Low FODMAP Diet: How It Affects Gut Bacteria, Prebiotics & Probiotics

Low FODMAP Diet: How It Affects Gut Bacteria, Prebiotics & Probiotics

If you have ever wondered how cutting back on certain carbohydrates can settle a sensitive gut while also changing what your gut bacteria get to eat, this guide is for you. FODMAPs are short-chain carbohydrates that can trigger symptoms in some people with irritable bowel syndrome (IBS). The low FODMAP diet helps you work out which types, and how much, affect you [1,2].

The aim is to find the widest range of foods you can comfortably eat. That means looking beyond restriction to reintroduction, gut bacteria and the evidence behind prebiotics and probiotics. A change in bacterial numbers does not automatically mean better health or fewer symptoms [3,4]. Here, you will learn how to interpret that research and check food and supplement labels without making your diet more restrictive than it needs to be.

Before you change your diet

This article is for general information and does not replace medical advice. Food supplements are not a substitute for a varied, balanced diet and a healthy lifestyle.

If you have persistent or unexplained digestive symptoms, speak to your GP before changing your diet. If a low FODMAP diet is appropriate, ask for support from a registered dietitian with relevant training [5,6,7].

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What is FODMAP, and how does it affect digestion?

In short

FODMAP stands for fermentable oligosaccharides, disaccharides, monosaccharides and polyols. These short-chain carbohydrates may be poorly absorbed in your small intestine. They can draw water into the bowel and be fermented by bacteria, producing gas. In people with IBS, this can contribute to bloating, pain and changes in bowel habit [1,2].

What does FODMAP stand for?

Each letter points to a process or carbohydrate group found in familiar foods. Many of these foods can form part of a varied diet. Your tolerance depends on the food, portion and FODMAP group involved [1,8].

Letter Group What it is Familiar examples
F Fermentable Bacterial breakdown of carbohydrates, which can produce gas A process, rather than a separate food group
O Oligosaccharides Fructans and galacto-oligosaccharides (GOS) Wheat, rye, onion and garlic; legumes and pulses
D Disaccharides Lactose Milk and some yoghurts and soft cheeses
M Monosaccharides Fructose in excess of glucose Honey and apples
P Polyols Sugar alcohols, including sorbitol and mannitol Some fruit and vegetables, and certain sugar-free sweeteners

Sources: [1,2]. Foods can contain more than one FODMAP group.

Why can FODMAPs trigger digestive symptoms?

The water and gas associated with FODMAPs can stretch your bowel. In IBS, increased sensitivity to that stretching can turn normal digestive activity into discomfort. This helps explain why you and someone else can eat the same food and feel different afterwards [1,2].

Fermentation is a normal part of digestion, and high FODMAP foods are not inherently unhealthy. Some FODMAPs also provide substrates for gut bacteria. If you do not have IBS or related symptoms, you do not generally need to avoid them [1,2].

Flat lay on a light marble surface of familiar foods that contain FODMAPs, including bread, onion, garlic, an apple, honey and a glass of milk

Who is the low FODMAP diet for?

The low FODMAP diet is used to manage symptoms in people with diagnosed IBS. It will not help everyone, and the NHS emphasises that no single diet works for everyone with IBS [9,10].

British Society of Gastroenterology (BSG) guidance places it as a second-line dietary therapy, supervised by a trained dietitian. NICE recommends expert dietary support when symptoms persist despite general advice [5,6]. For broader habits to discuss alongside your care, see our guide on how to improve gut health.

Persistent symptoms need assessment before restriction. A GP may arrange blood tests for coeliac disease and stool tests to investigate other causes. Removing gluten before coeliac testing can interfere with the assessment, so discuss this first [1,7].

Your situation Sensible first step
New or unexplained digestive symptoms See your GP for assessment before restricting foods [7]
Diagnosed IBS, with symptoms despite general advice Ask about a dietitian trained in the low FODMAP diet [5,6]
Feeling better during restriction Plan reintroduction with your dietitian [1,11]
Considering a supplement alongside dietary changes Discuss the formulation and make one change at a time [12]

Which foods are high and low in FODMAPs?

