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To investigate possible persistent performance deficits after severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in elite athletes. A prospective cohort study in three Belgian professional male football teams was performed during the 2020 − 2021 season. Participants were submitted to strength, jump, and sprint tests and an aerobic performance test (the Yo-Yo Intermittent Recovery test (YYIR)). These tests were repeated at fixed time intervals throughout the season. Assessment of SARS-CoV-2 infection was performed by a polymerase chain reaction (PCR) test before each official game. Of the 84 included participants, 22 were infected with SARS-CoV-2 during follow-up. At the first testing after infection (52.0 ± 11.2 days after positive PCR testing) significantly higher percentages of maximal heart rate (%HRmax) were seen – within the isolated group of infected players- during (p =.006) and after the YYIR (2 min after, p =.013), compared to pre-infection data. This increase in %HRmax was resolved at the second YYIR testing after infection (127.6 ± 33.1 days after positive PCR testing). Additionally, when comparing the first test after infection in formerly infected to non-infected athletes, significantly higher %HRmax were found during (p <.001) and after the YYIR test (p <.001),No significant deficits were found for the jump, muscular strength or sprint tests. Aerobic performance seems compromised even weeks after infection. Simultaneously, anaerobic performance seemed to be spared. Because of the potential detrimental effects on the immune system, caution might be advised with high-intensity exposure until aerobic performance is restored. Elite football players' aerobic performance seems to be affected for weeks after they return to sports after a SARS-CoV-2 infection. Similarly, anaerobic performance tests showed no discernible changes between both before and after SARS-CoV-2 infections. Regular YYIR testing is recommended to monitor aerobic performance after SARS-CoV-2 infection. [ABSTRACT FROM AUTHOR]