Hashimoto's Thyroiditis: Autoimmunity and the Thyroid
Level 2, Intermediate
In brief
Hashimoto thyroiditis is a common autoimmune condition in which the immune system gradually damages the thyroid, marked by thyroid peroxidase antibodies. Many people with antibodies keep normal thyroid function for years; risk of progression rises with antibody levels and TSH. It clusters with other autoimmune conditions. Iodine excess, selenium status and some medicines influence it, but evidence that diet, supplements or lowering antibody levels changes long term outcomes remains limited.
For many patients, a diagnosis of Hashimoto thyroiditis is less about the thyroid than about autoimmunity. They want to know why their immune system is attacking their own gland, whether they can stop it, whether they are at risk of other autoimmune conditions and whether their diet or lifestyle matters. These are reasonable questions, and they have partial answers. This article explains what is known about the autoimmune process, what influences it and where the evidence currently stands on interventions aimed at it.
The autoimmune process
In Hashimoto thyroiditis, immune cells infiltrate the thyroid and gradually destroy thyroid tissue. The process involves T cells, B cells and antibodies against thyroid proteins, principally thyroid peroxidase, an enzyme essential for hormone synthesis, and thyroglobulin, the protein from which hormones are made. Thyroid peroxidase antibodies are present in the great majority of people with the condition and are the main diagnostic marker. The antibodies are markers of the autoimmune process rather than the main cause of damage, which is largely driven by immune cells.
As thyroid tissue is lost, the gland produces less hormone. TSH rises to compensate, and eventually hypothyroidism develops. The gland may enlarge, forming a goitre, or shrink over time.
How common it is
Thyroid peroxidase antibodies are found in a sizeable minority of adults in population surveys, more often in women and increasing with age. Autoimmune thyroid disease is several times more common in women than men. Not everyone with antibodies develops hypothyroidism. In a long term population study in northern England, women with both positive antibodies and a raised TSH had a substantially higher annual risk of developing overt hypothyroidism than women with either finding alone.
Why it develops
Like most autoimmune diseases, Hashimoto thyroiditis arises from an interaction of genetic susceptibility and environmental factors.
| Factor | What is known |
|---|---|
| Genetics | Family clustering and twin studies show substantial heritability; variants in immune regulatory genes contribute |
| Sex and hormones | Much more common in women; onset often around pregnancy, postpartum or perimenopause |
| Iodine | High iodine intake is associated with increased autoimmune thyroiditis at population level; sudden increases may trigger it in susceptible people |
| Selenium | Low selenium status is associated with higher prevalence of autoimmune thyroiditis |
| Smoking | Paradoxically associated with lower risk of autoimmune hypothyroidism, though it worsens other thyroid conditions and overall health |
| Medicines | Immune checkpoint inhibitors, interferon alpha and amiodarone can trigger thyroid autoimmunity |
| Pregnancy | Immune changes after delivery can unmask or trigger thyroiditis |
| Infections and other factors | Various infections, vitamin D status, stress and environmental chemicals have been studied, with inconsistent findings |
The autoimmune cluster
People with Hashimoto thyroiditis have a higher risk of other autoimmune conditions, and vice versa. Commonly associated conditions include coeliac disease, type 1 diabetes, pernicious anaemia and autoimmune gastritis, vitiligo, rheumatoid arthritis, alopecia areata and, rarely, adrenal insufficiency. Practitioners should consider these when symptoms suggest them. Coeliac disease and B12 deficiency deserve particular attention because they are common, treatable and affect levothyroxine absorption and symptoms.
Pregnancy considerations
Thyroid peroxidase antibodies in pregnancy are associated with increased risk of miscarriage and postpartum thyroiditis. A large randomised trial in women with positive antibodies and normal thyroid function who were trying to conceive found that levothyroxine did not increase live birth rates compared with placebo. Women with autoimmune thyroid disease who become pregnant need monitoring of thyroid function because they may not be able to increase hormone production to meet the demands of pregnancy. This care is managed by their obstetric and medical teams.
Can the autoimmune process be modified?
This is the question patients most often ask, and the honest answer is that no intervention has been shown to halt or reverse Hashimoto thyroiditis in the long term. Several have been studied.
Selenium
Meta analyses show that selenium supplementation lowers thyroid peroxidase antibody levels. Whether this reduces progression to hypothyroidism, improves symptoms or improves quality of life has not been established, and excess selenium carries risks, including a possible increase in diabetes risk. Selenium may be reasonable in people with low intake, for a limited period, but it is not a cure.
Gluten free diets
For people with coeliac disease, a gluten free diet is essential. For people without coeliac disease, a small trial found that a gluten free diet reduced antibody levels, but the evidence is limited, and a gluten free diet has costs and nutritional implications. It is not recommended routinely for people without coeliac disease, though some patients choose to try it.
