ArticleGenetics, selection, evolution : GSE2023
Multi-breed genomic evaluation for tropical beef cattle when no pedigree information is available.
Article in Genetics, selection, evolution : GSE, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 20 citations in OpenAlex.
- Better Multi-Breed Genomic Predictions for Tropical Bull Fertility Using a Breed-Adjusted Genomic Relationship Matrix.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Incorporating GO/KEGG Functional Annotations Improves the Accuracy and Stability of Genomic Prediction Across Diverse Beef Cattle Populations.Animals : an open access journal from MDPI · 2026Article
- Leveraging Fst and Genetic Distance to Optimize Reference Sets for Enhanced Cross-Population Genomic Prediction.Animals : an open access journal from MDPI · 2026Article
- Factors affecting recording methane emission phenotypes of composite and crossbreed beef cattle grazing tropical and subtropical rangelands of Northern Australia.Journal of animal science · 2026Article
- Short communication: oral microbiome as a potential proxy for methane emissions in grazing tropical composite beef cattle.Journal of animal science · 2026Article
- Multi-Breed Genomic Predictions for Average Daily Gain in Three Italian Beef Cattle Breeds.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Indirect Genomic Predictions for Indicine Cattle Breeds With SNP Effects From a Multi-Breed Genomic Evaluation.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Improving multibreed genomic prediction for breeds with small populations by modeling heterogeneous genetic (co)variance blockwise accounting for linkage disequilibrium.Journal of animal science and biotechnology · 2025Article
- Decoding the beef cattle genome through whole-genome sequencing reveals the genetic basis of carcass and meat quality traits.Scientific reports · 2025Article
- Assessing the Impact of Different Mixing Strategies on Genomic Prediction Accuracy for Beef Cattle Breeding Values in Multi-Breed Genomic Prediction.Animals : an open access journal from MDPI · 2025Article
- Insights into thermal stress effects on performance and behavior of grazing cattle via multimodal sensor monitoring.Scientific reports · 2025Article
- Evaluation of crossbreeding strategies for improved adaptation and productivity in African smallholder cattle farms.Genetics, selection, evolution : GSE · 2025Article
- Effect of breed composition in genomic prediction using crossbred pig reference population.Journal of animal science and technology · 2025Article
- An overview of recent technological developments in bovine genomics.Veterinary and animal science · 2024Review
- Review
- Genome-wide association and expression quantitative trait loci in cattle reveals common genes regulating mammalian fertility.Communications biology · 2024Article
- Expression network analysis of bovine skin infested with Rhipicephalus australis identifies pro-inflammatory genes contributing to tick susceptibility.Scientific reports · 2024Article
- Imputation strategies for genomic prediction using nanopore sequencing.BMC biology · 2023Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
backgroundIt has been challenging to implement genomic selection in multi-breed tropical beef cattle populations. If commercial (often crossbred) animals could be used in the reference population for these genomic evaluations, this could allow for very large reference populations. In tropical beef systems, such animals often have no pedigree information. Here we investigate potential models for such data, using marker heterozygosity (to model heterosis) and breed composition derived from genetic markers, as covariates in the model. Models treated breed effects as either fixed or random, and included genomic best linear unbiased prediction (GBLUP) and BayesR. A tropically-adapted beef cattle dataset of 29,391 purebred, crossbred and composite commercial animals was used to evaluate the models.
resultsTreating breed effects as random, in an approach analogous to genetic groups allowed partitioning of the genetic variance into within-breed and across breed-components (even with a large number of breeds), and estimation of within-breed and across-breed genomic estimated breeding values (GEBV). We demonstrate that moderately-accurate (0.30-0.43) GEBV can be calculated using these models. Treating breed effects as random gave more accurate GEBV than treating breed as fixed. A simple GBLUP model where no breed effects were fitted gave the same accuracy (and correlations of GEBV very close to 1) as a model where GEBV for within-breed and the GEBV for (random) across-breed effects were included. When GEBV were predicted for herds with no data in the reference population, BayesR resulted in the highest accuracy, with 3% accuracy improvement averaged across traits, especially when the validation population was less related to the reference population. Estimates of heterosis from our models were in line with previous estimates from beef cattle. A method for estimating the number of effective breed comparisons for each breed combination accumulated across contemporary groups is presented.
conclusionsWhen no pedigree is available, breed composition and heterosis for inclusion in multi-breed genomic evaluation can be estimated from genotypes. When GEBV were predicted for herds with no data in the reference population, BayesR resulted in the highest accuracy.
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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.