Doom from wolf companion is definitely far superior to doom from amulet, especially with 35 points in it.
But a wolf only dooms one enemy at a time and they aren't programmed to run around the the visible area dooming every individual enemy. So while at any given time, as many as 8 wolves are targeting 8 nearby enemies, that still leaves lots of enemies in view unaffected. The doom from amulets has a much larger radius(nearly full screen) which encompasses the surrounding area quite nicely. While the additional damage from lvl 44 doom is inferior to WC, the majority of whats on screen is now prone to additional damage from arrow/knife/time strike etc. The wolves are still free to doom nearby enemies which will then overlap the previous doom, its just a matter of them re-applying it.
Also remember that the doom isn't the only reason for wolves but also to make sure the total character defense & damage bonuses from spirit guide are active as much as possible.