João Manuel Perera Junqueira (born 24 June 1965 in Chaves, Alto Trás-os-Montes) is a retired Portuguese runner who specialized in the 3000 metres steeplechase. He competed in his special event at the 1991, 1993 and 1999 World Championships and sixth-placed in 10,000 m in 1994 European Athletics Championships as well as the 1992 Summer Olympics.