A food can be low FODMAP at one portion and higher at another. Variety, ripeness and processing can also matter. Use a current, laboratory-tested resource, such as the Monash University FODMAP app, to check the specific food and serving you plan to eat [1]. The examples below help you plan questions and swaps; they are not a substitute for current serving guidance.

Low FODMAP vegetables: why portions matter

You can still include a range of low FODMAP vegetables. Monash notes that very few vegetables are completely off limits during the diet, and that a vegetable rated high at a full serve may be low at a smaller one [8]. Check the exact vegetable in the app rather than assuming that every colour, plant part or preparation has the same rating.

For example, the green and white parts of some vegetables can have different FODMAP levels. Preparation matters for pulses too: some water-soluble GOS can move into the liquid during canning, so drained and rinsed canned lentils or chickpeas may offer useful alternatives at tested portions [1].

When you combine several low FODMAP foods, you do not need to assume the meal will cause symptoms. Monash notes that many people tolerate reasonable portions together. If symptoms persist, review the whole meal and your individual tolerance with your dietitian [13].

Simple low FODMAP food swaps

Swapping can help you keep meals enjoyable during restriction. These examples of low FODMAP foods need serving and ingredient checks; higher FODMAP foods can be tested again during reintroduction [1,11].

Food group Ingredient to review Alternative to check What to check
Vegetables and flavourings Onion and garlic Chives, green spring onion tops or garlic-infused oil without garlic pieces The plant part, added ingredients and tested serving [1]
Fruit Apples A firm banana Ripeness, variety and portion [1,14]
Grains Wheat bread Rolled oats or traditionally fermented spelt sourdough Serving size and the actual product; spelt contains gluten [1,15]
Dairy Milk containing lactose Lactose-free milk Lactose content and any added ingredients [1]
Pulses and other protein sources Larger portions of lentils or whole soya beans Drained and rinsed canned lentils or tempeh Preparation and the tested portion [1,15]

Low FODMAP, gluten-free and dairy-free are different things

FODMAPs are carbohydrates; gluten is a protein. Spelt contains gluten, even when a particular sourdough serving is low FODMAP. Oats contain a protein called avenin and may be contaminated with wheat, barley or rye. If you have coeliac disease, follow specialist advice about gluten-free oats [1,16].

A gluten-free label does not establish low FODMAP suitability: ingredients such as onion, honey or pear may still be present. Likewise, lactose is a milk sugar, so low FODMAP does not automatically mean dairy-free. Some matured cheeses are low in lactose [1].

Flat lay of low FODMAP swaps on a marble surface: rolled oats, a firm banana, chives, lactose-free milk and a jar of drained canned lentils

How does the low FODMAP diet work?

The diet has three stages. Restriction is temporary; personalisation becomes your longer-term eating pattern. The aim is to limit only the foods and amounts that trigger symptoms for you [1,11].

1

Restriction

Usually 2-6 weeks

What you do

Swap higher FODMAP foods for suitable alternatives and record symptoms

What you learn

Whether this approach helps your symptoms [1,9]

2

Reintroduction

A schedule agreed with your dietitian

What you do

Challenge individual FODMAP groups and amounts

What you learn

Which groups and portions you tolerate [1,2]

3

Personalisation

Ongoing

What you do

Bring back tolerated foods and review restrictions over time

What you learn

How to maintain variety while managing your triggers [11]

If symptoms do not improve during the initial trial, review the plan rather than extending restriction indefinitely [9,12]. Follow your dietitian's challenge schedule during reintroduction. Your tolerance may change, so a food that caused symptoms once does not necessarily need to remain excluded forever [11].

Glass containers of varied meal-prepped lunches with rice, vegetables and protein on a bright marble kitchen counter

How does a low FODMAP diet affect gut bacteria?

The important questions are whether the diet changes your gut bacteria, whether those changes affect health and whether they explain symptom relief. Research can measure bacterial changes more readily than it can establish their long-term clinical meaning [3,17].

What is your gut microbiota?

Your gut microbiota is the community of microorganisms living in your digestive tract. Undigested carbohydrates provide substrates for gut bacteria, so changing what you eat can change what reaches them [1].

Our guide to supporting your gut microbiome explores the wider topic. For the low FODMAP diet specifically, bacterial abundance and symptom relief need to be considered separately.

What does research show about the low FODMAP diet and gut bacteria?

