Bad bacteria are associated with tonsil stones, plaque and subsequent bad breath. Tonsil stones are like dental plaque but one that hardens in and around the tonsils. The stones are made up of bacteria, white blood cells, mucous, post nasal drip, food particles and other debris that collect and get trapped in the tonsillar crypts. Different types of bad bacteria live in and on the stones.
Fortunately there are pro-biotic organisms which can invade the biofilm and grow within them and kill the bad bacteria. Taking a regular pro-biotic will not be of any benefit to the bacteria in your mouth, you need to specifically use Oral Pro-biotics preferably with a time release action.
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