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Genome-wide comparative analyses for selection signatures indicate candidate genes for between-breed variability in
O O Adeniyi1, J A Lenstra2, S Mastrangelo3
1Institute of Animal Breeding and Genetics, Justus Liebig University of Giessen, Ludwigstrasse 21,35390 Giessen, Germany.
Animal : an International Journal of Animal Bioscience
|October 8, 2024
Summary
This study identified sheep genome regions and genes selected for copper (Cu) accretion, crucial for animal health and productivity. Findings highlight candidate genes influencing Cu homeostasis and cellular processes.
Area of Science:
- Animal Genetics
- Sheep Husbandry
- Nutritional Genomics
Background:
- Copper (Cu) imbalance (intoxication/deficiency) significantly impacts sheep welfare and economic outcomes.
- Understanding genetic factors influencing Cu accretion is vital for improving sheep farming.
Purpose of the Study:
- To investigate ovine genomic regions and candidate genes under selection for copper accretion across different sheep breeds.
- To compare Cu-susceptible and Cu-tolerant breeds to identify genetic signatures of selection.
Main Methods:
- Utilized ovine single nucleotide polymorphism (SNP) data from six breeds (3 susceptible, 3 tolerant).
- Applied selection signature analyses including Fixation index, cross-population extended haplotype homozygosity, and haplotype-based FLK methods.
- Analyzed two datasets comprising 229 sheep and 45,640 autosomal SNPs.
Main Results:
- Identified selection regions on ovine autosomes (OAR) 4, 8, and 11, containing 54 candidate genes associated with Cu accretion.
- Enrichment analysis revealed significant gene ontologies and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways.
- Key candidate genes (e.g., TP53, ALOX15) are linked to Cu homeostasis, programmed cell death, and inflammatory responses, including ferroptosis.
Conclusions:
- Pinpointed specific ovine genomic regions selected for copper accretion.
- Provided a list of candidate genes for future research into breed-specific differences in copper metabolism.
- These findings offer insights into the genetic basis of copper homeostasis in sheep.
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