I'll preface this by stating that I am not an expert in native Americans, but I have studied metaphor use in linguistics, and I think it is fair to say that animal metaphors are pervasive in every language. Some of the metaphors are so ingrained that native speakers probably don't even think of them as metaphors. For example in English we might say a cowardly person is a "chicken" or a "scaredy-cat". Some animals have multiple metaphors associated with them, such as a "pig" for a slovenly person, a "swine" for a boorish person, and a "hog" for a greedy person. Likewise a "bitch" is a crabby woman or a submissive man, "my dog" is my friend, a "whelp" is a disparaging word for a boy, but "to hound" someone is to harass them. A "fox" is a sexy woman and a "vixen" is a spirited woman. It goes on and on.

We're so used to these that we don't think of it as being in touch with nature. However, when we translate literally from another language the animal metaphors jump out because they sometimes have different meanings in different languages.

Compare the 19th century author Winnemucca's explanation of the dual meaning of "coyote" in her language, Piute:

OUR children are very carefully taught to be good. Their parents tell them stories, traditions of old times, even of the first mother of the human race; and love stories, stories of giants, and fables; and when they ask if these last stories are true, they answer, "Oh, it is only coyote," which means that they are make-believe stories. Coyote is the name of a mean, crafty little animal, half wolf, half dog, and stands for everything low. It is the greatest term of reproach one Indian has for another. Indians do not swear, – they have no words for swearing till they learn them of white men. The worst they call each is bad or coyote; but they are very sincere with one another, and if they think each other in the wrong they say so.

So this example is not too different from something we might say in English. An outlandish tale we call "fishy." And a low person we might call a "rat", an "vermin", or a "snake".

One important caviat I'd like to mention is that be careful when referring to Native Americans as a monolithic block. Currently there are 567 federally recognized tribes and bands. Therefore there is a wide variety of American Indian cultures and languages.

Now to answer your question, within the Uto-Aztecan languages (which includes Yaqui, Hopi, Mayo and Raramuri) there are references to flowers in many of the ceremonial songs and orations. According to Enrique Salmon in his book, Eating the Landscape: American Indian Stories of Food, Identity and Resilience,

What becomes obvious is that flowers could be metaphors of a deeply ingrained relationship to the biodiversity of the regions within which the Uto-Aztecan speakers live. Another way to express this is that flower as well as plant related metaphors are abundant linguistic expressions of nature. They are also found in cultural history and in names for plants and people...Some of the deeper insights into Native perceptions of land and plants were derived from metaphors.

While this does not address your question directly, we do have evidence of extensive use of nature metaphors within certain American Indian linguistic groups (e.g. Uto-Aztecan).

Source:

Eating the Landscape: American Indian Stories of Food, Identity and Resilience by Enrique Salmon

You might want to post this in r/nativeamerican