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Related Experiment Video

Updated: Jun 10, 2026

Following the Dynamics of Structural Variants in Experimentally Evolved Populations

Following the Dynamics of Structural Variants in Experimentally Evolved Populations

Published on: February 3, 2023

Dynamics of long-term genomic selection.

Jean-Luc Jannink¹

¹USDA-ARS, RW Holley Center for Agriculture and Health, Ithaca, NY 14853, USA. jeanluc.jannink@ars.usda.gov

Genetics, Selection, Evolution : GSE

|August 18, 2010

Summary

This summary is machine-generated.

Genomic selection (GS) can accelerate early gains in barley breeding but risks losing favorable alleles. Weighting low-frequency alleles in GS improves long-term genetic gain and maintains genetic variance.

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Area of Science:

Plant breeding
Quantitative genetics
Genomics

Background:

Genomic selection (GS) enables rapid genetic gains in early breeding cycles.
Long-term impacts of GS on genetic gain are complex due to allele frequency changes, recombination, and inbreeding.

Purpose of the Study:

To investigate the long-term effects of genomic selection (GS) on genetic gain in barley.
To evaluate strategies for mitigating the loss of favorable alleles during GS.

Main Methods:

A simulation case-study using barley marker data.
Explored effects of training population size, heritability, GS timing, and weighting low-frequency alleles.
Genomic predictions used ridge regression and Bayesian analysis.

Main Results:

Applying GS before phenotyping increased early gains but led to loss of favorable alleles and reduced genetic variance.
Weighting low-frequency favorable alleles increased their frequency, boosting genetic variance and long-term gain.
Weighted GS maintained marker polymorphism and linkage disequilibrium.

Conclusions:

Loss of favorable alleles in weak linkage disequilibrium is a challenge in GS.
Weighting low-frequency favorable alleles can reduce allele loss compared to phenotypic selection.
Implementing weighted GS early is crucial for maximizing long-term benefits.