I would suggest that you also consume foods that come from the ground. If there's an organic farmers' market near by, get things like carrots and whatever else you enjoy. Rinse them but don't scrape and eat raw. There are many soil based micro-organisms that also reside in our guts and are good for us.
Antibiotics tend to wipe out everything that is susceptible and leave behind ones that are resistant. So the most natural way to re-poopulate is to consume the actual soil based micro-organisms.
Don't give up too soon because, based on studies done on fecal samples, it can take several months to rehabilitate.
Believe it or not, raw potatoes also help. Don't eat any that have a green tinge on the skin.
Steelcut oatmeal is good for the gut bacteria as well. It encourages a healthy microbiome.