Why Food Might Not Be the Problem: Understanding the Root Causes of Digestive Issues

If you struggle with bloating, stomach pain, or other digestive issues, it’s natural to wonder if food could be the culprit. Many people try elimination diets, food sensitivity testing, or restrictive eating patterns in hopes of feeling better. But what if the problem isn’t the food itself? What if food sensitivities are just a symptom of a deeper issue rather than the actual root cause?

In this post, we’ll explore why food might not be the real problem and how addressing the underlying imbalances in your body can help you heal your gut without unnecessary restriction.

Food Sensitivities vs. Food Allergies: Understanding the Difference

Before diving in, it’s important to differentiate between food allergies and food sensitivities:

  • Food Allergies: These involve an immediate immune response (IgE-mediated), causing reactions like hives, swelling, or anaphylaxis. They are typically lifelong and require strict avoidance.

  • Food Sensitivities: These are often delayed reactions (IgG or other immune pathways), which can cause a myriad of symptoms such as bloating, fatigue, brain fog, skin issues, and digestive discomfort.

Unlike true allergies, food sensitivities are not always permanent. If the gut is inflamed or imbalanced, the immune system may react to more foods - but this doesn’t mean those foods are inherently bad for you.

The Problems with Food Sensitivity Testing

Many people turn to food sensitivity tests, hoping to pinpoint the exact foods causing their symptoms. However, these tests often lead to confusion and unnecessary restriction for several reasons:

  • Lack of accuracy: Many tests measure IgG antibodies, which may simply indicate that your body has been exposed to a food and not necessarily that it’s causing harm.

  • False positives: These tests often produce a laundry list of foods to avoid, even including foods you eat regularly without issues.

  • Creates food fear: Seeing a long list of “off-limits” foods can lead to anxiety around eating, thus increasing the body’s stress response and making digestive symptoms worse.

  • IgG as a normal response: Some research suggests that IgG antibodies may actually indicate a natural immune response and tolerance to a food rather than intolerance.

Instead of relying on food sensitivity tests and more eliminations, a better approach is to focus on healing the gut so that it can better tolerate a wide variety of foods.

The Real Root Causes

If food isn’t always the problem, what is? Several deeper imbalances can make your body more reactive to food:

  • Gut dysfunction: Issues like leaky gut, dysbiosis (microbial imbalances), or low stomach acid can make the gut more sensitive to foods and cause all kinds of digestive symptoms.

  • Stress & nervous system dysregulation: Chronic stress can impair digestion, reduce stomach acid production, increase inflammation, and make food reactions more likely.

  • Poor digestive function: Low enzyme production, sluggish bile flow, or slow gut motility can contribute to food intolerances.

  • Underlying infections: Small Intestinal Bacterial Overgrowth (SIBO), H. pylori, candida, parasites, or other gut infections can create inflammation and digestive symptoms.

  • Immune system dysregulation: Chronic inflammation, autoimmune conditions, or histamine intolerance may drive food reactivity.

When food reactions or other digestive symptoms occur, it’s important to look at these underlying issues instead of just eliminating more foods.

The Low FODMAP Diet: Helpful or Harmful?

The Low FODMAP diet is a popular approach for managing bloating and IBS symptoms (and it can certainly be effective for symptom improvement), but it’s important to understand its limitations:

  • Short-term benefits: The diet removes fermentable carbohydrates that feed gut bacteria, often reducing bloating and digestive discomfort.

  • Long-term risks: Avoiding FODMAPs for too long can starve beneficial gut bacteria, worsening gut health over time - and eventually leading to worsening of your gut symptoms.

  • Doesn’t address the root cause: It helps manage symptoms but does not fix underlying issues like SIBO, dysbiosis, or gut motility problems.

  • Reintroducing FODMAPs is key: Where a lot pf people go wrong with the Low FODMAP Diet is staying on it long-term with no plan for reintroduction. The goal should be to gradually bring these foods back in rather than staying on the diet forever. It can be helpful to work with a dietitian to help you systematically reintroduce the foods in a healthy and effective way.

The Low FODMAP diet can definitely be useful as a short-term tool to minimize symptoms, but it should not be a permanent solution.

The Cycle of Restriction and Gut Health Decline

Elimination diets often provide temporary relief, but long-term restriction can actually make gut health worse:

  • Nutrient Deficiencies: Cutting out too many foods can lead to a lack of key nutrients that are essential for gut healing, like fiber, prebiotics, and essential vitamins and minerals.

  • Loss of Microbial Diversity: The fewer foods you eat, the less variety of gut bacteria you support, making your gut less diverse and more sensitive over time.

  • Increased Food Fear & Anxiety: Constantly worrying about what you eat can trigger the stress response, which further disrupts digestion. Chronic anxiety and food fear turns on the stress response in your body, thus turning off “rest and digest mode” when you need it most.

Instead of focusing on avoiding foods, the goal should be to improve gut health and resiliency so that your body can tolerate a wide variety of foods again without issues.

Addressing the Root Cause Instead of Just Avoiding Food

There are plenty of things you can work on instead of removing more foods from your diet. The following will help get you on track to sustainable and effective gut healing:

  • Support digestion: Optimize stomach acid, digestive enzymes, and bile production. A few ways to do this are eating bitter foods, practicing mindful eating, and eating balanced meals (protein + fiber + carbs + fat) every 3-5 hours throughout the day.

  • Regulate the nervous system: Address stressors in your life and prioritize nervous system supportive practices like breathwork, yoga, time in nature, mindful eating, and vagus nerve exercises. Addressing stressors can also include deeper work such as trauma processing, therapy, and setting boundaries in your life.

  • Identify & address underlying gut issues: Work on dysbiosis, infections, and inflammation rather than just avoiding certain foods. We can utilize stool testing like the GI MAP to uncover these imbalances.

  • Rebuild food tolerance: Instead of long-term restriction, work toward reintroducing foods in a strategic way. Work on your relationship with food and nourishing your body.

The Bottom Line

Food sensitivities are often a symptom, not the root cause of digestive issues. Food sensitivity tests and elimination diets may provide short-term relief, but true gut healing requires addressing digestion, stress, and gut imbalances - not just cutting out more foods.

If you're stuck in a cycle of restriction and frustration, consider working with a practitioner who can help you identify the real underlying cause of your symptoms and create a sustainable plan for healing. Your gut - and your relationship with food - will thank you.