Urinary purine derivative (PD) excretion was estimated to examine the effect of rumen protozoa on total PD excretion in goats fed hay and a concentrate diet. The effect of increasing protozoa number in the rumen on nitrogen (N) balance and urinary PD excretion was determined after inoculation. Protozoa increased slowly until 4 days after inoculation, and on the 5th day after inoculation rapidly, finally (10 days) reaching 4·1×105/ml of rumen contents similar to that before defaunation. Urinary N excretion showed a small (non-significant) decrease. Urinary PD excretion did not change until the 7th day, and then the level decreased on the 8th day after faunation presumably due to the effect of increased protozoa in the rumen. The mean urinary total PD excretion significantly (P<0·05) decreased in the defaunated group compared with that in the faunated group. Comparable changes were not seen in plasma PD level of faunated and defaunated groups.