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They implement a new factor of Pokemon individuality that effects battles like Natures, called Physical Health.
For example, now Pokemon can be
-Normal - no benefit/no cost
-Slim - {Increased speed, lower defense
-Skinny - { Slim +
-Boney - { Slim ++, lower health
-Chubby - {Higher health, lower speed
-Pudgy - { Chubby +,
-Fat - { Chubby ++, higher Spec Def
-Strong - {Higher attack, Higher Defense, Lower Spec Attack/Defence}
-Ripped - {Strong +
-Buff - {Strong ++, lower speed
You can change your Pokemon's Physical Health by training it in specific ways. But not all Pokemon have all Physical Health types available (i.e you can't make a Buff Magnemite.)
Also effects capturing Pokemon by location. For instance city dwelling Pokemon are more likely to be fat, while Pokemon in harsh environments like rocky mountains are more likely to be Buff.