There are hundreds of thousands of microbes surrounding us, but they cannot harm us unless we become weak, until the body is ready and predisposed to receive them.
The soul is something which contains the body. The body doesn't contain the soul. The soul, if we put it into modern language, is the entire complex of relationships in whose context this organism exists.
And although our bodies are bounded with skin, and we can differentiate between outside and inside, they cannot exist except in a certain kind of natural environment.