[Of course, this whole exchange between trainer and Pokemon just confounds Twilight, who doesn't have any idea what Reid means by "that", and isn't really sure what that approximation of a shrug is supposed to mean either. She glances back and forth between the two of them for a bit, just trying to think of what she should say here.]

Um... so anyway, what you should try to keep in mind is that Pokemon aren't just pets, or regular animals at all, even though they have a lot of the same characteristics. A real Pokemon and Trainer connection is one of trust and friendship, a lot closer to equals than any ordinary master and pet one.

Yang... Whether or not he's actually sensing danger, he knows as well as anyone who's spent time in Johto that this place is dangerous, and doubly so for a newcomer. And you're his trainer. He cares about you, and wants to protect you. But right now he doesn't think he can do that. It's up to you to make sure he gets the chance to grow and strengthen into the kind of Pokemon he wants to be, the kind that can take care of you while you're in this kind of world.

[She's not quite sure how accurate her speaking for Yang is, but having spent as much time in Johto and around Pokemon in general as she has by now, she's willing to bet that it's pretty close.]