Understanding Leaky Gut and Autoimmunity: The Zonulin Connection
- Greg Veek
- Jan 3
- 6 min read
Updated: Feb 10
Short Summary (if you don't want to read the whole thing)
But we really encourage you to read the full article below - understanding how your gut works is crucial for long-term health. Our role is to help you understand it.
To understand what's coming next, you need to understand that your gastrointestinal tract (GIT) is a long tube starting in your mouth and ending at your anus. This tube actually separates your body from the outer world. Whatever enters this tube stays there unless your body deliberately decides what to let in and what to keep out. When you digest food that's good for you, your body opens specialised gates to let those beneficial particles in whilst keeping others out.
A healthy body, if you eat something harmful (or if bacteria get in), will keep its internal gates on this tube locked and will force that object, creature, or molecule to exit as soon as possible from the other end.
And here we touch on a main problem. A healthy body will do that. But an unhealthy body, or a body that's being forced to unlock the gates, must surrender.
Your gut barrier is like a sophisticated security system. Dr Alessio Fasano and his team identified a compound named 'zonulin' and characterised its crucial role in intestinal permeability - also know as 'leaky gut' (a breach in your security gates system). When this system malfunctions, it can lead to various autoimmune conditions. Here's why this matters for your health::
Your gut has a complex security system (tight junctions)
Zonulin can create "holes" in this barrier
Common triggers include gluten, stress, and certain toxins
When the barrier is open, different unwanted molecules can enter your body and trigger the immune response (LPS, bacteria, and even undigested food particles).
This process is linked to multiple autoimmune diseases, where your immune cells attack your own body (see also a blogpost on molecular mimicry)
Understanding this helps develop effective treatments
The Full Story
The Gut Barrier: Your Sophisticated Security System
Your intestinal wall is lined with a single layer of cells connected by tight junctions - microscopic "security gates" between cells. Think of it as an intelligent border control system:
Tight junctions are protein complexes located at the very top (apical) side of intestinal cells
They form a selective barrier controlling what passes between cells (through a kind of sophisticated gates)
In healthy conditions, they allow nutrients through while blocking harmful substances
When compromised, this security system fails, allowing unwanted substances to enter
Understanding Gluten and Its Impact
Gluten is a protein found in several grains:
Wheat (including varieties like spelt, kamut, farro)
Rye
Barley
Most oats (due to cross-contamination)
Common sources include:
Bread, pasta, cereals
Processed foods
Sauces and condiments
Many prepared meals
Beer and some alcoholic beverages
When consumed, gluten breaks down into tiny molecules called glutenins and gliadins, with the latter one triggering zonulin release within 30-60 minutes, loosening tight junctions in EVERYONE, not just those with coeliac disease.
Other Triggers That Compromise Your Gut Barrier
1. Medications:
NSAIDs (ibuprofen, aspirin)
Antibiotics
Chemotherapy drugs
Antacids and proton pump inhibitors
Some antidepressants
2. Food Additives:
Emulsifiers (carboxymethylcellulose, polysorbate-80, etc)
Artificial sweeteners
Microbial transglutaminase ("meat glue")
Nanoparticles in food packaging
Synthetic food dyes (colours in your beautiful sweets)
3. Other Factors:
Chronic stress (increases cortisol, directly impacts barrier function - see blogpost on cortisol and visceral fat)
Environmental toxins
EMF exposure
Sleep disruption (yes!)
Excessive exercise
Chromosome 16: The Genetic Connection
Chromosome 16 plays a crucial role in your immune system functioning, containing genes that control immune responses, including the HP gene that produces zonulin. While this helps us understand potential health risks, your genes aren't your destiny.
Through epigenetics - how your lifestyle and environment influence gene expression - you can significantly impact your health outcomes despite genetic predispositions. Diet, stress, physical activity, sleep, and toxin exposure all affect whether genetic risks become real health issues.
Remember, as someone smart said: Your genes might load the gun, but your lifestyle choices and environment pull the trigger.
Chromosome 16 is particularly important because multiple conditions are linked to this chromosome:
Autoimmune
Adult Polycystic kidney disease
IBD (NOD2 Locus)
SLE
T1DM
Rheumatoid arthritis
Cancers
Acute nonlymphocytic leukaemia
Breast cancer
Fanconi's anaemia
Myeloid Leukaemia
Prostate cancers
In the Nervous System
Batten's disease
Lou Gerhig's
Multiple Sclerosis
Autism
Understanding Autoimmune Diseases
Autoimmune diseases occur when your immune system attacks healthy cells. Think of it as your body's defence system misidentifying "friend" as "foe." Common characteristics:
Body attacks its own tissues
Often runs in families
Can affect multiple organs
Usually chronic conditions
Often triggered by environmental factors
Common Autoimmune Conditions
1. Coeliac Disease
Characteristics:
Strong immune reaction to gluten
Requires HLA DQ2/DQ8 genes
Damage to intestinal villi with symptoms including:
Digestive issues
Fatigue
Nutrient deficiencies
Skin problems
Neurological symptoms
Joint pain
2. Type 1 and Type 2 Diabetes
Type 1: Autoimmune attack on pancreatic cells
Type 2: While not traditionally considered autoimmune, shows inflammatory and autoimmune components
Both types show increased intestinal permeability
The Role of Nutrition: "All Disease Begins in the Gut" - Hippocrates
This ancient wisdom has found strong support in modern science of autoimmunity. Your gut, often called your "second brain," houses over 70% of your immune system and produces most of your body's neurotransmitters (yes, more than the brain!)
