Detox Learning Center

Hashimoto’s Thyroiditis: Finding and Addressing the Root Cause

  • Hashimoto’s thyroiditis is an autoimmune disorder and the most common cause of hypothyroidism in those over six years old. 
  • Hashimoto’s thyroiditis typically causes a hypothyroid condition characterized by low or underactive thyroid function.
  • Hashimoto's attacks the thyroid gland, which regulates a broad array of vital body functions. 
  • Hypothyroidism can cause a range of symptoms related to slowed metabolism.
  • Diagnosing Hashimoto’s through laboratory testing can be challenging — a complete thyroid panel provides a significantly more accurate look at thyroid gland function. 
  • Potential causes of Hashimoto's thyroiditis include infections, nutrient deficiencies, poor gut health, and toxicity.
  • Boosting iodine intake, clearing infections and toxins, following a thyroid-healing diet, and restoring gut health all can help support thyroid health and overall wellness.

Hashimoto’s thyroiditis is the most common cause of hypothyroidism in those over six years old. A Japanese surgeon, Hakaru Hashimoto, discovered the disease in 1912. (1)

This thyroid disease is also known as chronic autoimmune thyroiditis and chronic lymphocytic thyroiditis. An autoimmune disease occurs when the body’s immune system attacks its own tissues, mistakenly seeing them as foreign. 

Hashimoto’s can affect men and women of any age and even occur in children and teenagers. However, it primarily affects women. The female-to-male ratio is at least 10:1. Most women are diagnosed between the ages of 30 and 50. (1, 2)

Hypothyroidism and Symptoms

The thyroid is a small, butterfly-shaped gland situated in the front of your neck directly below your Adam’s apple. The thyroid gland is a critical part of the endocrine system, which produces essential hormones in your body. (3)

Your thyroid regulates an array of key body functions. It influences the rate at which every cell, tissue, and organ in your body functions. This includes your bones, muscles, and skin to your brain, GI tract, and heart. Your thyroid does this through secreting hormones that manage how quickly and efficiently your cells convert nutrients into energy — an activity you may know as metabolism. (4)

As Hashimoto’s progresses, it damages the thyroid gland, resulting in hypothyroidism. In hypothyroidism, the gland does not produce enough thyroid hormones to meet your body’s needs.

In Hashimoto’s thyroiditis, the thyroid typically becomes enlarged and cannot make sufficient thyroid hormones. As your immune system continues to attack it, it gets bigger and bigger. Although it doesn’t hurt, you might have trouble swallowing or feel pressure. The condition can cause a goiter in some people. Surgical intervention may be necessary to remove it. (5)

Hashimoto’s ultimately renders your thyroid nonfunctional. Eventually, it will do the reverse and shrink. Without adequate thyroid hormones and a fully functioning thyroid, many bodily functions become sluggish, and your health suffers. (5)

Hypothyroidism can cause a range of symptoms related to a slowed metabolism, including: (4, 6)

symptoms Hashimoto's

Hashimoto’s Thyroiditis Testing

Testing can help diagnose Hashimoto’s. Conventional doctors typically only check your TSH (thyroid-stimulating hormone) levels. However, to fully understand your thyroid’s overall health and not miss Hashimoto’s or any other thyroid issue, you should request a complete panel. In addition to TSH, a full panel checks: (7

  • Antibody levels (TPO and Tg)
  • Free T3 (fT3)
  • Free T4 (fT4)
  • Reverse T3 (rT3)
  • Total T4 (thyroxine)
  • Total T3 (triiodothyronine)

Diagnosing Hashimoto’s can be challenging. It often takes time and doesn’t happen until later in the disease process. Common laboratory findings show an elevated TSH and low levels of free T4 (fT4). Typically, this is accompanied by increased TPO (antithyroid peroxidase) and Tg (thyroglobulin) antibodies. 

Here’s a few key points to consider when reviewing a full thyroid panel: 

  • TSH is only a measure of hormone signaling from the pituitary to the thyroid gland. It tells it to make T4 but doesn’t give an indication of what the thyroid is actually doing. 
  • The liver converts T4 to T3 (the active form of thyroid hormone). Lab results on these two numbers can indicate if the liver is contributing to thyroid issues. 
  • When free T3 drops off and reverse T3 increases, it’s an indication that the body is under stress — most likely from toxicity and pathogenic infection.
  • Toxins are the biggest causes of elevated thyroid antibodies. Infections are implicated, too. 
  • When TPO and Tg antibodies are low, it’s reasonable to assume that autoimmune dysfunction is not a factor. Ideally, TPO should be less that 34 and Tg less than .9.
  • If the free T4 and T3 hormone markers are elevated, while total T4 and T3 markers are low, there's likely a testosterone dominance. If there are high total T4 and T3 markers and low free T4 and T3 markers, there's likely more of an estrogen dominance.

