Threats? No... I have no doubt that they're capable of it though. There was an incident in the previous facility... a coup. A bunch of us ended up in the lower levels and the AI that was in charge at the time, uhm... rewrote our physical status. Dizziness, aches and pains, flu-like symptoms, completely out of the blue.
They're in control of the air that we breathe, the water we drink and the food we eat and if that wasn't enough... if we're really at the depth they say we are, it'd be all too easy to wipe us out completely if need be.