ArticleGenetics, selection, evolution : GSE2016
Assigning breed origin to alleles in crossbred animals.
Article in Genetics, selection, evolution : GSE, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 70 citations in OpenAlex.
- Genetic Diversity in Dutch Sheep Breeds.Animal genetics · 2026Article
- Accurate determination of breed origin of alleles in a simulated smallholder crossbred dairy cattle population.Genetics, selection, evolution : GSE · 2025Article
- Evaluation of crossbreeding strategies for improved adaptation and productivity in African smallholder cattle farms.Genetics, selection, evolution : GSE · 2025Article
- Genetic architecture of thermotolerance traits in beef cattle: a novel integration of SNP and breed-of-origin effects.Frontiers in genetics · 2025Article
- Genomic-based genetic parameters and genome-wide association studies for productive and reproductive traits in Beef-on-Dairy crossbreds.Frontiers in genetics · 2025Article
- Single-step genomic predictions for crossbred Holstein and Jersey cattle in the United States.JDS communications · 2024Article
- Developing flexible models for genetic evaluations in smallholder crossbred dairy farms.Journal of dairy science · 2023Article
- A Comprehensive Genomic Analysis of Chinese Indigenous Ningxiang Pigs: Genomic Breed Compositions, Runs of Homozygosity, and Beyond.International journal of molecular sciences · 2023Article
- Segregation between breeds and local breed proportions in genetic and genomic models for crossbreds.Genetics, selection, evolution : GSE · 2023Article
- Multibreed genomic prediction using summary statistics and a breed-origin-of-alleles approach.Heredity · 2023Article
- Validation with single-step SNPBLUP shows that evaluations can continue using a single mean of genotyped individuals, even with multiple breeds.Genetics, selection, evolution : GSE · 2023Article
- Genomic evaluation for two-way crossbred performance in cattle.Genetics, selection, evolution : GSE · 2023Article
- Classification of breed combinations for slaughter pigs based on genotypes-modeling DNA samples of crossbreeds as fuzzy sets from purebred founders.Frontiers in genetics · 2023Article
- Estimation of dam line composition of 3-way crossbred animals using genomic information.Genetics, selection, evolution : GSE · 2022Article
- Genomic Prediction Methods Accounting for Nonadditive Genetic Effects.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Improving the Accuracy of Multi-Breed Prediction in Admixed Populations by Accounting for the Breed Origin of Haplotype Segments.Frontiers in genetics · 2022Article
- Breed of origin of alleles and genomic predictions for crossbred dairy cows.Genetics, selection, evolution : GSE · 2021Article
- Review: optimizing genomic selection for crossbred performance by model improvement and data collection.Journal of animal science · 2021Review
- Genomic prediction using a reference population of multiple pure breeds and admixed individuals.Genetics, selection, evolution : GSE · 2021Article
- Optimizing genomic reference populations to improve crossbred performance.Genetics, selection, evolution : GSE · 2020Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundFor some species, animal production systems are based on the use of crossbreeding to take advantage of the increased performance of crossbred compared to purebred animals. Effects of single nucleotide polymorphisms (SNPs) may differ between purebred and crossbred animals for several reasons: (1) differences in linkage disequilibrium between SNP alleles and a quantitative trait locus; (2) differences in genetic backgrounds (e.g., dominance and epistatic interactions); and (3) differences in environmental conditions, which result in genotype-by-environment interactions. Thus, SNP effects may be breed-specific, which has led to the development of genomic evaluations for crossbred performance that take such effects into account. However, to estimate breed-specific effects, it is necessary to know breed origin of alleles in crossbred animals. Therefore, our aim was to develop an approach for assigning breed origin to alleles of crossbred animals (termed BOA) without information on pedigree and to study its accuracy by considering various factors, including distance between breeds.
resultsThe BOA approach consists of: (1) phasing genotypes of purebred and crossbred animals; (2) assigning breed origin to phased haplotypes; and (3) assigning breed origin to alleles of crossbred animals based on a library of assigned haplotypes, the breed composition of crossbred animals, and their SNP genotypes. The accuracy of allele assignments was determined for simulated datasets that include crosses between closely-related, distantly-related and unrelated breeds. Across these scenarios, the percentage of alleles of a crossbred animal that were correctly assigned to their breed origin was greater than 90 %, and increased with increasing distance between breeds, while the percentage of incorrectly assigned alleles was always less than 2 %. For the remaining alleles, i.e. 0 to 10 % of all alleles of a crossbred animal, breed origin could not be assigned.
conclusionsThe BOA approach accurately assigns breed origin to alleles of crossbred animals, even if their pedigree is not recorded.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.