"Lieutenant Mohamed Ouattara has been arrested -- and not abducted -- for an attempted coup, for a bid to destabilise the institutions of the republic and for a breach of state security," the official said, asking not to be named.
An official document seen by AFP stated that Ouattara, along with other military officers and "accomplices", aimed to overthrow the regime of President Ibrahim Boubacar Keita, who was elected last year, marking a return to civilian rule following a March 2012 coup.
On Thursday, Ouattara's family, including his father retired Colonel Yaya Ouattara, said the lieutenant had been kidnapped in the capital Bamako "by armed individuals wearing military uniform".
Lieutenant Ouattara is a member of the "Red Berets" paratroop corps, who remained loyal to their former commander, president Amadou Toumani Toure, after his ouster in the 2012 coup led by Captain Amadou Haya Sanogo.
The Red Berets were foiled in a bid to carry out a counter-coup a month later and were hunted down by Sanogo's forces, which plunged the formerly stable democracy into chaos.