Jawad, Hamza2025-11-122025-11-122025-11-06https://hdl.handle.net/10222/85525Gastrointestinal parasites, particularly Haemonchus contortus, significantly compromise sheep farm profitability. We integrated metabolomics and genomics data from 78 Rideau Arcott ewe lambs during controlled infection to develop diagnostic and genetic tools for parasite management. Metabolomic analysis identified candidate biomarkers—including indole acetic acid and trans-hydroxyproline—that demonstrated the potential to detect subclinical infections with progressive diagnostic accuracy. After validation, these metabolites could enable earlier diagnosis and treatment in precision livestock systems. Whole-genome sequencing revealed copy number variation patterns associated with parasite resistance and susceptibility. We identified key genes influencing immune function and disease resistance, particularly CLCA1 duplication. These findings provide practical tools for integrated parasite management: metabolite candidate biomarkers can be incorporated into field-deployable point-of-care diagnostics for on-farm detection, while genomic markers enable genomic selection for parasite resistance in breeding programs. Implementation of these diagnostic and genetic tools will help the Canadian sheep industry reduce anthelmintic dependence while improving productivity.enBiomarkersSubclinical InfectionBiomarkersWhole Genome SequenceCopy Number VariationsHaeomonchus contortus