A 2022 systematic review combined nine randomised controlled trials involving 403 people with IBS. It found consistently lower abundance of Bifidobacteria during a low FODMAP diet, with no clear effect on overall microbial diversity, total faecal short-chain fatty acids or faecal pH. The authors called for adequately powered trials to confirm the findings [3].

Study

Review of nine randomised trials

403 people with IBS [3]

Finding

Lower Bifidobacteria; no clear overall diversity or total faecal short-chain fatty acid effect

What it cannot establish

Whether the bacterial change causes long-term harm

Study

UK randomised trial

104 people, four weeks [4]

Finding

Lower Bifidobacteria on the low FODMAP diet; lower IBS symptom severity scores

What it cannot establish

That microbial changes explain symptom improvement

Study

Follow-up cohort

18 people, 12 months [17]

Finding

Bifidobacteria were not significantly different from baseline; faecal short-chain fatty acids were lower

What it cannot establish

That personalisation caused recovery or preserved every microbial function

The 2017 UK trial also reported adequate symptom relief in 57% of the low FODMAP group versus 38% of the sham-diet group. This difference narrowly missed statistical significance (P=0.051), although the separate symptom-severity score result was statistically significant (P=0.001) [4]. Those are different outcomes, so they should not be presented as interchangeable proof.

In the small cohort, symptoms were improved relative to baseline at 12 months. Bifidobacteria were not significantly different from baseline, but total faecal short-chain fatty acids, including acetate, propionate and butyrate, were lower. This was a follow-up study without a randomised comparison, so it cannot show that personalisation caused the changes [17].

Why symptom relief and microbial changes are different outcomes

Feeling less bloated tells you about your symptoms. A stool sample measuring fewer bacteria from one group tells researchers about abundance. Neither observation, on its own, shows that your microbiome has been repaired, damaged or made healthier [3,4,17].

This distinction also matters when evaluating supplements. In the 2017 trial, the tested probiotic increased Bifidobacteria compared with placebo but did not improve symptom-severity scores compared with placebo [4]. More of a particular bacterium did not translate into better symptom control in that study.

The practical reason to complete reintroduction is to avoid unnecessary long-term restriction and recover dietary variety. It does not guarantee that your bacteria will return to a particular profile [11,17].

Prebiotic vs probiotic: what is the difference?

The names sound similar, but they describe different things. Understanding the definitions helps you assess food and supplement claims.

What are prebiotics?

The scientific definition of a prebiotic is a substrate selectively used by host microorganisms that confers a health benefit. Many established dietary prebiotics are fibres, but not all fibre is prebiotic. Feeding bacteria alone is not enough to meet the definition [18].

Fructans and GOS are examples of prebiotic fibres that are also FODMAPs. That overlap explains why a food can provide substrates for gut microbes yet trigger symptoms at a particular portion [14]. For the broader fibre picture, see our guide to different types of dietary fibre.

What is a probiotic?

The scientific definition of a probiotic is live microorganisms that, when administered in adequate amounts, confer a health benefit on the host [19]. A product containing live bacteria does not automatically meet that definition. You need evidence for the organisms and dose involved; findings from one strain or formulation cannot simply be transferred to another [19,20].

Term Scientific distinction FODMAP question
Prebiotic A substrate selectively used by host microorganisms that confers a health benefit [18] Is the ingredient a FODMAP, and how much is present?
Probiotic Live microorganisms that confer a health benefit when administered in adequate amounts [19] What else is in the food or supplement?
Fermented food Food made through desired microbial growth and enzymatic conversion of its components [21] Has that food and serving been tested? Fermentation can raise or lower FODMAP content [15]

Bowl of lactose-free yoghurt topped with rolled oats and sliced firm banana on a light marble surface in natural light

Can you include prebiotics and probiotics on a low FODMAP diet?

You may be able to include foods containing prebiotic substrates within your tolerance. Supplements require a separate check of the complete formulation. Neither category is a necessary addition to a low FODMAP diet [11,12,14].

Including prebiotic foods within your tolerance

Restriction can reduce your intake of prebiotic-containing foods. During personalisation, aim to bring tolerated foods back rather than treating all fermentable fibre as something to avoid [11]. FODMAP Friendly discusses oats, firm bananas and canned lentils as examples to consider at suitable portions [14]. These are food examples, not evidence that every serving delivers a particular clinical benefit.

