was applied using a Gibbs sampler. The variance components obtained at each iteration of the Gibbs sampler were subsequently used to estimate the variance components within three distinct recursive models. The LDL′ or block-LDL′ transformations applied to the variance component estimates achieved from a multiple trait mixed model enabled inference across multiple sets of recursive models, with the sole prerequisite of being likelihood equivalent. Furthermore, the aforementioned transformations simplify the handling of missing data when conducting inference within the realm of recursive models.
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来源期刊
Genetics Selection Evolution
Genetics Selection Evolution 生物-奶制品与动物科学
CiteScore
6.50
自引率
9.80%
发文量
74
审稿时长
1 months
期刊介绍: Genetics Selection Evolution invites basic, applied and methodological content that will aid the current understanding and the utilization of genetic variability in domestic animal species. Although the focus is on domestic animal species, research on other species is invited if it contributes to the understanding of the use of genetic variability in domestic animals. Genetics Selection Evolution publishes results from all levels of study, from the gene to the quantitative trait, from the individual to the population, the breed or the species. Contributions concerning both the biological approach, from molecular genetics to quantitative genetics, as well as the mathematical approach, from population genetics to statistics, are welcome. Specific areas of interest include but are not limited to: gene and QTL identification, mapping and characterization, analysis of new phenotypes, high-throughput SNP data analysis, functional genomics, cytogenetics, genetic diversity of populations and breeds, genetic evaluation, applied and experimental selection, genomic selection, selection efficiency, and statistical methodology for the genetic analysis of phenotypes with quantitative and mixed inheritance.
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