Breast milk remains the optimum vehicle to deliver high quality nutrients, including oligosaccharides, in quantities sufficient to sustain normal growth, however, it is currently unknown whether the addition of prebiotics to infant formula would alter neonate growth and development. The objective of this study was to determine the effect of Galactooligosaccharides (GOS) and Fructooligosaccharides (FOS) supplementation in nursery pig diets on growth and efficiency of food utilization. Forty-eight 4-day old crossbred pigs (1.628 ± .037 Kg BW) were randomly assigned to 1 of 8 diets: 1) milk-based formula containing Type 2 GOS and Type 1 FOS (4 + 1 g/L); 2) soy-based formula containing Type 1 FOS (3g/L); 3) milk-based formula with no prebiotic added; 4) milk-based formula containing Type 2 GOS only (5g/L); 5) milk-based formula containing Type 1 GOS only (5g/L); 6) milk-based formula containing Type 2 GOS and Type 2 FOS (4 + 1 g/L); 7) milk-based formula containing Type 1 GOS and Type 1 FOS (4 + 1 g/L); 8) soy-based formula with no prebiotic added. Diets were isonitrogenous, isocaloric and fed at 250 mL/kg body for a 2-week period. At sacrifice, blood and tissue samples were collected for analysis. A diet by time interaction (P < 0.001) indicated a smaller rate of accretion in bone mineral content for soy-based diets. Total bacteria and lactobacillus were significantly affected by treatment (P < 0.001). In conclusion, the addition of GOS and FOS to formula does not appear to alter growth however, the gut microbiota was significantly modified.