Those picking up Metroid Prime Trilogy appear to be trading convenience for graphical fidelity, with this clip showing that one of the Trilogy versions of the game is sporting reduced textures and particle effects.

The opening minutes show the original game (Metroid Prime), while the Trilogy version kicks in at around the 3-minute mark. The differences in the water, in Samus' texturing and the effects of her weapons are clear to see.

Metroid Prime Trilogy missing graphical effects from GCN originals [The Examiner]