"The laboratory which is currently suspended will no longer be authorized to carry out the testing of doping control samples on behalf of WADA or any testing authority," the anti-doping watchdog said in a statement.
Managers at the laboratory can file an appeal at the Court of Arbitration for Sport before the revocation takes effect on Sept. 25.
"It may also choose to reapply for accreditation, and can seek 'fast track' process from the executive committee," WADA said.
WADA suspended the Rio center on Aug. 8 from testing any anti-doping samples, though it has not specified how the lab failed.
"WADA may revoke a laboratory's accreditation for repeated failures to comply with the ISL (International Standard for Laboratories) and related technical documents," it said.
It is the second public embarrassment for Brazil's only WADA-accredited center during preparations to host the two biggest events in world sports.