hmmm, i'm expecting minor plot changes for now, but it depends...what do you say?
oh and btw, here is the current story line (if that helps any :) :
It is a new Era, the Era of the Metallic pokemon. Created by the breeding of shiny pokemon along side Shadow. This new curroption of DNA in pokemon results in a new force arriving from the dark depths of the shadows. They are trying to capture the metallic pokemon for reasons of duplicating thier DNA, why you will have to find out yourself. When prof oak hears about the news he desperately calls upon you & gary for help in protecting the region of Quest( the new region). There are two pokemon to choose from, Growlithe & Aerodactyl, whom your rival chooses. There will be 16 gym badges (as this will be a combination of the 4 regions, 4 badges per region). These gym badges are a clear test of skill, much more challenging then your average gym, these gyms have challenging minigames as well as more trainers inorder to get to the leader, and the leader is actually on a whole new league. As you go on your journey
Spoiler:
You realize that something is wrong, the evil team ICE has stopped going after just regular metallic pokemon, they have started to go after...the mightiest of all, the protector of the sea...Lugia. PLEASE NOTE: this is super spoiler from now on. The lugia they try to capture is not shiney, metallic or dark... In fact you don't know why they decided to go after it...(*hint* research has succeeded) But when you get to the lab it's too late the lugia has been transformed into a metallic... and the lab & potion/formula to transform Pokemon has gone missing. You set out to find this artificial metallic...another super spoiler *posibilty that this proceedure can be reversed or maybe even curropt the currupted DNA further....