If you mean full chibi, it would blow up in their face. That worked in Zelda because it always had a lighthearted undertone, WW just enhanced it. Metroid is a very straight faced series.
Now if you just mean unrealistic visuals, that depends on how it turns out. There's a LOT of options. I mean, compare Breath of the Wild to Skyrward Sword to Wind Waker. If the aesthetic resonated with the tone and atmosphere of Metroid, it might fly.
However, I see no reason it won't be more or less realistic. Metroid Samus Returns is a mostly realistic approach. And if you want a big budget example, Xenoblade Chronicles X was more or less realistic with anime styled character faces. Even in Xenoblade Chronicles 2, you have fairly realistic environments with anime inspired characters. So I think Prime will almost certainly be realistic.







