Well, since X and Y completely changed most Pokemon's cries there is only one known to have the same cry as in the anime.
In X and Y Pikachu's updated cry will be from the anime. It is the only known Pokémon whose cry is like this.
This information comes directly from a Nintendo representative who was
giving us a hands on demo of Pokémon X and Y last Tuesday.
Since it DOES say that it's the only KNOWN Pokemon, there could be more. However, since this came directly from a Nitendo representative, I doubt it.
Hope this helps!