As you've learned so far, when gut health is compromised, it can trigger a cascade of problems throughout your body. Poor nutrition doesn't just mean inadequate vitamins and minerals - it can disrupt your gut barrier, alter your microbiome, and trigger systemic inflammation. This inflammation then becomes the root cause of many chronic diseases, from autoimmune conditions to mental health issues.
Research shows that dietary choices directly impact gut barrier function, immune system regulation, and even gene expression. By prioritising gut health through proper nutrition, we can often address health issues at their source rather than just managing symptoms.

Gut-Healing Nutrients - Example:
Essential nutrients:
Zinc
Glutamine
Vitamin D
Vitamin A
Omega-3 fatty acids
Beneficial compounds:
Quercetin
Curcumin
Collagen
Bone broth
N-acetyl glucosamine
Exercise Guidelines
Beneficial:
Moderate intensity exercise (30-45 minutes)
Walking
Swimming
Yoga
Light resistance training
Contraindicated:
Excessive endurance training
High-intensity training while healing
Overtraining in any form
Exercise during acute flares
Comprehensive Treatment Approach
1. Primary Focus: Nutrition
Remove trigger foods! - STOP EATING GLUTEN NOW!
Emphasise whole, unprocessed foods
Avoid added sugar, sweeteners and limit carbohydrates as they feed bad bacteria
Support gut healing with specific nutrients
Time meals appropriately
2. Lifestyle Modifications:
Stress management (crucial) - breathing exercises help significantly
Sleep optimisation (crucial)
Appropriate exercise
Environmental toxin reduction
3. Medical Support:
Regular monitoring
Appropriate supplementation
Professional guidance
Treatment of underlying conditions
References
Drago S, El Asmar R, Di Pierro M, Grazia Clemente M, Tripathi A, Sapone A, Thakar M, Iacono G, Carroccio A, D'Agate C, Not T, Zampini L, Catassi C, Fasano A. Gliadin, zonulin and gut permeability: Effects on celiac and non-celiac intestinal mucosa and intestinal cell lines. Scand J Gastroenterol. 2006;41(4):408-419. doi:10.1080/00365520500235334
Sturgeon C, Fasano A. Zonulin, a regulator of epithelial and endothelial barrier functions, and its involvement in chronic inflammatory diseases. Tissue Barriers. 2016;4(4):e1251384. doi:10.1080/21688370.2016.1251384
Fasano A. All disease begins in the (leaky) gut: role of zonulin-mediated gut permeability in the pathogenesis of some chronic inflammatory diseases. F1000Res. 2020;9:F1000 Faculty Rev-69. doi:10.12688/f1000research.20510.1
Fasano A. Zonulin and its regulation of intestinal barrier function: the biological door to inflammation, autoimmunity, and cancer. Physiol Rev. 2011;91(1):151-175. doi:10.1152/physrev.00003.2008
Fasano A. Intestinal permeability and its regulation by zonulin: diagnostic and therapeutic implications. Clin Gastroenterol Hepatol. 2012;10(10):1096-1100. doi:10.1016/j.cgh.2012.08.012
Camilleri M. Leaky gut: mechanisms, measurement and clinical implications in humans. Gut. 2019;68(8):1516-1526. doi:10.1136/gutjnl-2019-318427
Mu Q, Kirby J, Reilly CM, Luo XM. Leaky Gut As a Danger Signal for Autoimmune Diseases. Front Immunol. 2017;8:598. doi:10.3389/fimmu.2017.00598
Sander LE, Lorentz A, Sellge G, et al. Selective expression of histamine receptors H1R, H2R, and H4R, but not H3R, in the human intestinal tract. Gut. 2021;55(4):498-504. doi:10.1136/gut.2004.061762
Important Note: While this article presents current scientific understanding of gut health and autoimmunity, each person's situation is unique. At SelfUP and Veek Health, we specialise in creating personalised protocols that consider your individual genetic, environmental, and lifestyle factors. Let us help you develop a targeted approach to optimise your gut health and overall wellbeing.




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