The aim of this study was to acquire a better understanding of PRRS disease through a deeper knowledge of gene expression changes that occur in pulmonary lymph nodes during acute comparative porcine reproductive and respiratory syndrome virus (PRRSV), porcine circovirus type 2 (PCV2), and swine influenza virus (SIV) infections. The PRRSV, SIV and PCV-2 viral infections followed a clinical course in these domestic pigs typical of experimental infection of young pigs with these viruses. PRRSV isolate SDSU-73 was pathogenic in this study inducing fever, anorexia, listlessness, and dyspnea. Differentially expressed tags (with respect to control) at all time points were ascertained. The experimental results were integrated with previous studies to develop a robust model of swine respiratory virus infection.