Could your thyroid be the cause of your digestive woes?

Constipation, diarrhea, bloating, SIBO, IBS — if your gut has been unhappy and no one has checked your thyroid, part of the picture may be missing. The two systems are deeply intertwined, and the relationship runs both ways.

Key takeaways
Ideal elimination is 1–3 times a day; far less — or frequent loose stools — both signal a problem.
Hyperthyroidism speeds the gut (diarrhea, fat malabsorption); hypothyroidism slows it (constipation).
Hypothyroidism predisposes to SIBO — 54% of hypothyroid patients tested positive in one study, vs 5% of controls.
It’s bidirectional: the gut absorbs thyroid nutrients and converts ~20% of T4 to active T3, so gut trouble impairs thyroid function too.
In this article
I. What healthy digestion looks like
II. Digestion & hyperthyroidism
III. Digestion & hypothyroidism
IV. Chicken or the egg? Gut → thyroid
V. A comprehensive approach
VI. Common questions

The thyroid is the butterfly-shaped gland in the lower part of the neck. It produces hormones that regulate many body functions, including metabolism, heart function, digestion, muscle control, brain development, mood regulation, and bone maintenance. It’s essential to your overall function and wellness — which makes it no surprise that thyroid health also contributes to digestive health.

What healthy digestion looks like

In our modern times, digestion issues are very common. But as we often learn in functional medicine, “common” does not always define the way a body should optimally function. Many people think they’re eliminating waste regularly when they’re not. You’ll often hear it’s “normal” to have a bowel movement anywhere from three times a week to three times a day — but what’s “normal” isn’t necessarily ideal.

Ideally, you should be eliminating waste 1 to 3 times a day.

Your liver clears your body of toxins and moves them to your intestines — so if you’re not emptying waste regularly, those toxins are reabsorbed.1,2 On the other hand, if you’re having frequent loose stools or diarrhea, that’s also problematic, because your body isn’t absorbing necessary nutrients. This brings us to the thyroid and the digestive trends of both hyperthyroidism (overactive) and hypothyroidism (underactive).

Two directions: hyper vs. hypothyroidism

Hyperthyroidism — too fast
Increased metabolism; unexpected weight loss
Rapid/irregular heartbeat, sweating, irritability
Abnormally low LDL cholesterol
Intestinal hypermotility → diarrhea, frequent BMs
Fat malabsorption (excess fat in stool)
Hypothyroidism — too slow
Everything slows; fatigue, feeling cold, weight gain
Dry skin, trouble focusing or remembering
LDL cholesterol builds up in the blood
Slowed motility → constipation
Predisposition to SIBO and IBS overlap

Digestion and hyperthyroidism

In hyperthyroidism, an overactive thyroid produces too many hormones and increases the body’s metabolism. Because thyroid hormones help break down LDL cholesterol, the excess can push LDL abnormally low. Causes may include Graves’ disease (an autoimmune condition with a genetic component), thyroiditis (inflammation of the thyroid), and toxic nodular goiter. Patients may have an increased appetite, yet in severe cases increased calorie intake isn’t enough to maintain a healthy weight. They often have mild to moderate diarrhea and frequent bowel movements — intestinal hypermotility decreases small-bowel transit time — and fat malabsorption may contribute to excess fat in the stool.3

Digestion and hypothyroidism

In hypothyroidism, an underactive thyroid isn’t producing enough hormone and your whole body may feel like it’s slowing down. With decreased hormone production, the body can’t break down LDL cholesterol, so LDL builds up in the blood. Causes may include Hashimoto’s (an autoimmune condition in which the body attacks the thyroid) and thyroiditis.

Constipation is a common complaint — motility is significantly slower than in people without the condition,4 possibly due to intestinal swelling from mucopolysaccharide accumulation in gastrointestinal tissue. When thyroid hormone is replaced, transit time can decrease significantly, improving constipation.5

54%of hypothyroid patients
tested positive for SIBO in one study of 50 patients with a history of hypothyroidism — versus just 5% of 40 healthy controls. Slower motility is a risk factor for small intestinal bacterial overgrowth, so the sluggish gut of hypothyroidism may predispose a patient to it.6

Though constipation is the most frequent complaint with hypothyroidism and SIBO, patients sometimes alternate between constipation and diarrhea — or have diarrhea as a primary symptom — due to bacterial overgrowth.7 Thyroid dysfunction is also prevalent in patients with irritable bowel syndrome (IBS), specifically those with subclinical hypothyroidism.8 When a patient has IBS, the health of the thyroid should be kept in mind. See our overview of SIBO and how it’s tested for more.

Chicken or the egg?

