The objective of this study was to evaluate the bacterial community composition in manure collected from finishing swine in two controlled feeding trials with varying protein and carbohydrate sources and to assess the potential to produce foam. The protein source study included four diets that utilized different combinations of: soybean meal, canola meal, corn gluten meal, and poultry meal; and the carbohydrate source study included six diets with different combinations of: soybean meal, pearled barley, beet pulp, dried distillers grains with solubles (DDGS), soybean hulls and wheat bran. DNA was isolated from manure samples and Automated Ribosomal Intergenic Spacer Analysis (ARISA) was used to profile bacterial community composition. Manure physical properties related to foaming including: methane production rate (MPR, L CH4/g VS day); foaming capacity index (FCI), foam stability (FS, min. Protein and carbohydrate sources tend to impact microbial community composition more than the amount used. Increased methane production rate is somewhat correlated to increased inclusion of corn gluten meal and soybean hulls. Foaming capacity and foaming stability were not strongly correlated to any particular ration or source used.