How The Gut Microbiome Influences Autoimmunity

I like to think of the gut microbiome as a rainforest. In a rainforest, many types of plants live together in a symbiotic ecosystem but if the balance gets disrupted, the good or beneficial plants begin to die and the bad ones start to take over. This also happens in your gut– even just one dose of antibiotics can throw off the balance of the good bacteria that used to keep your immune system running optimally. The good gets killed or greatly reduced, and the bad bacteria (SIBO) and yeast (Candida) that used to be kept in check can take over and grow out of control.
Additionally, if you’re eating a diet high in refined carbohydrate, sugar and alcohol then you will feed the SIBO and yeast (Candida), letting them grow even more out of control and this is called dysbiosis. Certain medications such as antibiotics, acid blocking drugs, birth control pills and steroid can also cause further dysbiosis. As the dysbiosis gets more out of control it can cause a suppression in your immune system – remember 80% of your immune system is in the gut – which then can lead to being susceptible to other infections which may require more antibiotics and the cycle just keeps going.
Over time, having this dysbiosis in your gut microbiome will eventually lead a leaky gut. If your gut is leaky, food particles, toxins and infections can get through your intestinal lining and into your bloodstream where your immune system detects them as foreign invaders and goes on high alert, attacking them and creating inflammation. One main way inflammation occurs is that many of these food particles (especially gluten and casein, a protein found in dairy), toxins and infections look very similar to our own body’s cells and our immune system gets confused and accidentally attack our tissues which leads to autoimmunity. This process is called molecular mimicry. It’s a cycle that works like this: altered gut microbiome or dysbiosis => leaky gut => food, toxins and infections into bloodstream => immune system attacks body due to molecular mimicry => autoimmune disease.


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