Also, keep in mind that lab results can fluctuate. In the early stages of the disease, people may actually show signs, symptoms, and test results indicating normal values or hyperthyroidism. This may happen because the destruction of thyroid cells is sporadic. (8)

Potential Causes

Based on research, autoimmune disorders are likely a combination of issues. Infections, nutrient deficiencies, poor gut health, and toxin burden may all play parts in triggering autoimmune diseases. Let’s take a closer look at these possible triggers.

possible sources of thyroid dsyfunction


Bacterial, parasitic, and viral infections are a primary reason for developing autoimmune conditions, including Hashimoto’s thyroiditis. Infectious pathogens are thought to play a significant role in autoimmune diseases. Specific pathogens can worsen autoimmune diseases as well. (9)

In particular, the parasitical infection Blastocystis hominis and bacterial infection H. pylori have both been linked to Hashimoto’s disease. (10, 11)

Along with this, viral infections are often cited as a major factor in autoimmune thyroid diseases. Research has found a link between Esptein-Barr virus and thyroid disease. Other viruses or their components that have been found in the thyroid gland include enterovirus, herpes, HTLV-1, mumps virus, parvovirus, retroviruses, and rubella. Studies have yet to conclusively determine whether viral infection is responsible for thyroiditis. (12, 13, 14, 15)

Nutrient Deficiencies

A healthy and nutrient-dense diet is essential for optimal thyroid function. Nutritional deficiencies that may be behind thyroid issues include: (16, 17)

  • B vitamins
  • Iodine
  • Magnesium
  • Protein
  • Selenium
  • Vitamin A
  • Vitamin D 
  • Vitamin E
  • Zinc

You can eat foods high in these nutrients to help support thyroid health. However, if you cannot get the quality and quantity of nutrients you need from food, supplements are an option.

Poor Gut Health

Compromised gut health and leaky gut are involved in nearly all autoimmune conditions, including Hashimoto’s thyroiditis. Chronic stress, food allergies/sensitivities, gut dysbiosis, infections, poor nutrition, and toxic exposure may all lead to leaky gut. 

A leaky gut condition occurs when holes or gaps exist alongside the lining of your gastrointestinal tract. Issues, like those just mentioned, can cause the spaces between cells to widen. This allows large particles — such as pathogens, toxins, and undigested food — to enter your bloodstream. Once circulating your whole body, the immune system mistakes these particles for foreign invaders and creates antibodies to fight them off. This self-attacking immune response can result in autoimmunity and chronic inflammation. (18)


Toxins are everywhere — in our air, food, households, personal care products, water, and more. They are unavoidable and can build up in our body. This leads to inflammation and dysfunction of key systems in the body. Overtime, an excess of toxins can contribute to or cause many ailments. 

Biotoxins and environmental toxins are a leading contributor to autoimmune diseases and thyroid problems. They can damage proper immune balance, thyroid function, and overall wellness. These toxins include: (19, 2021)

Conventional Medicine vs. Foundational Medicine Approach

Conventional medicine treats Hashimoto’s with thyroid medication that contains synthetic thyroid hormones once hypothyroidism develops — even for mild cases, such as during pregnancy. The drug will likely be taken once daily and for the rest of your life. Some people have surgery to remove the gland. (22)

Allopathic medicine views Hashimoto’s disease as a chronic, incurable condition. Basically, it’s an autoimmune disorder without any explanation of the root cause and how to address it. The foundational and functional medicine worlds take a different approach.

A foundational approach looks to find potential root causes of hypothyroidism symptoms. Foundational medicine also works to restore basic drainage and detox function, which can in turn help areas like the thyroid.

Ways to support your body’s foundation include:

Boost Iodine Intake 

Iodine is a controversial topic when discussing Hashimoto’s. Some healthcare practitioners say iodine is essential for healing autoimmune thyroid conditions. Others say absolutely no iodine if you have autoimmune hypothyroidism.

For whole body wellness, iodine is essential. Every single cell in the body requires iodine. So decreasing, minimizing, or refusing to take iodine because of autoimmune thyroiditis could harm many other areas of your body. (23)

What’s the potential problem with taking iodine when you have hypothyroid issues? The supplemental iodine may bump up your TPO and Tg antibody numbers when they are already high (signaling autoimmune dysfunction). Yet, you can still introduce the necessary iodine without raising the antibody levels. You just need to take it in much smaller doses and then work up. (24)

To ease into it, try dosing with a broad spectrum mineral product and supporting your liver health for one to two months before adding an iodine supplement. This can help minimize an iodine-induced thyroid storm, plus increases in TPO and Tg antibodies. 

thyroid boost iodine intake

Clear Infections

As previously stated, bacterial, parasitic, and viral infections are a main reason for developing autoimmune conditions. As a result, clearing these infections can help to heal an autoimmune issue like Hashimoto’s. (9)

A holistic, foundational approach can help to tackle all these infections. That approach includes taking supplements that support your drainage, detoxification, and immune functions. Some types of supplements that may help in your fight against opportunistic pathogens include: (25, 26, 27)

