Livestock Genetic Evaluation and Selection

A special issue of Animals (ISSN 2076-2615). This special issue belongs to the section "Animal Genetics and Genomics".

Deadline for manuscript submissions: 31 August 2025 | Viewed by 1155

Special Issue Editors


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Guest Editor
Department of Animal Science, Cornell University, Ithaca, NY, USA
Interests: genetic improvement of animal health and production; dairy cattle management and genetic evaluations; population structure and adaptation; genomic tool development; wildlife and indigenous population conservation; canine genetics
Special Issues, Collections and Topics in MDPI journals

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Guest Editor
Department of Animal Science, Cornell University, Ithaca, NY, USA
Interests: livestock and canine genomics; multi omics data analysis; genomic prediction; genetic diversity; environmental adaptation genetics

Special Issue Information

Dear Colleagues,

Livestock genetic evaluation and genomic selection have transformed animal agriculture by enhancing productivity, health, and environmental resilience. The availability of low-cost genomic technologies combined with advances in genomic selection methods have accelerated genetic improvement, enabling the precise identification of animals with desired traits such as higher milk yield, disease resistance, and feed efficiency, allowing breeders to make informed and accurate selection decisions. Genomics also enables genetic evaluation for novel traits such as feed efficiency, hoof health, methane emission, and heat tolerance when only limited phenotypes are available. The integration of multi omics data in genomic prediction, and  the use of novel statistical methods such as machine learning and deep learning, could improve genomic prediction accuracy. There is also an increasing need for genomic evaluation for novel phenotypes such as methane emissions, environmental adaptation, and resilience.

The aim of this Special Issue is to highlight advances in genomic evaluation and selection for novel phenotypes, use of new statistical methods, integration of muti-omics for genomic prediction, and improvements in evaluations and selection in crossbred cattle in underdeveloped countries. These topics fall within the scope of the journal as they deal with breeding and genetic selection and use of genomics. 

Reviews and research papers in the areas listed below are welcome.  

  • Development and optimization of genomic selection methods for production, health, and resilience traits.
  • Development and optimization of genomic selection for crossbred and indigenous cattle.
  • Improvements in genetic evaluation and selection in underdeveloped countries.
  • Use of advanced statistical approaches, including machine learning, to enhance prediction accuracy.
  • Integration of genomics, transcriptomics, proteomics, and metabolomics to identify biomarkers and improve selection.
  • Genetic evaluation of heat tolerance, disease resistance, and adaptation to climate change.
  • Traits related to environmental sustainability, such as methane emissions and feed efficiency.
  • Identification and genomic evaluation of emerging phenotypes, such as behavior, welfare traits, and reproductive efficiency.

Dr. Heather Huson
Dr. Srikanth Krishnamoorthy
Guest Editors

Manuscript Submission Information

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Keywords

  • genomic selection
  • genetic selection
  • gEBV
  • genetic evaluations
  • gBLUP
  • machine learning

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Published Papers (1 paper)

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Research

24 pages, 8294 KiB  
Article
The Effect of Continuous Selection in KiwiCross® Composite Breed on Breed Ancestry and Productivity Performance
by Mohd Jaafar, Bevin Harris and Heather J. Huson
Animals 2025, 15(2), 175; https://doi.org/10.3390/ani15020175 - 10 Jan 2025
Viewed by 895
Abstract
Composite crosses result from the mating of two or more distinct cattle breeds. Breeding performance may improve rapidly using a well-organized composite breeding system and a clear selection index. The KiwiCross® is a popular composite cross in New Zealand, combining Holstein-Friesian (high [...] Read more.
Composite crosses result from the mating of two or more distinct cattle breeds. Breeding performance may improve rapidly using a well-organized composite breeding system and a clear selection index. The KiwiCross® is a popular composite cross in New Zealand, combining Holstein-Friesian (high milk production) and Jersey (high milk fat). Production efficiency (PR), a key selection index, is calculated by dividing milk solids produced by mature live weight. Over decades of genetic improvement, KiwiCross® increased milk production significantly. We hypothesized that certain genomic regions from Holstein-Friesian or Jersey breeds were preserved due to artificial selection based on PR. Analysis of genomic regions using XP-EHH, hapFLK, and ROH haplotype statistics revealed selection signatures on BTA 7 and 20 in both high- and low-performance animals, with distinct regions linked to Holstein-Friesian and Jersey ancestry. Our findings suggest that selection acted on different genomic regions across generations and that preserving key ancestry-specific haplotypes is crucial for maintaining performance in composite breeds. Breeders must recognize that selection for specific traits can alter allele frequencies and lead to the loss of beneficial breed-specific haplotypes over time. Full article
(This article belongs to the Special Issue Livestock Genetic Evaluation and Selection)
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