The four "judicial exception" categories, to be used in patentability decisions, are (1) abstract ideas, (2) laws of nature, (3) natural phenomena, and (4) natural products. And examiners are specifically asked to determine if a patent application's claims recite something "significantly different" than these.
https://www.science.org/content/blog-post/can-you-patent-natural-product-prepare-different-answer
So, if I am reading this right, those patents are not "naturally occurring" phenomena.