As a biologist, a geneticist, who studies domestication and domestic animals, this is an excellent demonstration of a very important problem. I wouldn't call it a "dilemma," i'd call it a "big fucking problem," but my point is this game portrays it very, very well.
[spoilers below]
I especially enjoy that the ill-bred dogs are slower to run to their food. So many pieces like this rely purely on visuals to indicate that these dogs are unhealthy, so it's wonderful to feel and experience as a player, on a practical level, how being ill-bred and unhealthy is leading dogs to early deaths. Plus the shaking of the VERY high-level dogs makes it hard to tell if they're eating properly... It's much more show than tell in a way that I feel games like this often fail. Congrats! Very smart game design.