Studies have concluded that glyphosphate is not directly toxic to humans. But does it affect human microbiota?
I have no idea if it has ZERO effect or not, but if you're really concerned about it, I'd be willing to bet it has less effect than what you'd get to your microbiota from the vapors or residue you ingest from the antibacterial soaps and cleaners you use.
I'd also bet the absolutely worst thing you can do to your gut bacteria is to take prescribed antibiotics. Treat your body right and you won't get sick and won't need to take antibiotics. Or, for that matter, any of the other medications that mess with your body's genetically designed systems.
Raymond Francis has a few good books if you want to dig into what it really takes to stay healthy. Maybe start with "The Great American Health Hoax", and then see if the possible effects of glyphosate maybe falls down a ways on your list of things to worry about it affecting your health.
Leaky gut syndrome is becoming more and more prevalent. Wheat is said to be a factor, but Roundup could be too, or wheat exposed to Roundup.