Cantonal police confirmed on Thursday that Emilie Fortuzi was discovered on Wednesday afternoon in the lake about 1.5 metres from shore.
Fortuzi, 15, was reported missing on November 12th 2013 after disappearing from a specialized institution for the disabled in the city of Fribourg.
Her body was found about three kilometres north of the city centre.
Several days after the girl went missing, her pants and a shoe belonging to her were found in the Sarine River.
At the time police said that it was more likely that the teen was the victim of an accident than a kidnapping.
The girl was unable to express herself but could understand French.
The victim’s father expressed his grief to Le Matin.
“It was hard to know (what had happened to her),” he said.
Certain members of the family believe the girl was the victim of a person with bad intentions, the ATS news service reported.
Police say they are looking at all possibilities.
Meanwhile, police in the canton of Vaud are looking for another person reported missing since February 4th.
Joël Perdrix, 20, has not been seen since he left his family home in Epalinges, near Lausanne.
The curly haired youth, who wears glasses, was described as “psychologically fragile”.
He is 179 centimetres tall, slim and was last seen wearing a blue anorak and black ankle boots.
Anyone with information about his whereabouts is asked to contact police on 021 644 44 44.
Photo of Joël Perdrix released by Vaud cantonal police