  • Drainage supplements: Drainage pathways in the body “take out the garbage.” Having these pathways open and free-flowing is critical for healing from infections. Certain herbs and botanicals support toxin removal via your lymphatic system. Also, you should make sure you’re eliminating toxins regularly through your stools. Bowel-moving herbs can assist with this.
  • Detox supplements and binders: Your kidneys and liver process the bulk of toxins and send them out in your urine and stools. These organs benefit from extra support with herbs that support kidney and liver function. TUDCA, a water-soluble bile acid that can be taken as a supplement, also supports toxin elimination from your liver.
  • Liquid minerals: You need minerals like selenium and zinc for healthy immune function that fights infections effectively. With specially-formulated BioActive Carbon-based liquid minerals, you absorb minerals before pathogens can, as explained in this short video.
  • Parasite-fighting herbs: Parasites are a substantial drain on your immune system. Some also harbor the Lyme bacteria Borrelia and other pathogens. Taking parasite-fighting herbs may help you take down the critters. Mimosa pudica seed also supports cleaning out parasites and other unwanted substances out of your gut. (28)

Clear Toxins

Toxicity significantly contributes to health challenges, including Hashimoto’s thyroiditis. In many cases, the toxicity itself causes the deficiency. (20)

BioActive Carbon-based binders can help limit or decrease toxic burdens. Made from humic and fulvic acids, these binders work like a strong magnet in the body. They hold on tight to toxins and remove them from your body via your stools. Here’s some other benefits of BioActive Carbon: (29, 30, 31, 32, 33, 34, 35, 36, 37, 38)

  • Adds antioxidants and nutrients to the body
  • Has a natural delivery system
  • Removes the harmful substances and leaves the good 
  • Targets a wide variety of toxins
  • Works systemically throughout the body

Heal the Gut 

Several methods exist to heal the gut and balance the microbiome. Several of them were already discussed. They include: (39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49)

  • Avoiding unnecessary medications
  • Binding gut toxins
  • Consuming fermented foods
  • Conquering infections
  • Following a healthy diet
  • Reducing stress
  • Taking a spore-based probiotic

Thyroid-healing Diet

A thyroid-healing diet is low in carbohydrates and high in clean protein, healthy fiber and fats, and plant-based nutrients. Some of the best foods to eat include: (50, 51, 52, 53)

  • Avocados
  • Apple cider vinegar
  • Coconut fat
  • Cooked cruciferous vegetables
  • Lemons and limes
  • Fermented foods
  • Olive oil
  • Olives
  • Organic bone broths
  • Organic grass-fed ghee or butter
  • Pasture-raised animal products
  • Sea vegetables
  • Wild-caught fish

Include foods, herbs, or supplements plentiful in: (54, 55, 56, 57, 58, 59, 60, 61, 62, 63)

  • Vitamin A — found in broccoli, carrots, spinach, and sweet potatoes
  • Vitamin D — found in egg yolks, fish liver oils, mushrooms, and wild-caught fish
  • Vitamin E — found in almonds, avocados, peanuts, and sunflower seeds
  • B vitamins — found in leafy greens, legumes, liver, meats, organic eggs, and wild-caught salmon
  • Magnesium — found in green leafy vegetables, nuts, organic dairy, potatoes, soybeans, quinoa, and whole wheat
  • Omega-3s — found in fish liver oils, nuts, seeds, and wild-caught fish and seafoods
  • Selenium — found in Brazil nuts, organic dairy, pastured organ meats, some plants (if grown in soil with selenium), and wild-caught seafood
  • Zinc — found in fortified grains, pastured red meats, and some wild-caught seafood

healthy foods for thyroid diet nutrition

You can also focus your diet on fighting autoimmunity. In an autoimmune diet, you eat anti-inflammatory foods and eliminate inflammatory foods.

To limit inflammation, avoid or reduce: (64)

  • Fried foods
  • Margarine, lard, shortening, and trans-fatty acids
  • Processed meats and red meat
  • Refined carbohydrates
  • Soda and other sugary or high-fructose corn syrup beverages

Anti-inflammatory foods to add to your diet include: (64)

  • Avocado, coconut, and olive oils
  • Green leafy vegetables
  • Low glycemic fruits
  • Nuts, like almonds and walnuts
  • Wild-caught fatty fish like mackerel, salmon, sardines, and tuna

Final Thoughts

Hashimoto’s thyroiditis is a chronic autoimmune disease that causes an underactive thyroid and its associated symptoms. As it’s the most common form of hypothyroidism, it should be the first checking point if you are experiencing thyroid challenges.

It’s crucial not to allow symptoms of thyroid issues, including Hashimoto’s disease, to go unchecked and unaddressed. If you suspect a thyroid issue, make sure you get sufficient testing for a proper diagnosis and then work toward healing. 

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