Previous studies have indicated that exercise acutely induces large increases in uncoupling protein-3 (UCP3) in skeletal muscle, whereas endurance training results in marked decreases in muscle UCP3. Because UCP3 expression appears to be regulated by the same mechanism as other mitochondrial constituents, it seemed unlikely that exercise would result in such large and divergent changes in mitochondrial composition. The purpose of this study was to test the hypothesis that major changes in UCP3 protein concentration do not occur independently of mitochondrial biogenesis and that UCP3 increases as a component of the exercise-induced increase in mitochondria. We found a large increase in UCP3 mRNA immediately and 3 h after a bout of swimming. UCP3 protein concentration was increased ϳ35% 18 h after a single exercise bout, ϳ63% after 3 days, and ϳ84% after 10 days of exercise. These increases in UCP3 roughly paralleled those of other mitochondrial marker proteins. Our results are consistent with the interpretation that endurance exercise induces an adaptive increase in mitochondria that have a normal content of UCP3. gene expression; cytochrome c; cytochrome oxidase; skeletal muscle THE MITCHONDRIAL PROTEIN UCP3 was identified on the basis of its homology with the uncoupling protein-1 (UCP1) present in brown adipose tissue (14). It has been proposed on the basis of its homology with UCP1 that UCP3 also functions as an uncoupling protein (5, 14). Furthermore, some investigators have interpreted the results of studies of the heterologous expression of UCP3 in yeast (36) and of overexpression or knockout of UCP3 in transgenic mice (8, 9, 34) as providing evidence for uncoupling.UCP3 is expressed primarily in skeletal muscle (14). Because of its possible role in energy metabolism, a number of investigators have studied the adaptive response of UCP3 in skeletal muscle to exercise (11,23,29,33,37). reported that UCP3 mRNA was increased sevenfold in skeletal muscle of mice 3 h after a single bout of treadmill running and 16-fold 3 h after exercise in mice that had been trained for 3 wk by swimming. They speculated that "upregulation of UCP3 mRNA may be a defense mechanism against extra energy supply to consume extra energy in skeletal muscle." Similarly, Zhou et al. (37) reported that UCP3 mRNA was increased approximately sevenfold immediately after a 200-min-long bout of swimming. A similar response was seen after a bout of treadmill running. They also reported that UCP3 protein concentration was increased 3.5-fold immediately after 100 min of treadmill running and 5.6-fold immediately after 200 min of running (37). In studies in humans, Pilegaard et al. (23) found an ϳ2.5-fold increase in UCP3 mRNA 4 h after a 4-h bout of cycling, and Schrauwen et al. (29) reported an approximately twofold increase in UCP3 mRNA 4 h after exercise in men who performed cycle exercise for 2 h in the fasting state.Although there were differences in the time course and magnitudes of the increases, all of the studies on the acute effect of ex...