Bacteremic pneumonia with some pneumococcal capsular serotypes, including serotype 3 (ST3), has been associated with a higher risk of death, whereas others, such as ST8, are associated with a lower risk. To provide a molecular basis for understanding such differences, we used oligo cDNA microarrays to analyze and compare the gene expression profiles of the lungs of Balb/c mice infected intranasally with either ST3, strain A66.1, or ST8, strain ATCC 6308 (6308). Compared to uninfected controls, infection with either A66.1 or 6308 led to inoculum-dependent expression of IFN-γ inducible CXC chemokine among other pro-inflammatory genes. To investigate the role that IFN-γ inducible chemokines CXCL9, CXCL10 and CXCL11 play in A66.1- and 6308-induced pneumonia, we examined the effect of the absence of their common receptor, CXCR3, on intranasal infection in CXCR3−/− (Balb/c) mice. Compared to wild type (WT) mice, virulence of A66.1 but not 6308 was attenuated in CXCR3−/− mice. A66.1-infected CXCR3−/− mice had fewer lung neutrophils and more alveolar macrophages 48 hours after infection and fewer blood CFU 72 hours after infection. Histopathological examination of lung sections revealed less inflammation among A66.1-infected CXCR3−/− than WT mice. The reduced virulence of A66.1 in CXCR3−/− mice suggests that inhibition of the functional activity of IFN-γ inducible chemokines modulates the host response to A66.1, suggesting a novel approach to improve vaccine-mediated protection against ST3 pneumonia.