ArticleGenetics, selection, evolution : GSE2021
Dissecting genetic trends to understand breeding practices in livestock: a maternal pig line example.
Article in Genetics, selection, evolution : GSE, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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6 citing papers in PubMed, 38 citations in OpenAlex.
- Multiple Trait Bayesian Analysis of Partitioned Genetic Trends Accounting for Uncertainty in Genetic Parameters. An Example With the Pirenaica and Rubia Gallega Beef Cattle Breeds.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2025Article
- Aligning phenotypic and genetic trends: comparing trends from threshold and linear models in pigs.Journal of animal science · 2025Article
- Potential negative effects of genomic selection.Journal of animal science · 2024Article
- A method for partitioning trends in genetic mean and variance to understand breeding practices.Genetics, selection, evolution : GSE · 2023Article
- International single-step SNPBLUP beef cattle evaluations for Limousin weaning weight.Genetics, selection, evolution : GSE · 2022Article
- A comprehensive study on size and definition of the core group in the proven and young algorithm for single-step GBLUP.Genetics, selection, evolution : GSE · 2022Article
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4 authors at 2 institutions in 2 countries.
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Abstract
backgroundUnderstanding whether genomic selection has been effective in livestock and when the results of genomic selection became visible are essential questions which we have addressed in this paper. Three criteria were used to identify practices of breeding programs over time: (1) the point of divergence of estimated genetic trends based on pedigree-based best linear unbiased prediction (BLUP) versus single-step genomic BLUP (ssGBLUP), (2) the point of divergence of realized Mendelian sampling (RMS) trends based on BLUP and ssGBLUP, and (3) the partition of genetic trends into that contributed by genotyped and non-genotyped individuals and by males and females.
methodsWe used data on 282,035 animals from a commercial maternal line of pigs, of which 32,856 were genotyped for 36,612 single nucleotide polymorphisms (SNPs) after quality control. Phenotypic data included 228,427, 101,225, and 11,444 records for birth weight, average daily gain in the nursery, and feed intake, respectively. Breeding values were predicted in a multiple-trait framework using BLUP and ssGBLUP.
resultsThe points of divergence of the genetic and RMS trends estimated by BLUP and ssGBLUP indicated that genomic selection effectively started in 2019. Partitioning the overall genetic trends into that for genotyped and non-genotyped individuals revealed that the contribution of genotyped animals to the overall genetic trend increased rapidly from ~ 74% in 2016 to 90% in 2019. The contribution of the female pathway to the genetic trend also increased since genomic selection was implemented in this pig population, which reflects the changes in the genotyping strategy in recent years.
conclusionsOur results show that an assessment of breeding program practices can be done based on the point of divergence of genetic and RMS trends between BLUP and ssGBLUP and based on the partitioning of the genetic trend into contributions from different selection pathways. However, it should be noted that genetic trends can diverge before the onset of genomic selection if superior animals are genotyped retroactively. For the pig population example, the results showed that genomic selection was effective in this population.
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