I guess the whole play hinges on whether you play AK or AQ like this. If you do, then you might have to fold. If you don't, then you might have to call. I can definitely see checking behind AK/AQ on the flop, as you have admitted you do. The real question is whether you would just call the tiny bet on the turn with those hands. I would normally interpret a call on the turn as scared kings or queens, not as an ace. That would increase my chances of bluffing
the river, making a call more appropriate from your perspective.
Given your weak call on the turn and the aggressiveness of the villain, I'd say a call is roughly as good as a fold. If he can turn over A8 here, then he could probably have KQ, QQ, JJ, TT, etc. In this case, his tiny turn bet was a low value bet with a weak ace, however it could have been a probing bet by one of the hands you beat.