So thyroid health can affect gut health — but does gut health affect thyroid health? Yes. When the gut is inflamed, it can impair nutrient absorption, including malabsorption of nutrients like iodine and selenium, which are crucial for optimal thyroid health.9

A significant portion — about 20% — of the conversion of T4 into the active form of thyroid hormone (T3) occurs in the gut. When there’s an unhealthy balance between beneficial and pathogenic bacteria, this conversion decreases. Lipopolysaccharide (LPS), a component of bacterial cell walls, can also wreak havoc on T4-to-T3 conversion. With increased intestinal permeability (“leaky gut”), LPS can leak through the intestinal walls into the bloodstream, where it inhibits iodothyronine deiodinase — the enzyme responsible for converting T4 into T310 — and can decrease the expression of thyroid receptors, so the thyroid’s messages aren’t communicated effectively.11

As covered in why ditching gluten and dairy may help autoimmune thyroid disease, a leaky gut also allows large particles to seep through the gut lining into the bloodstream, which can increase the chances of an autoimmune reaction such as Hashimoto’s.

A comprehensive approach

Gut/digestive health and thyroid health are intertwined, so it’s important to heal both. That may include:

To address many of these factors, we recommend a comprehensive stool test to accurately assess and address gut health. We use these tests to look for infections, enzyme status, whether fat is properly digested, gliadin tolerance, inflammation in the colon, intestinal permeability, and the need for pre/probiotics.

Common questions

Can thyroid problems cause digestive issues?
Yes. Thyroid hormones help regulate digestion and gut motility. Hyperthyroidism speeds the gut, often causing diarrhea, frequent bowel movements, and fat malabsorption, while hypothyroidism slows it, commonly causing constipation and predisposing to conditions like SIBO.
How does hypothyroidism cause constipation?
Hypothyroidism slows intestinal motility significantly compared with people who don’t have the condition, partly due to intestinal swelling from mucopolysaccharide accumulation in gastrointestinal tissue. When thyroid hormone is replaced, transit time can decrease significantly, improving constipation.
Is there a link between hypothyroidism and SIBO?
Yes. Slower motility is a risk factor for SIBO. In a study of 50 patients with a history of hypothyroidism and 40 healthy controls, 54% of the hypothyroid patients tested positive for SIBO versus 5% of controls — a statistically significant difference.
Can gut health affect the thyroid?
Yes — it goes both ways. An inflamed gut can impair absorption of nutrients like iodine and selenium; about 20% of the conversion of T4 to active T3 occurs in the gut; and lipopolysaccharide (LPS) from a leaky gut can inhibit the enzyme that converts T4 to T3 and reduce thyroid-receptor expression.
References (11) ▾
  1. Walter SA, Kjellström L, Nyhlin H, Talley NJ, Agréus L. Assessment of normal bowel habits in the general adult population. Scand J Gastroenterol. 2010;45(5):556-566. https://pubmed.ncbi.nlm.nih.gov/20205503/
  2. Colonic transit, bowel habit, and enterohepatic handling of waste. Gastroenterology. https://www.gastrojournal.org/article/S0016-5085(72)80018-0/pdf
  3. Ebert EC. The thyroid and the gut. J Clin Gastroenterol. 2010;44(6):402-406. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2699000/
  4. Gastrointestinal motility disorders in hypothyroidism. Gastroenterol Res Pract. 2009;2009:529802. https://www.hindawi.com/journals/grp/2009/529802/
  5. Thyroid hormone replacement and intestinal transit time. PubMed. https://pubmed.ncbi.nlm.nih.gov/6706068/
  6. Lauritano EC, Bilotta AL, Gabrielli M, et al. Association between hypothyroidism and small intestinal bacterial overgrowth. J Clin Endocrinol Metab. 2007;92(11):4180-4184. https://pubmed.ncbi.nlm.nih.gov/17698907/
  7. Bacterial overgrowth and bowel-habit patterns in hypothyroidism. PubMed. https://pubmed.ncbi.nlm.nih.gov/2303691/
  8. Prevalence of thyroid dysfunction in irritable bowel syndrome. 2018. https://www.researchgate.net/publication/322946988
  9. Gut inflammation and malabsorption of iodine and selenium. Horm Metab Res. https://www.thieme-connect.de/products/ejournals/abstract/10.1055/s-0028-1094095
  10. Lipopolysaccharide inhibits type I iodothyronine deiodinase (T4→T3 conversion). J Biol Chem. 2000;275(49):38296. https://www.jbc.org/content/275/49/38296
  11. Endotoxin/LPS and thyroid hormone receptor expression. Am J Physiol Endocrinol Metab. 2002. https://journals.physiology.org/doi/full/10.1152/ajpendo.00155.2002
This article is educational and is not medical advice, diagnosis, or treatment. Persistent digestive symptoms should be evaluated with a qualified practitioner.
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