Evidence map›Paper›PMID 41413855›Full record

ArticleBMC genomics2025

Comparison of GBLUP and WGBLUP in genomic selection for beef cattle under different LD patterns and mixed multi-population scenarios: a simulation study.

Le Zhou, Fengying Ma, Lin Zhu, Chencheng Chang, Mingjuan Gu, Risu Na, Wenguang Zhang

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

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1citing papers in PubMed
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1 · What the graph read from it

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3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

7 authors.

Le ZhouCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Fengying MaCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Lin ZhuCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Chencheng ChangCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Mingjuan GuCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Risu NaCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China.
Wenguang ZhangCollege of Animal Science and Technology, Inner Mongolia Agricultural University, Hohhot, China. atcgnmbi@aliyun.com.

Funding

the Double First-Class Construction Funds for IMAU BZX202201the Fundamental Research Funds for Inner Mongolia Autonomous Region Direct Affiliated Universities BR22-11-13 and BR221024the Inner Mongolia Natural Science Foundation project 2021ZD05
6 · The paper itself

Abstract

backgroundGenomic selection (GS) is a key tool to enhance genetic progress in livestock and poultry breeding, but the effects of differences in linkage disequilibrium (LD) patterns between populations and the way reference populations are constructed on the accuracy of genomic prediction (GP) still need to be thoroughly investigated. Therefore, in this study, three beef cattle populations with different genetic backgrounds and LD patterns were simulated to compare the performance of GBLUP, WGBLUP, and their mixed reference population derivation methods (GBLUPmix and WGBLUPmix) in predicting genomic breeding values, with a focus on analyzing the effects of different LD patterns and reference population sizes on prediction performance.

resultsThe results showed that increasing the reference population size significantly improved the accuracy of GP, especially when the reference population was increased from 4000 to 5000, and the WGBLUPmix model showed the highest prediction accuracy in multi-population integration scenarios. In addition, the performance of the WGBLUPmix model was significantly different in different LD modes. The superiority may be due to the realization of capturing different LD patterns in the genome, adaptation to different genetic contexts of population structure, and better capture of large effect SNP contributions through weight adjustment or assignment.

conclusionThese results highlight the importance of using the WGBLUPmix model to flexibly adjust weights to accommodate different reference population sizes and LD patterns in multi-population genome prediction, demonstrate the superiority of WGBLUP in low-LD populations and its synergistic effect with mixed reference populations, and provide an effective strategy to improve prediction accuracy.

Indexed as

GenomicsLinkage DisequilibriumSelection, GeneticAnimalsBreedingCattleComputer SimulationModels, GeneticPolymorphism, Single NucleotideBeef cattleGBLUPGenomic selectionLinkage disequilibriumMixed reference populationWGBLUP

Identifiers

PMID41413855
PMCPMC12781795

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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.