Check portions against your current testing resource and discuss fibre intake with your dietitian. An ingredient's presence alone does not determine whether the amount you eat will trigger symptoms [1,11].

Choosing fermented and probiotic foods

When you search for probiotic foods, you will often find lists of yoghurt, kefir, sauerkraut and sourdough. Fermented foods are not automatically probiotics: some no longer contain live microorganisms, and others lack the strain-specific evidence required by the scientific definition [19,21].

Fermentation also does not guarantee low FODMAP suitability. Monash's published testing illustrates that FODMAP content can move in either direction during fermentation. Check the individual food, portion and added ingredients, including onion, garlic or sweeteners [15]. A historic rating for one tested food cannot establish the suitability of every brand today.

Evidence for health effects varies between fermented foods and outcomes. Research in healthy adults does not automatically establish benefits for IBS symptoms, and a reported health effect does not establish low FODMAP suitability [21]. Choose foods you enjoy and tolerate rather than assuming fermentation makes them essential.

What does the evidence say about probiotics for IBS?

BSG guidance suggests probiotics as a group may help global IBS symptoms and abdominal pain, but cannot recommend a particular species or strain. It suggests a trial of up to 12 weeks, stopping if symptoms do not improve. NICE advises people who choose to try a probiotic to take the manufacturer's recommended dose for at least four weeks while monitoring its effect [5,6]. These are monitoring windows, not promises of when a product will work.

Two trials illustrate the limits of adding a supplement to the diet. In the 2017 UK trial, bacterial abundance changed, but symptom-severity scores did not differ between the probiotic and placebo groups (P=0.721) [4]. A 2021 trial randomised 100 people with IBS; 85 completed 21 days of a low FODMAP diet with a probiotic-containing supplementary food or placebo. Both groups improved, with no additional symptom benefit from the tested supplement [22].

These findings apply to the tested formulations and schedules. They do not prove that all products are ineffective, or that a different product will help you. If you are considering a trial, discuss it with your GP or dietitian and introduce one change at a time [12,20]. Our guide on how to choose a probiotic supplement provides further label-reading context.

Check the complete supplement formulation

Check more than the front-of-pack bacterial count. Added fibres, sweeteners, the daily serving and the identity of each organism all matter [1,12,19,20]. The Naturecan products below illustrate label checks; they are not recommendations for IBS or confirmed low FODMAP options.

1

Added fibres

What to look for

Inulin, FOS or GOS, and the quantity per daily serving

Ingredient example

Check for added prebiotic fibres such as inulin, FOS or GOS, as these may affect digestive symptoms depending on the amount consumed and individual tolerance.

2

Polyol sweeteners

What to look for

Names such as maltitol, sorbitol and mannitol; do not treat all sweeteners as equivalent

Ingredient example

Digest Gummies list maltitol syrup. Apple Cider Vinegar Gummies list maltitol and sorbitol

3

Organism identity

What to look for

A full strain identifier, rather than only a species name; evidence for the actual formulation

Ingredient example

Digest Gummies list Heyndrickxia coagulans. These names do not, by themselves, establish a match to a particular clinical trial [19,23,24]

4

Viable count

What to look for

Colony-forming units (CFU) per daily serving, and whether the figure applies at manufacture or the end of shelf life

Ingredient example

Digest Gummies list 1 billion CFU per gummy. When comparing supplements, check when the stated viable count applies and whether sufficient live organisms remain through the product's shelf life.

5

Bundles

What to look for

Every component's ingredients, serving and combined intake

Ingredient example

The Gut Health Bundle contains Digest Gummies, Apple Cider Vinegar Gummies and Active Curcumin. Assess each product separately [25]

Low FODMAP certification, where available, relates to the tested product and serving. It does not establish that a supplement treats IBS [12]. If a label does not give the quantity or full strain information you need, ask the manufacturer and discuss the answer with your dietitian. A gut-health product name is not evidence of FODMAP suitability.

Hands holding an unlabelled supplement jar beside a notebook and pen, reading the ingredient list in natural light

How can you support gut health after FODMAP reintroduction?