Vitamin D
Low vitamin D is associated with autoimmune thyroiditis, and some trials report reduced antibodies with supplementation. Correcting deficiency is reasonable; evidence for broader benefit is limited.
Other approaches
Myo inositol combined with selenium, low iodine diets, anti inflammatory diets and various supplements have been studied in small trials or not at all. Antibody levels are sometimes used as a target of treatment, but there is no good evidence that tracking or lowering antibodies improves clinical outcomes, and levels fluctuate. Thyroid function and symptoms are more meaningful measures.
Iodine: a balance
People with Hashimoto thyroiditis should have adequate iodine intake, particularly in pregnancy, but should avoid high dose iodine supplements, kelp and large amounts of seaweed, which can worsen thyroid function in susceptible people.
What practitioners can do
- Explain the condition accurately: it is common, often slowly progressive, treatable with levothyroxine when hypothyroidism develops, and compatible with a normal life.
- Monitor thyroid function periodically in people with positive antibodies and normal function, as advised by their doctor.
- Screen for associated conditions when symptoms suggest them, particularly coeliac disease, B12 deficiency and iron deficiency.
- Optimise nutrition: adequate but not excessive iodine, sufficient selenium from food, correction of vitamin D and iron deficiency.
- Support general health: sleep, stress management, activity and diet quality affect how people feel, whatever their antibody levels.
- Discuss interventions honestly, distinguishing established treatment from interventions with limited evidence.
- Coordinate pregnancy planning with the patient’s doctor.
An illustrative case
A 34 year old woman is found to have positive thyroid peroxidase antibodies and a TSH of 5.2 mU/L with normal free T4. She is anxious, having read that her immune system is destroying her thyroid and that she must follow a strict protocol to stop it. She also has bloating and fatigue.
The practitioner explains the diagnosis, its usual slow course and the evidence about interventions. Her doctor plans to repeat her thyroid tests in a few months and checks for associated conditions. Coeliac serology is negative, but her ferritin and vitamin D are low; both are treated. Her diet, low in fish and dairy and high in processed food, is improved to provide adequate iodine and selenium from food. Her bloating is addressed with dietary changes. She decides against a restrictive protocol. At follow up her TSH is stable, her energy has improved with iron repletion, and her anxiety has eased with an accurate understanding of her condition.
Understanding without overpromising
Hashimoto thyroiditis sits at the meeting point of immunology and endocrinology. Practitioners can help patients most by explaining the autoimmune process honestly, looking for associated conditions and deficiencies, supporting overall health and being clear that, for now, the most reliable treatment is careful monitoring and thyroid hormone replacement when needed.
Questions about Hashimoto
Will everyone with thyroid antibodies develop hypothyroidism?
Can diet reverse Hashimoto thyroiditis?
Should people with Hashimoto avoid gluten?
References
- Ralli M, Angeletti D, Fiore M, et al. Hashimoto’s thyroiditis: an update on pathogenic mechanisms, diagnostic protocols, therapeutic strategies, and potential malignant transformation. Autoimmunity Reviews. 2020;19(10).
- Vanderpump MPJ, Tunbridge WMG, French JM, et al. The incidence of thyroid disorders in the community: a twenty year follow up of the Whickham Survey. Clinical Endocrinology. 1995;43(1).
- TABLET Trial Collaborative Group. Levothyroxine in women with thyroid peroxidase antibodies before conception. New England Journal of Medicine. 2019;380(14).
- Wichman J, Winther KH, Bonnema SJ, Hegedüs L. Selenium supplementation significantly reduces thyroid autoantibody levels in patients with chronic autoimmune thyroiditis: a systematic review and meta analysis. Thyroid. 2016;26(12).
- Krysiak R, Szkróbka W, Okopień B. The effect of gluten free diet on thyroid autoimmunity in drug naïve women with Hashimoto’s thyroiditis: a pilot study. Experimental and Clinical Endocrinology and Diabetes. 2019;127(7).
- Hollowell JG, Staehling NW, Flanders WD, et al. Serum TSH, T4, and thyroid antibodies in the United States population (1988 to 1994): National Health and Nutrition Examination Survey (NHANES III). Journal of Clinical Endocrinology and Metabolism. 2002;87(2).
Continue your learning
Caring for autoimmune thyroid disease
Autoimmune thyroid disorders are covered in IIFM’s 6 month Functional Medicine and Clinical Nutrition program within the “Thyroid Disorders” and “Inflammation and Immune Dysfunction” modules, connecting immune assessment with thyroid care.
This article is for the education of healthcare professionals. It is not a substitute for individual medical advice, diagnosis or treatment, and does not change any practitioner’s scope of practice. Regulation and guidelines differ between countries.

