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ARS Home » Plains Area » Miles City, Montana » Livestock and Range Research Laboratory » Research » Research Project #437101

Research Project: Integrating Single Nucleotide Polymorphism (SNP) Level Inbreeding in the Prediction of Breeding Values

Location: Livestock and Range Research Laboratory

Project Number: 3030-31000-018-008-S
Project Type: Non-Assistance Cooperative Agreement

Start Date: Aug 1, 2019
End Date: Jul 31, 2022

Objective:
1) Optimizing the identification of runs of homozygosity used to calculate genomic inbreeding, 2) discrimination between old and recent inbreeding and its effects on traits of interests, and 3) to develop a practical model to accommodate single nucleotide polymorphism (SNP) level inbreeding.

Approach:
Line 1 Hereford herd at USDA-ARS, Fort Keogh Livestock and Range Research Laboratory, Miles City, MT represents a unique research population to tackle very relevant, practical and theoretical questions. Inbreeding increases autozygosity across the genome often leads to reduction in performance. Due to the specificity of its inception and the way it was managed during the last eighty years, Line 1 herd provides the best cattle population to study ancient (old) and recent (new) inbreeding and its effects on traits of interests. The project will be centered in studying inbreeding and inbreeding depression using genomic information. Specifically, 1) optimizing the identification of runs of homozygosity used to calculate genomic inbreeding, 2) discrimination between old and recent inbreeding and its effects on traits of interests, and 3) to develop a practical model to accommodate single nucleotide polymorphism (SNP) level inbreeding. Data collected at the USDA-ARS, Fort Keogh Livestock and Range Research Laboratory will be used to develop and test various Bayesian hierachical models to analyze genomic inbreeding and integrate it into genomic estimated breeding values.