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Updated: Dec 1, 2025

Candidate Gene Testing in Clinical Cohort Studies with Multiplexed Genotyping and Mass Spectrometry

Candidate Gene Testing in Clinical Cohort Studies with Multiplexed Genotyping and Mass Spectrometry

Published on: June 21, 2018

Optimizing genomic reference populations to improve crossbred performance.

Yvonne C J Wientjes¹, Piter Bijma², Mario P L Calus²

¹Wageningen University & Research, Animal Breeding and Genomics, 6700 AH, Wageningen, The Netherlands. yvonne.wientjes@wur.nl.

Genetics, Selection, Evolution : GSE

|November 7, 2020

Summary

This summary is machine-generated.

Genomic prediction for crossbred animals is most accurate using a crossbred reference population, especially when it

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Area of Science:

Animal breeding and genetics
Quantitative genetics
Genomic selection

Background:

Crossbred animals are crucial for production in pig and poultry industries.
Genomic prediction aims to improve crossbred performance using purebred parent lines.
Crossbred reference populations offer advantages but have lower genetic relatedness to purebreds.

Purpose of the Study:

To evaluate the benefit of crossbred reference populations for genomic prediction of crossbred performance.
To assess the impact of relatedness between crossbred reference and purebred selection candidates.
To investigate the influence of purebred-crossbred correlation and reference population size on prediction accuracy.

Main Methods:

Simulated a crossbred breeding program with varying multiplication steps (0, 1, or 2).
Compared genomic prediction accuracy using purebred versus crossbred reference populations.
Analyzed empirical accuracy and predicted accuracy based on chromosome segment relatedness.

Main Results:

Crossbred reference populations generally outperformed purebred ones, especially with lower purebred-crossbred correlation (0.5).
Prediction accuracy increased with larger reference population sizes.
Predicted accuracies tended to overestimate empirical accuracies, but ranking was accurate for large populations.

Conclusions:

Crossbred reference populations are more beneficial when relatedness to purebreds is higher and purebred-crossbred correlation is lower.
Larger reference population sizes consistently improve prediction accuracy.
Interactions between purebred-crossbred correlation and reference population size significantly impact genomic estimated breeding value accuracy.