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Disease causes large economic losses in the swine industry, not only through the cost of medical treatment, but also due to reduced production performance of sick pigs. Expanding our knowledge of the genetic basis of diseases will allow more conscientious breeding programs to alleviate some of the economic impact. The overall objective of this thesis was to identify the molecular and quantitative genetic basis of two diseases in pigs, severe combined immunodeficiency (SCID) and porcine reproductive and respiratory syndrome (PRRS). SCID is a naturally occuring primary immunodeficiency in humans, horses, dogs, and, as we discovered, also in pigs. Immunological assays determined that these pigs had low/no B or T cells, but NK cells were present, resulting in T B NK SCID. Genetic mapping of the lesion and molecular characterization revealed two independent mutations in the Artemis gene that cause SCID in these pigs. Each of these mutations were associated with a distinct haplotype of single nucleotide polymorphisms (SNPs), both of which were traced back to the founder generation of this pig population, which was sourced from commercial pig populations in the midwestern United States. This suggests that the deleterious mutations repsonsible for causing SCID in these pigs may be present in the swine industry; although, likely at a low frequency. The presence of SCID in commercial swine operations may go undetected, but a PRRS outbreak certainly will not. Thirteen trials, each with ~200 piglets from commercial breeding programs, were experimentally infected with one of two PRRS virus (PRRSV) isolates. Phenotypes analyzed were viral load (VL) in blood during the first 21 days post infection (dpi) and weight gain (WG) from 0 to 42 dpi. We utilized genotypes determined on this population using the Illumina Porcine SNP60 panel to perform genome wide association studies (GWAS) and found several genomic regions associated with each trait. None of these genomic regions were associated in both PRRSV isolate

Molecular and quantitative genetic basis and control of severe combined immunodeficiency and porcine reproductive and respiratory syndrome in pigs