Could be something where like it was a latent gene that was hidden away. Then, after coming in contact with some stone/crystal/gas or something. They have access to these powers that were hidden away. Or heck a Pokémon that unlocks the gene hidden inside humans. In lore there are some Pokémon that are said to have once been human. Gastly, Haunter, Gengar, Yamask. What if that's becasue there naturally a Pokémon gene in some, if not, all humans? It's just not unlocked.
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