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United States Department of Agriculture

Agricultural Research Service

Research Project: GENETIC AND GENOMIC APPROACHES TO IMPROVE EFFICIENCY OF SWINE PRODUCTION AND PRODUCT QUALITY

Location: Reproduction Research

Title: Genome-wide association of porcine lung lesions using DNA pooling

Authors
item NONNEMAN, DANNY
item JONES, SHUNA
item SHACKELFORD, STEVEN
item KEELE, JOHN

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: October 31, 2012
Publication Date: January 12, 2013
Citation: Nonneman, D., Jones, S.A., Shackelford, S.D., Keele, J.W. 2013. Genome-wide association of porcine lung lesions using DNA pooling [abstract]. Plant and Animal Genome XXI Conference Proceedings. Abstract #P0594.

Technical Abstract: Respiratory disease in swine is a primary health concern for producers. Pleuropneumonia and enzootic pneumonia occur at a high incidence on most farms and have a negative effect on feed efficiency, growth, and animal welfare. Mycoplasma pneumonia is one of the most important because it increases susceptibility to secondary infection. To identify genes and regions associated with pneumonia infection, we examined pigs at slaughter for lung lesions and allelotyped DNA pools of pigs with less than 25% of lung lesions or greater than 75% lung lesions. The occurrence of pigs with less than 25% of lung lesions was rare, and approximately 13,500 commercial pigs were evaluated to identify 1,152 healthy samples. A matching diseased cohort was sampled from the same producer lot as each healthy sample. Twelve pools of 96 pig DNAs were arranged for healthy and diseased lungs and bead intensities were measured on the Illumina PorcineSNP60 Beadchip. Seventy-five markers had bead intensity ratios that were significantly different (p < 10**6). Over half of these were eliminated because of low minor allele frequency, lack of polymorphism, or evidence of CNV in a group of unrelated individually genotyped animals. Validation was done for the remaining markers using Sequenom on the individual samples. Three markers remained significantly associated with lung lesions. The association of markers with lung lesions should allow for the identification of causative genetic variation involved with improved resistance to respiratory disease.

Last Modified: 7/28/2014
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