Commercial crossbred nursery piglets were either vaccinated or not using a modified live porcine reproductive and respiratory syndrome (PRRS) virus vaccine and all pigs were co-infected with PRRS virus (PRRSV) and porcine circovirus type 2b (PCV2b) 28 days later. Genetic correlations indicate that traits associated with primary exposure to PRRSV infection (PRRS viral load (VL) of vaccinated pigs prior to co-infection and PRRS VL of non-vaccinated pigs post co-infection) are genetically the same trait. The WUR single nucleotide polymorphism on chromosome 4, previously associated with reduced PRRS VL under PRRSV-only infection, was associated with significantly reduced PRRS VL following vaccination and co-infection (for non-vaccinated pigs), but also with reduced PCV2b VL of vaccinated pigs. These results indicate a significant effect of WUR genotype on PRRS VL upon primary PRRS exposure, whether in a PRRSV-only or PRRS and PCV2b co-infected population, but also with PCV2b VL of vaccinated pigs under PRRS and PCV2b co- infection.