
The Autoimmune Protocol (AIP) diet is an elimination diet that aims to reduce inflammation and symptoms caused by autoimmune disorders. The AIP diet consists of two main phases. The first phase is an elimination phase that involves the removal of foods and medications believed to cause gut inflammation, imbalances in gut bacteria, or an abnormal immune response. While the AIP diet has been shown to reduce inflammation, it has also been known to cause diarrhea in some people. Diarrhea can be caused by a variety of factors, including dietary changes, gut flora issues, food sensitivities, and antibiotic use. In some cases, AIP-compliant foods such as sweet potatoes, celery juice, or dairy products may be the cause of diarrhea. If diarrhea persists, it is recommended to consult a healthcare professional for guidance.
| Characteristics | Values |
|---|---|
| Dietary changes | A higher intake of fat and protein can cause diarrhea. |
| A sudden increase in fat intake can cause diarrhea as the body may not have enough time to adjust. | |
| A high intake of short-chain fermentable carbohydrates, found in some vegetables, fruits, and nuts, can cause diarrhea. | |
| A rapid transition to a vegetable and natural-fat loaded diet can cause diarrhea. | |
| Food sensitivities | Wheat and other gluten grains can cause diarrhea. |
| Dairy can cause diarrhea. | |
| Coconut can cause diarrhea. | |
| FODMAPs carbohydrates can cause diarrhea. | |
| Sweet potatoes can cause diarrhea. | |
| Celery juice can cause diarrhea. | |
| Antibiotics can cause diarrhea. | |
| Cheese can cause diarrhea. | |
| Gut health | Gut flora issues can cause diarrhea. |
| A leaky gut can cause diarrhea. | |
| Inflammation in the gut can cause diarrhea. |
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What You'll Learn

High fat intake
The AIP (Autoimmune Protocol) diet is an elimination diet that aims to reduce inflammation and symptoms caused by autoimmune disorders. The AIP diet focuses on eliminating foods that cause gut inflammation and replacing them with health-promoting, nutrient-dense foods. The diet involves two main phases. The first phase involves the removal of grains, legumes, nuts, seeds, nightshade vegetables, eggs, and dairy, as well as tobacco, alcohol, coffee, oils, food additives, refined and processed sugars, and certain medications.
In addition, a rapid transition to a high-fat diet can cause digestive distress as the body adjusts to the new diet. This is a common issue with the AIP diet, as it often involves a significant increase in natural fats and vegetables. It is important to introduce high-fat foods gradually to give the body time to adjust.
Furthermore, a high-fat diet can be challenging for the body to break down, leading to fatigue and sluggishness. This is because the body requires a significant amount of energy to digest large amounts of fat, leaving less energy for the rest of the body.
It is worth noting that while the AIP diet restricts certain foods, it does not necessarily address underlying gut flora issues that may be contributing to diarrhea. Therefore, it may be beneficial to combine AIP with a low-FODMAP diet, which has been shown to be effective in reducing diarrhea symptoms in patients with IBS.
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Gut flora issues
The AIP (Autoimmune Protocol) diet is an elimination diet that involves removing foods and medications believed to cause gut inflammation, imbalances between levels of good and bad bacteria in the gut, or an immune response. The AIP diet is similar to the paleo diet, and some people choose to combine AIP with a low-FODMAP diet.
The AIP diet consists of two main phases. The first phase is an elimination phase that involves removing foods such as grains, legumes, nuts, seeds, nightshade vegetables, eggs, and dairy, as well as substances like tobacco, alcohol, coffee, oils, food additives, refined and processed sugars, and certain medications. The second phase involves reintroducing foods one at a time to identify which foods contribute to a person's symptoms.
Some people experience digestive issues such as diarrhea during the AIP diet. While there could be multiple reasons for this, one potential cause is gut flora issues. Not everyone with unhealthy gut flora experiences diarrhea, but many people with diarrhea have some kind of gut flora issue. Antibiotics are a common cause of gut flora issues, but they are not the only cause. Dietary changes can be helpful in treating the underlying gut flora issues that cause diarrhea.
Probiotics can be beneficial in treating gut flora issues that cause diarrhea. Probiotics are live bacteria preparations, such as Lactobacillus, Yeast, Bifidobacterium, Enterococcus, and Bacillus, that promote the growth of good bacteria in the gut. Probiotic supplements can be purchased, but probiotic foods are also an option. Prebiotics, such as fructo-oligosaccharide, inulin, and pectin oligosaccharides, can also help by resisting the colonization of pathogens in the intestine. Fecal bacteria transplantation (FMT) is another treatment option that involves transplanting functional flora from the feces of healthy people into the gastrointestinal tract of the patient to rebuild normal gut flora function.
In addition to probiotics and FMT, it is important to manage stress and get enough sleep when treating gut flora issues. Stress hormones can impact the gut, and getting enough sleep is important for overall health.
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Food sensitivities
The AIP (Autoimmune Protocol) diet is an elimination diet that aims to reduce inflammation and symptoms caused by autoimmune disorders. The AIP diet involves two main phases. The first phase is an elimination phase that involves removing foods and medications believed to cause gut inflammation, imbalances in gut bacteria, or an immune response. The second phase involves reintroducing foods one at a time to identify which foods contribute to a person's symptoms.
