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Whence fecal E. coli (et al.) if swallowing it is dangerous?

I don't know much about medicine, and I know even less about microbiology, but I understand that there are organisms in the lower gastrointestinal tract (and in feces) of a human, like Escherichia ...
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Are the intestinal flora substantially different within a diverticulum of the colon?

From the Wikipedia page for the vermiform appendix: This proposal is based on a new understanding of how the immune system supports the growth of beneficial intestinal bacteria, in combination ...