Sport Club Sao Paulo player William Ribeiro attacked Rodrigo Crivellaro after he awarded a foul against him on Monday.
The match against Guarani was suspended in the second half and Crivellaro was taken to hospital.
The referee was later released from hospital while Ribeiro has been sacked.
The club said the incident, which happened in the year of their 113th anniversary, was "one of the worst in its history" and that they are evaluating what further action to take.