Personalisation brings the focus back to your overall diet. Unnecessary restriction can reduce nutritional adequacy, including your intake of fibre, calcium and other nutrients [11]. Review exclusions regularly with your dietitian and keep foods that you tolerate.

Use these steps to make that review practical:

  • Build meals around a varied range of tolerated foods and portions [11].
  • Review suitable fibre sources instead of avoiding all fermentable foods [11,14].
  • Keep a food and symptom diary to support discussions with your dietitian [10].
  • Ask for a review if controlling symptoms requires avoiding many foods [10].
  • Introduce supplement changes separately so you can assess what changes your symptoms [12].

For a useful diary entry, record the date, food and portion, symptom type and severity, bowel changes and other factors such as stress or changes in your routine. Symptoms can have influences beyond food, so a record helps you and your dietitian interpret patterns rather than blaming the last thing you ate [10,11].

Open food and symptom diary with a pen and a cup of tea on a light marble table in soft natural light

Finding a FODMAP approach that works for you

Your goal is to understand your tolerances and build a varied diet around them. Short-term restriction can help answer that question; reintroduction and personalisation prevent the first stage from becoming an unnecessary long-term limit [1,11]. Gut bacteria research adds context, but changes in bacterial abundance do not guarantee changes in symptoms or health [3,4,17].

If you are evaluating supplements, use the ingredient and strain checks above alongside professional advice. You can find current product information in Naturecan's gut health range. Assess the individual formulation; inclusion in the range does not establish low FODMAP suitability or a benefit for IBS.

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Featured product

Digest Gummies

Digest Gummies list Heyndrickxia coagulans and maltitol syrup on the label. As with any supplement, check the complete formulation and serving, introduce one change at a time and discuss it with your GP or dietitian [12,24].

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FAQ

What is FODMAP?

FODMAP stands for fermentable oligosaccharides, disaccharides, monosaccharides and polyols. These carbohydrate groups can contribute to symptoms in people with IBS through their effects on water and gas in the bowel [1,2].

What is the difference between prebiotics and probiotics?

A prebiotic is a substrate selectively used by host microorganisms that confers a health benefit. Probiotics are live microorganisms that confer a health benefit when administered in adequate amounts. Fibre or live cultures alone do not establish either status [18,19].

How long should you follow a low FODMAP diet?

Initial restriction usually lasts 2-6 weeks. Reintroduction and ongoing personalisation follow under a dietitian's guidance. The restricted first stage is not intended to become your permanent diet [1,9,11].

Is a low FODMAP diet healthy?

It is a dietary approach for managing diagnosed IBS, rather than a general healthy-eating plan. Nutritional adequacy depends on how you follow it. Dietitian support, reintroduction and personalisation help you avoid unnecessary exclusions [5,11].

Can I take probiotics on a low FODMAP diet?

You can discuss a trial with your GP or dietitian, but check the complete formulation first. Added inulin, FOS or other ingredients may be relevant. Introduce one change at a time so you can assess your response [12].

Are probiotics low FODMAP?

Microorganisms are not FODMAP carbohydrates. Their food or supplement formulation may contain lactose, added prebiotic fibres or polyol sweeteners. Check the actual product and serving rather than assuming suitability from its live-culture content [1,12].

Are all prebiotics FODMAPs?

No. Fructans and GOS are examples that meet both categories, but the definition of a prebiotic is broader than FODMAP carbohydrates. Some prebiotic-containing foods can fit your diet at tolerated portions [14,18].

Do probiotics help IBS?

Evidence varies by formulation and outcome. BSG guidance recognises possible benefit at a group level but cannot recommend a specific strain. A trial should be reviewed and stopped if symptoms do not improve [5].

Do probiotics help with bloating?

You cannot assume they will. A manufacturer-funded four-week trial in 61 adults with post-meal gas symptoms tested Bacillus coagulans GBI-30, 6086 plus digestive enzymes; people with IBS were excluded. Pain improved, but the difference in abdominal distension was not statistically significant (P=0.061). This does not establish an IBS benefit or an effect of the bacteria alone [26].

How long do probiotics take to work?

There is no fixed timeframe across products or people. NICE recommends monitoring a chosen product for at least four weeks; BSG suggests stopping after up to 12 weeks if symptoms do not improve. Discuss the outcome you want to assess with your clinician [5,6].

