A creature that adds an ability to a set of creatures (e. g. a 
Winged Sliver) is enchanted with 
Darksteel Mutation. Will the other creatures still have that ability?
I remember that 
Humility and 
Painter's Servant leads to creatures without abilities (including 
Painter's Servant) that nonetheless have the chosen color. The reason for this is that color-changing effects are applied in layer 5 and thus before abilities are removed in layer 6.
Applying that to the first case, layer 6 should be evaluated like this (time stamp order): First, all matching creatures gain the ability, then all abilities are removed only from the enchanted creature. In my example, all slivers would have flying except the enchanted 
Winged Sliver. Is that true?