Some people combine the AIP diet with a low-FODMAP diet to address food sensitivities. FODMAPs are carbohydrates found in many fruits and vegetables that can cause diarrhea and other symptoms in people with FODMAP intolerance. However, combining AIP with a low-FODMAP diet can be challenging as it may be difficult to ensure adequate carbohydrate intake.
It is important to note that the AIP diet itself may not be the direct cause of new food sensitivities. Instead, this may be due to a loss of oral tolerance, which can result from a lack of diversity in gut bacteria and diet. People on the AIP diet may fall into a pattern of eating the same foods repeatedly, leading to a loss of oral tolerance and the development of new food sensitivities.
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Antibiotics
The AIP (Autoimmune Protocol) diet is an elimination diet that aims to reduce inflammation and symptoms caused by autoimmune disorders. The AIP diet consists of two main phases. The first phase is an elimination phase that involves the removal of foods and medications believed to cause gut inflammation, imbalances between levels of good and bad bacteria in the gut, or an immune response. The goal of this phase is to identify which foods contribute to a person’s symptoms and reintroduce all foods that don’t cause any symptoms while continuing to avoid those that do.
Diarrhea is a symptom that can be caused by the AIP diet, as some people have reported. Diarrhea can also be caused by antibiotics. Antibiotic-associated diarrhea usually clears up within a few days after antibiotic treatment ends. In some cases, a doctor may advise stopping antibiotic therapy until diarrhea subsides. If you develop a C. difficile infection, your doctor will likely stop the antibiotic you are taking and may prescribe antibiotics targeted at killing the C. difficile bacteria causing the diarrhea.
If you are experiencing diarrhea, it is important to drink more water and other liquids to replace fluids lost because of diarrhea. It is also recommended to eat bland foods and avoid spicy or greasy foods that can aggravate diarrhea. In some cases of mild antibiotic-associated diarrhea, a doctor may recommend anti-diarrheal medications such as loperamide (Imodium A-D). However, it is important to check with your doctor before taking anti-diarrheal medications as they can interfere with your body's ability to eliminate toxins and lead to serious complications.
If you are experiencing diarrhea while on the AIP diet, it is important to consult with a healthcare professional to determine the underlying cause and appropriate treatment.
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High intake of short-chain fermentable carbohydrates
The AIP (Autoimmune Protocol) diet is an elimination diet that aims to reduce inflammation and symptoms caused by autoimmune disorders. It involves removing foods and medications believed to cause gut inflammation and imbalances in gut bacteria, and replacing them with health-promoting, nutrient-dense foods. The AIP diet is not a low-carb diet and generally should not be combined with other diets that reduce carbohydrate intake.
The quality and quantity of carbohydrates consumed daily are major determinants of our gut microbiome composition. Under normal conditions, about 60 grams of dietary carbohydrate is fermented each day by the gut microbiota into short-chain fatty acids. A high intake of short-chain fermentable carbohydrates can cause diarrhea, as well as bloating and abdominal pain in some people. This is because the body may not have enough time to adjust to the production of more bile and enzymes required to properly digest fat.
Foods that are high in short-chain fermentable carbohydrates include:
- Fruits such as apples, pears, mangoes, peaches, watermelon, avocado, and tomatoes
- Vegetables such as asparagus, Brussels sprouts, onion, garlic, broccoli, cabbage, cauliflower, and mushrooms
- Nuts such as pistachios
If you are experiencing diarrhea on the AIP diet, it may be helpful to modify your fat and protein intake and avoid nuts, fruits, and vegetables rich in short-chain fermentable carbohydrates. If this does not help, it is recommended to consult a doctor as it may be a sign of a gastrointestinal problem that requires further investigation.
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Frequently asked questions
Diarrhea on the AIP diet could be caused by a number of factors, including:
- A higher fat intake.
- A rapid increase in fat intake, which the body may not have time to adjust to.
- A higher intake of short-chain fermentable carbohydrates, which are found in high amounts in some AIP-compliant fruits, vegetables, and nuts.
- A food sensitivity or allergy.
- Antibiotics taken before or during the AIP diet, which can mess up gut bacteria.
- A sudden increase in the consumption of certain vegetables, such as sweet potatoes.
- A sudden increase in the consumption of certain fruits, such as apples, pears, mangoes, peaches, and avocados.
- A sudden increase in the consumption of certain vegetables, such as asparagus, avocado, cauliflower, and cabbage.
- A sudden increase in the consumption of certain vegetables, such as onions and garlic.
If you experience diarrhea on the AIP diet, you can try the following:
- Cut back on your fat intake and increase it more slowly.
- Modify your fat and protein intake and avoid nuts, fruits, and vegetables rich in short-chain fermentable carbohydrates.
- Identify and eliminate trigger foods from your diet.
- Try a high-quality probiotic supplement or eat probiotic foods.
- Get enough sleep and manage your stress.
If you experience diarrhea on the AIP diet that does not resolve after modifying your diet and lifestyle, it is important to consult a doctor or healthcare professional. They can advise you on the use of digestive enzymes, ox bile supplements, or other interventions to aid your digestion.











