References
  1. Monash University (n.d.) Frequently asked questions about FODMAP. Melbourne: Monash University FODMAP. Available at: https://www.monashfodmap.com/about-fodmap-and-ibs/frequently-asked-questions/ (Accessed: 13 October 2026).
  2. FODMAP Friendly (2025) The low FODMAP diet. Available at: https://fodmapfriendly.com/for-consumers/what-is-the-low-fodmap-diet/ (Accessed: 13 October 2026).
  3. So, D., Loughman, A. and Staudacher, H.M. (2022) 'Effects of a low FODMAP diet on the colonic microbiome in irritable bowel syndrome: a systematic review with meta-analysis', American Journal of Clinical Nutrition, 116(4), pp. 943-952. Available at: https://pubmed.ncbi.nlm.nih.gov/35728042/ (Accessed: 13 October 2026).
  4. Staudacher, H.M., Lomer, M.C.E., Farquharson, F.M. et al. (2017) 'A diet low in FODMAPs reduces symptoms in patients with irritable bowel syndrome and a probiotic restores Bifidobacterium species: a randomized controlled trial', Gastroenterology, 153(4), pp. 936-947. Available at: https://pubmed.ncbi.nlm.nih.gov/28625832/ (Accessed: 13 October 2026).
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  11. Lee, J. (2024) Step 3: Personalisation. Why is it important? Monash FODMAP blog, 20 June. Available at: https://www.monashfodmap.com/blog/step-3-personalisation-why-is-it-important/ (Accessed: 13 October 2026).
  12. Varney, J., Yao, C.K. and Collins, L. (2021) Probiotics for IBS. Monash FODMAP blog, 29 July. Available at: https://www.monashfodmap.com/blog/probiotics-ibs-update/ (Accessed: 13 October 2026).
  13. Barrett, J. and Collins, L. (2016) FODMAP stacking: can I overeat 'green' foods?? Monash FODMAP blog, 11 October. Available at: https://www.monashfodmap.com/blog/fodmap-stacking-can-i-overeat-green/ (Accessed: 13 October 2026).
  14. FODMAP Friendly (n.d.) Prebiotics: the unsung heroes of gut health. Available at: https://fodmapfriendly.com/blog-posts/prebiotics/ (Accessed: 13 October 2026).
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  16. Coeliac UK (n.d.) Oats and the gluten free diet. Available at: https://www.coeliac.org.uk/living-with-coeliac-disease/food-and-drink/food-and-drink-information/oats/ (Accessed: 13 October 2026).
  17. Staudacher, H.M., Rossi, M., Kaminski, T. et al. (2022) 'Long-term personalized low FODMAP diet improves symptoms and maintains luminal Bifidobacteria abundance in irritable bowel syndrome', Neurogastroenterology & Motility, 34(4), e14241. Available at: https://pubmed.ncbi.nlm.nih.gov/34431172/ (Accessed: 13 October 2026).
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  22. Turan, B., Bengi, G., Cehreli, R., Akpinar, H. and Soyturk, M. (2021) 'Clinical effectiveness of adding probiotics to a low FODMAP diet: randomized double-blind placebo-controlled study', World Journal of Clinical Cases, 9(25), pp. 7417-7432. Available at: https://pubmed.ncbi.nlm.nih.gov/34616808/ (Accessed: 13 October 2026).
  23. Naturecan (2026) Digest Capsules: product page and ingredients. Available at: https://uk.naturecan.com/products/digest-capsules (Accessed: 13 October 2026).
  24. Naturecan (2026) Digest Gummies: product page and ingredients. Available at: https://uk.naturecan.com/products/digest-gummies (Accessed: 13 October 2026).
  25. Naturecan (2026) Gut Health Bundle: product page. Available at: https://uk.naturecan.com/products/gut-health-bundle (Accessed: 13 October 2026).
  26. Kalman, D.S., Schwartz, H.I., Alvarez, P., Feldman, S., Pezzullo, J.C. and Krieger, D.R. (2009) 'A prospective, randomized, double-blind, placebo-controlled parallel-group dual site trial to evaluate the effects of a Bacillus coagulans-based product on functional intestinal gas symptoms', BMC Gastroenterology, 9, article 85. Available at: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2784472/ (Accessed: 13 October 2026).