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Information on the widespread function of the suprachiasmatic (SCN) pacemaker has increased dramatically in the past decade for laboratory rodents and for humans. Interest is now also growing in the adaptive value of SCN pacemakers in wild species of free-living mammals in natural pristine habitat. The squirrel family, Sciuridae, is highly diverse in North America. Radiation into many specialized groups has evolved in response to the temporal and spatial characteristics of specific habitats. The sciurids thus offer possibilities for comparison of SCN function for closely related species from very different habitats. Results from field and laboratory investigations concerning the ecological significance of the SCN are reported here for three ground squirrel species. The semi-fossorial antelope squirrels of the American southwest deserts were arrhythmic in above ground activities after deletion of the SCN pacemaker. In a desert enclosure, predation rates rose dramatically for lesioned animals in comparison to intact controls. The semi-arborial chipmunks were prone to capture by mustelid burrow predators such as weasels after SCN-deletion, even though the chipmunks did not exhibit any above ground activity at night. The telltale cue for the predator was apparently arrhythmic restlessness within the complex home burrow. The semi-fossorial golden-mantled squirrels of the Cascade Mountains of western United States rely on profound, long-lasting hibernation for over-wintering. Periods of torpor alternate with brief euthermic arousal episodes lasting less than 24 h throughout the 5- to 8-month winter phase. Deletion of the SCN in golden-mantled squirrels resulted in aberrations of hibernation arousal patterns that were metabolically expensive and put individuals at risk of starvation immediately after emergence in spring.