I tried to do the same - I wish you could collect them It's also hard to get used to the controls of fishing and bug-catching, while they're much easier, it's an adjustment.
I don't have any issues at all adjusting to the game, but I do miss being able to plant flowers. I mean that's pretty much 90% of the reason why I still play New Leaf, and this game doesn't really seem to introduce any new aspects that make it really interesting to play, so not being able to plant flowers or have a garden is kind of a buzzkill.