Even at our cleanest, we are covered in germs and we are full of germs. It's ok! That's totally normal. These microorganisms are essential to our health. You probably don't need to mess with them, but if you'd like to try, the terms to know are prebiotics and probiotics.
How's your poop? Is it the right colour? How about frequency -- are you doing it once a day, regularly? Don't bother answering (and especially not in the comments, please). The truth is, odds are whatever your answers, you're doing just fine.