Deputies were called at about 5:30 a.m. to the shooting on West Road at Queenston.
SkyEye captured video at the scene which showed the passenger side windows of the Toyota hit with at least three bullet holes.
Sheriff Ed Gonzalez said a man was shot and taken by Life Flight to a hospital. The suspect drove off from the scene.
Deputies blocked the northbound and southbound lanes of Queenston Road. Drivers are asked to avoid the area.