UT Professor's paper published in Frontiers

ORIGINAL RESEARCH article

Front. Genet.

Sec. Livestock Genomics

Volume 15 - 2024 | doi: 10.3389/fgene.2024.1384973

Optimizing Purebred Selection to Improve Crossbred Performance

 Provisionally accepted

 Somayeh Barani ¹ Seyed Reza Miraei Ashtiani ^1* Ardeshir Nejati Javaremi ¹ Majid Khansefid ^2,3 Hadi Esfandyari ⁴

• ¹ Department of Animal Science, College of Agriculture and Natural Resources, University of Tehran., Karaj, Alborz, Iran
• ² Agriculture Victoria Research, AgriBio, Centre for AgriBioscience, 5 Ring Road, Bundoora, Victoria, 3083, Australia, Melbourne, Australia
• ³ School of Applied Systems Biology, La Trobe University, Bundoora, Victoria, 3083, Australia, Melbourne, Australia
• ⁴ Qualitas, Zug, Switzerland, Zog, Switzerland

Top of Form

Crossbreeding is a widely adopted practice in the livestock industry, leveraging the advantages of heterosis and breed complementarity. The prediction of Crossbred Performance (CP) often relies on Purebred Performance (PB) due to limited crossbred data availability. However, the effective selection of purebred parents for enhancing CP depends on non-additive genetic effects and environmental factors. These factors are encapsulated in the genetic correlation between crossbred and purebred populations (r_pc). In this study, a two-way crossbreeding simulation was employed to investigate various strategies for integrating data from purebred and crossbred populations. The goal was to identify optimal models that maximize CP across different levels of r_pc. Different scenarios involving the selection of genotyped individuals from purebred and crossbred populations were explored using ssGBLUP (single-step Genomic Best Linear Unbiased Prediction) and ssGBLUP-MF (ssGBLUP with metafounders) models. The findings revealed an increase in prediction accuracy across all scenarios as r_pc values increased. Notably, in the scenario incorporating genotypes from both purebred parent breeds and their crossbreds, both ssGBLUP and ssGBLUP-MF models exhibited nearly identical predictive accuracy. This scenario achieved maximum accuracy when r_pcwas less than 0.5. However, at r_pc= 0.8, ssGBLUP, which exclusively included sire breed genotypes in the training set, achieved the highest overall prediction accuracy at 73.2%. In comparison, the BLUP-UPG (BLUP with unknown parent group) model demonstrated lower accuracy than ssGBLUP and ssGBLUP-MF across all r_pc levels. Although ssGBLUP and ssGBLUP-MF did not demonstrate a definitive trend in their respective scenarios, the prediction ability for CP increased when incorporating both crossbred and purebred population genotypes at lower levels of 〖 r〗_pc. Furthermore, when r_pc was high, utilizing paternal genotype for CP predictions emerged as the most effective strategy. Predicted dispersion remained relatively similar in all scenarios, indicating a slight underestimation of breeding values. Overall, the r_pc value emerged as a critical factor in predicting CP based on purebred data. However, the optimal model to maximize CP depends on the factors influencing r_pc. Consequently, ongoing research aims to develop models that optimize purebred selection, further enhancing CP.

Keywords: Crossbred performance, genetic correlation between crossbred and purebred populations, unknown parent group, metafounders. ssGBLUP, SSGblup

Received: 11 Feb 2024; Accepted: 29 Aug 2024.

Copyright: © 2024 Barani, Miraei Ashtiani, Nejati Javaremi, Khansefid and Esfandyari. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Seyed Reza Miraei Ashtiani, Department of Animal Science, College of Agriculture and Natural Resources, University of Tehran., Karaj, Alborz, Iran

Disclaimer: All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.

Courtesy of https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2024.1384973/abstract