Case Study: Bloating and Irregular Bowel Habits, an Integrated Approach
Level 3, Clinical application
In brief
This illustrative case follows a 34 year old woman with 2 years of bloating and alternating bowel habit through 4 consultations. It shows how the history and timeline shaped the hypotheses, which tests were chosen and why, how 2 branches of reasoning were tested and closed, how a supervised low FODMAP trial and gut directed hypnotherapy were combined, and how her diet ended broader than it began.
Bloating and irregular bowel habits are among the most common reasons people seek help, and among the easiest to mismanage, either by over investigating or by restricting diets endlessly. This case is told consultation by consultation, showing the reasoning at each stage, including the branches that were considered and closed. It is an illustrative composite built from presentations common in practice.
Consultation one: listening and mapping
The story
A 34 year old marketing manager describes 2 years of bloating that worsens through the day, abdominal discomfort relieved by opening her bowels, and a bowel habit that alternates between loose stools and several days without. She has removed gluten, dairy and eggs over the past year on the advice of friends and online sources, with brief improvement each time followed by return of symptoms. She now eats a narrow diet and avoids eating before meetings. Her priority: “I want to eat normally again without worrying.”
Timeline highlights
- A severe episode of gastroenteritis on holiday 2 and a half years ago, with symptoms starting within weeks afterwards
- A promotion 18 months ago with longer hours and more stress
- Irregular meals, 4 coffees a day, eating quickly at her desk
- Symptoms worse before her period and during stressful weeks
- Felt better on a 2 week holiday last year despite eating freely
Red flag screen
No weight loss, bleeding, nocturnal symptoms, anaemia or family history of bowel cancer, coeliac disease or inflammatory bowel disease.
Initial hypotheses
| Hypothesis | Supporting features | How to test |
|---|---|---|
| Irritable bowel syndrome, mixed type, possibly post infection | Rome IV pattern; onset after gastroenteritis; stress and cycle related | Positive criteria; exclude mimics |
| Coeliac disease | Brief improvement off gluten | Serology, but she has been off gluten for months |
| Inflammatory bowel disease | Loose stools | Faecal calprotectin, blood tests |
| Thyroid dysfunction | Alternating bowel habit, fatigue | Thyroid function |
| Gut brain component | Stress, anxiety about eating, holiday improvement | History, anxiety screen |
Actions
- With her doctor: blood count, ferritin, CRP, thyroid function, faecal calprotectin.
- For coeliac testing, a gluten challenge is needed because she has avoided gluten. After discussion, she agrees to eat gluten daily for 6 weeks before serology.
- A 2 week food and symptom diary with daily scores for bloating, pain and bowel habit.
- Screening questionnaire for anxiety; eating disorder screen given her restriction and fear of food. Mild anxiety; no eating disorder.
Consultation 2: closing branches
6 weeks later, results are reviewed. Blood count, ferritin, CRP and thyroid function are normal. Calprotectin is normal, making inflammatory bowel disease unlikely. Coeliac serology after the gluten challenge is negative. 2 branches are closed: inflammatory bowel disease and coeliac disease. Thyroid dysfunction is excluded.
Her diary shows that bloating builds through the day, is worse after large meals eaten quickly and after meals containing onion, garlic and wheat, and is worst during stressful weeks and before her period. Reintroducing gluten did not worsen symptoms consistently, but large portions of bread did.
The working diagnosis is irritable bowel syndrome of mixed type, likely post infection, with a significant gut brain component.
Plan
- Explain the diagnosis and its mechanisms, which she finds reassuring.
- Regular meals, eating slowly, caffeine reduced to 2 coffees before noon.
- A supervised low FODMAP elimination for 4 weeks, broadening her diet in other respects by reintroducing dairy and eggs, which had not been clearly linked to symptoms.
- Soluble fibre in the form of psyllium for bowel habit.
- Referral to a digital gut directed hypnotherapy programme.
Consultation 3: reintroduction
After 4 weeks her average daily bloating score has fallen from 7 to 3 and her bowel habit is more regular. She has started hypnotherapy and finds it calming. Structured reintroduction begins, one FODMAP group at a time over 3 days each, with washout days.
| Group tested | Result |
|---|---|
| Lactose | Tolerated |
| Fructose | Tolerated in moderate portions |
| Fructans from wheat | Symptoms at large portions |
| Fructans from onion and garlic | Clear trigger |
| Galacto oligosaccharides | Tolerated in normal portions |
| Polyols | Tolerated |
Consultation 4: the long term plan
At 4 months her personalised diet includes dairy, eggs, legumes, most fruit and moderate amounts of bread and pasta, while limiting onion and garlic, using infused oils for flavour. She eats before meetings again. Her bloating score averages 2, she has completed the hypnotherapy programme and her anxiety about eating has resolved. She has a plan for stressful periods: keeping meals regular, practising the hypnotherapy techniques and being cautious with large wheat portions.
Reasoning notes
- The gluten challenge mattered. Testing for coeliac disease while she avoided gluten could have produced a false negative, leaving uncertainty or a lifelong unnecessary restriction.
- Closing branches was reassuring. Normal calprotectin and serology allowed confident diagnosis without further invasive tests.
- The diary replaced guesswork. It showed that meal size, speed, specific FODMAP groups, stress and the cycle all mattered.
- The gut brain component was treated directly, not merely acknowledged.
- The diet ended broader than it began, the clearest sign that elimination had been used diagnostically rather than as an end in itself.
What could have gone wrong
- Continuing ever narrower restriction without reintroduction.
- Testing for coeliac disease without a gluten challenge.
- Ordering an extensive commercial stool profile, which might have labelled her with dysbiosis and led to unnecessary treatments.
- Ignoring stress and anxiety, which were major drivers.
- Missing red flags if they had developed; they were reviewed at each visit.
The method in miniature
This case illustrates Integrated Functional Medicine at its most practical: a careful history and timeline, targeted exclusion of important diagnoses, a structured and time limited dietary trial, direct treatment of the gut brain connection and a final plan built around the patient’s own goal of eating normally again.
Questions about this case
Why was a gluten challenge needed?
How was the diagnosis made?
How did the case end?
References
- Lacy BE, Pimentel M, Brenner DM, et al. ACG clinical guideline: management of irritable bowel syndrome. American Journal of Gastroenterology. 2021;116(1).
- American College of Gastroenterology. Guidelines update: diagnosis and management of celiac disease. American Journal of Gastroenterology. 2023;118(1).
- Black CJ, Staudacher HM, Ford AC. Efficacy of a low FODMAP diet in irritable bowel syndrome: systematic review and network meta analysis. Gut. 2022;71(6).
- Black CJ, Thakur ER, Houghton LA, et al. Efficacy of psychological therapies for irritable bowel syndrome: systematic review and network meta analysis. Gut. 2020;69(8).
Continue your learning
Working through digestive cases step by step
Digestive cases like this one are worked through in live sessions in the “Gut Dysfunction” and “Elimination Diet Therapy” modules of IIFM’s 6 month Functional Medicine and Clinical Nutrition program.
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.

