It happened around 11:30 Saturday night on U.S. Highway 71 just north of Alma.
Investigators say Trooper Michael Bowman tried to stop Christopher Snyder, 28.
Snyder jumped out of his car and ran, and when the chase ended, police say Snyder tried to choke Trooper Bowman.
During the struggle, Bowman pulled his gun and shot Snyder, killing him.
Bowman was taken to a nearby hospital to be examined and later released.
State police say Bowman will be on administrative leave pending an investigative review.