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How Menopause Affects the Gut Microbiome

Biology

3 Min Read

By Nutrafol Team2026-03-05

We tend to associate menopause with hormonal shifts and the signs that accompany them: hot flashes, night sweats, changes in mood, and sleep disturbances, to name a few. 

For a long time, research on how to support women throughout the menopausal transition has been lacking.1 Thankfully, that’s changing. New findings are uncovering ways menopause impacts different systems in the body—potentially opening new doors to provide better support for menopausal health. 

The digestive tract, also called the “gut”, technically starts at the mouth and includes the esophagus, stomach, and intestines. The gut is home to trillions of microorganisms like bacteria, yeast, and fungi that make up the microbiome. The microbiome is essential for not only breaking down and absorbing nutrients from food but also helping to regulate hormones, immunity, metabolism, and other essential functions for multiple aspects of health.

The post-menopause chapter typically carries increased concerns around healthy aging and preventing reproductive, bone, and metabolic disease. The gut microbiome is known to impact these and other factors, so focusing on supporting it in this life stage may help reduce common discomforts, improve resilience, and support overall quality of life.1

Our gut microbiome is a reflection of our everyday lives, influenced by what we eat and where we live. The more diversity (or variety of microorganisms) within the microbiome, the healthier the gut—which can mean better overall health. The gut microbiome becomes more individualized throughout the aging process, and continues to play a key role in our health in the post-menopausal chapter—which, considering the average life expectancy, can make up about a third of a woman’s life.1

Gut and hormone health in menopause.

A healthy gut microbiome helps metabolize and recirculate hormones like estrogen, helping to regulate levels in the body. There is evidence that the gut may play a larger role in supporting hormone health during perimenopause and menopause, compared to during menstruating years.1,2 As the ovaries become less active in hormone production, the gut may play a crucial role in helping to maintain hormone levels.1 

Conversely, hormone levels may also impact the gut microbiome.1 Hormones such as progesterone and estradiol (a form of estrogen) may help maintain the gut lining, which acts as a barrier between the digestive tract and the rest of the body.1 When progesterone and estradiol become less active post-menopause, it could result in changes to the gut lining.1

How gut health can impact overall menopausal health.

If hormones influence the gut lining and microbiome, different systems throughout the body may start to feel the impact.1 Some of these impacts may be especially important for systems relevant to post-menopausal health, including:

  • Supporting metabolic health and maintaining a healthy weight.1

  • Regulating mood and managing stress.1

  • Maintaining bone health.3 

  • Supporting breast and vaginal health.1

Therefore, supporting gut health in menopause is not only about supporting healthy hormone metabolism, but also a good way to support different body systems relevant to post-menopausal health.

How to support a healthy gut microbiome in menopause.

Probiotic supplements may support the menopausal gut microbiome by aiding calcium absorption, strengthening the gut lining, promoting heart health, and supporting a healthy weight by regulating sugar and fat metabolism.1,3  Multi-strain options may be particularly beneficial at helping to increase gut microbiome diversity.1 

Eating a diet containing these foods can support gut health during menopause:

  • Sugar-regulating foods like green tea, broccoli, flaxseed, yellow mustard, fenugreek, and turmeric can help aid the microbiome and support healthy metabolism.2 

  • High fiber foods like vegetables, fruits, nuts, seeds, beans, and legumes support overall gut health—and can even help support mental health.1 

  • Fermented dairy products, like yogurt and kefir, typically contain lactic acid bacteria, a type of bacteria that supports calcium absorption and protects the intestinal barrier.1 

  • Polyphenol-rich foods, like veggies, fruits, and nuts, may provide antioxidant benefits and support healthy sugar metabolism.2 

  • Omega-3 fatty acids, from fatty fish like salmon, walnuts, and flaxseed, also help support healthy sugar and lipid metabolism and may support the gut microbiome.2 

  • Soy isoflavones (estrogen-like compounds found within the soy plant) may have protective effects against some menopausal health concerns and support breast health. It may be especially helpful to opt for less processed, traditionally consumed soy-based options, like miso or tempeh.1,4 

A key takeaway: simple interventions—like probiotic supplements or incorporating gut-friendly foods into your diet—are relatively inexpensive and safe ways to continue to support gut health in menopause. As research continues to grow in these topics, we will keep learning more about how to support health through menopause to help make this life stage more enjoyable.

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1. Yu S, Huang F, Huang Y, Yan F, Li Y, Xu S, Zhao Y, Zhang X, Chen R, Chen X, Zhang P. Deciphering the influence of gut and oral microbiomes on menopause for healthy aging. J Genet Genomics. 2025;52(5):601–614. https://www.sciencedirect.com/science/article/pii/S1673852724003114

2. Singh V, Park YJ, Lee G, Unno T, Shin JH. Dietary regulations for microbiota dysbiosis among post-menopausal women with type 2 diabetes. Crit Rev Food Sci Nutr. 2023;63(29):9961–9976. Published 2022 May 30. doi:10.1080/10408398.2022.2076651. PMID: 35635755

3. Barrea L, Verde L, Auriemma RS, Vetrani C, Cataldi M, Frias-Toral E, Pugliese G, Camajani E, Savastano S, Colao A, Muscogiuri G. Probiotics and Prebiotics: Any Role in Menopause-Related Diseases? Curr Nutr Rep. 2023;12(1):83–97. Published 2023 Feb 7. doi:10.1007/s13668-023-00462-3. PMID: 36746877; PMCID: PMC9974675

4. Messina M, Duncan A, Messina V, Lynch H, Kiel J, Erdman JW Jr. The health effects of soy: A reference guide for health professionals. Front Nutr. 2022;9:970364. Published 2022 Aug 11. doi:10.3389/fnut.2022.970364. PMID: 36034914; PMCID: PMC9410752

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