Conte, a former France Under-21 international who has switched allegiance, said he had not yet recovered from injury after recently joining Romanian club Universitatea Craiova.
Guinea suffer two withdrawals from African Cup of Nations squad.
Guinea defenders Antoine Conte and Florentin Pogba withdrew from the squad for the Africa Cup of Nations finals on Sunday after citing injury, a statement said.
Pogba suffered both a knee injury and a tendon pull in action for French club Sochaux earlier this month. A scan confirmed he would be out until at least the end of January, the Guinea football federation said.
Pogba, 30, is the elder brother of French World Cup winner Paul Pogba.
Coach Kaba Diawara has called up two home-based players as replacements: Fode Camara from Horoya and Gaoussou Yousouf Siby from Wakrya.
Guinea squad of Afcon 2021
Goalkeepers: Moussa Camara (Horoya), Aly Keita (Ostersund), Ibrahima Kone (Hibernians)
Defenders: Fode Camara (Horoya), Mohamed Ali Camara (Young Boys), Ibrahima Conte (Niort), Mikael Dyrestam (Sarpsborg), Ousmane Kante (Paris FC), Pa Konate (Botev Plovdiv), Gaoussou Yousouf Siby (Wakrya), Saidou Sow (St Etienne), Issiaga Sylla (Toulouse, France)
Midfielders: Aguibou Camara (Olympiakos), Ibrahima Cisse (Seraing), Ibrahima Sory Conte (Bnei Sakhnin), Amadou Diawara (Roma), Mamadou Kane (Neftci), Naby Keita (Liverpool), Mory Konate (St Truiden), Ilaix Moriba (RB Leipzig), Morlaye Sylla (Horoya)
Forwards: Mohamed Bayo (Clermont), Mamadou Diallo (Grenoble), Morgan Guilavogui (Paris FC), Sory Kaba (OH Leuven), Jose Kante (Kairat), Seydouba Soumah (Kuwait SC).