Usual reply from brahamic theists is that they think nature as a God. Abrahamic ones are beyond nature. But , if someone thinks nature as God, and worships trees, sun or river I see nothing wrong despite being an unbeliever !
It sounds to me like you are talking to some extent about pantheism. I would describe my self as a an agnostic atheist pantheist. I do view the universe and the laws that govern it as a kind of higher power that can be considered God. But I don't pray to Physics, Biology, ect. I would advise against deriving person spirituality from science. It is something that should be understood better through trial and error.
Yes I'd say they could be,or you could use the word "creator" which has less religious overtones,they are just words at the end of the day we all use different words depending on our beliefs.
Well, worshiping nature can become an issue when people start using an idealized version of nature as a model of how things should be... As an example, people using nature as a moral compass, saying that the survival of the fittest or the law of the strongest is natural and as such a good thing (or at least something not to oppose); nature can be used to justify pretty much anything, from rape to social exclusion, passing by dam-building (yes, I'm referring to you, beavers!).