Johnson enrolled at the University of Miami, where he was a standout wide receiver on the Miami Hurricanes football team from 2000 to 2002. He was co-MVP of the 2002 Rose Bowl, in which the Hurricanes defeated the Nebraska Cornhuskers by a score of 37–14 to cap an undefeated season and their fifth national championship. In that game, Johnson connected with quarterback Ken Dorsey for two touchdowns and 199 yards. Johnson finished his college career catching 92 passes for 1,831 yards (19.9-yard average) and 20 touchdowns. His 1,831 receiving yards is ranked fifth on the University of Miami's all-time career list.