You’ve gone gluten-free, but something’s still not right.
You feel bloated much of the time and the bathroom situation is, well, messy…still. Are you frustrated? Of course you are, but you are not alone.
The problem might be a milk protein called casein.


In this article, we’ll look at the connection between gluten and casein to help you understand why you are still having symptoms. I'll share my own experience and help you sort out what you can eat comfortably on a gluten-free and casein-free diet.
Why Might Casein Be a Problem With Celiac Disease?
Casein is a protein in milk. It gives milk its white color and is the part that curdles to make cheese.
The other main protein in milk is whey. It's the liquid part that's left behind in the cheese-making process.
Both casein and whey can cause intolerances, but casein is more common.1
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There are a few possible reasons for casein intolerance in people with celiac disease.
1. Increased Gut Permeability: Sometimes called "leaky gut," this happens when the gut is inflamed or still healing from celiac disease. Food proteins like casein can slip through the gut barrier and irritate the immune system, causing a food intolerance. As the gut heals, food intolerances should improve.2
2. Hard to Digest: Casein, like gluten, is high in proline and glutamine. These peptides can be hard to digest and can cause symptoms like gas and bloating.2
3. Different Casein Subtypes: Cow's milk contains mostly A1 casein, which some studies have linked to inflammation. That's why milk from animals like goats and sheep which are higher in A2 casein are sometimes better tolerated.3
4. Immune Cross-Reactivity: This is controversial and lacks good scientific evidence. I'm including it here because you may have seen it in blogs or forums. The idea is that the two proteins (in this case gluten and casein) are similar and the body mistakes one for the other, and causes a reaction.45
5. The Thyroid Connection: People with celiac disease often have other autoimmune diseases as well. Hashimoto's disease is an autoimmune thyroid disease and has been linked to food intolerances including milk proteins.6 Many people with Hashimoto's must avoid gluten and casein.
You may have heard of lactose intolerance and you may have even heard that celiac disease and lactose intolerance often travel together. So how can you tell if your dairy issue is caused by lactose or casein? Does it even matter?
Here are a few clues:
Celiac and Lactose Intolerance: Check out my complete guide to Celiac Disease and Lactose intolerance. It will tell you why you might have lactose intolerance, what foods to avoid and lots of strategies for managing day to day.
Practically speaking, it doesn't matter a whole lot. Avoiding dairy products is the solution either way. Here are a few reasons why knowing if it's lactose or casein causing you trouble might matter:
-Hard cheeses are low in lactose but high in casein.
-Goat and sheep cheeses have A2 casein, which may be better tolerated. They are also slightly lower in lactose.
-Lactose free dairy products or lactase enzymes are often helpful for people with lactose intolerance, but not for casein intolerance.
I’ve put together a list of products I keep in my pantry along with convenient links. If you choose to purchase through one of these links I may earn a small commission at no extra cost to you.
Milk Alternatives:
Coconut Milk is a staple in Asian and Caribbean cuisines. Thai Kitchen Coconut Milk in a can is a trusted brand that's rich and creamy. Great for sauces and baking. Wonderful in curry.
So Delicious Coconut Milk in the shelf stable pack is also a trusted brand. Works well in coffee, on your cereal and anywhere else you use milk.
Rice milk and oat milk are also great all purpose milk alternatives. I've used Rice Dream often in my kitchen. The shelf stable pack makes it easy to store until needed.
What I like about oat milk is the consistency. It's similar to natural cows milk which makes it a great choice for drinking or on your cereal. Earth's Own Oat Milk is certified gluten-free which is essential for any oat product.
Eating a gluten-free, casein-free diet means choosing gluten-free foods AND eliminating dairy, or at least cow's milk dairy from your diet.
Avoiding both gluten and casein may seem overwhelming at first and you may feel like you've already given up so much by going gluten-free. But don't despair. There are lot's of rich and creamy gluten-free milk alternatives for your coffee, cereal, sauces, and baking. You'll soon be a substitution pro and won't even miss the dairy.
Here are a few quick ideas:
For your coffee: Coconut milk, soy milk and gluten-free oat milk* are similar in texture to cow's milk or cream and taste great in coffee or tea. Look for dairy-free coffee creamers as another option. (See the "Shop the Guide" section above)
To top your pizza or pasta: Try vegan cheese shreds or if you can tolerate goat and sheep cheese, try goat mozzarella or pecorino Romano. Nutritional yeast has a cheesy flavor. Try a sprinkle on your pizza or pasta.
For baking: Canned coconut milk or plant-based yogurt substitutes nicely for cream or sour cream. You can add a tablespoon of lemon juice to coconut milk if your recipe calls for sour milk. There are also good vegan substitutes for cream cheese and sour cream.
In sauces: Canned coconut milk makes a beautiful creamy bechamel. Add plant-based cheese or goat cheese and you'll have a mac 'n cheese sauce to die for.
Gluten-Free Milk Alternatives: For a complete guide to milk replacements that behave well in coffee, cereal, sauces, baking and more see my Gluten-Free Milk Alternatives page.

I've curated this collection of recipes for you. These are all recipes I make myself for my family. All are gluten-free and dairy-free or have dairy-free options. I hope you enjoy!
Casein is one of the main proteins in milk and is found in most milk, cheese, and yogurt. Some people react to casein even if they tolerate lactose or lactose-free products.
Lactose is the sugar in milk, and casein is one of the proteins. Lactose intolerance causes digestive discomfort, while casein intolerance can cause a wider range of symptoms, including inflammation or digestive upset even with lactose-free dairy.
Yes. Casein itself is gluten free, but some people with celiac disease still react to dairy proteins, especially during intestinal healing.
If lactose-free milk, yogurt, or hard cheese still cause symptoms, casein may be the issue. The best way to know is a short elimination trial.
Many can, especially once the gut heals. Others temporarily or permanently react to lactose or casein and need to limit dairy.
It removes both gluten and dairy proteins. People follow it when they have celiac disease plus a dairy intolerance or simply feel better avoiding both.
Plant-based milks and yogurts (almond, oat, coconut, soy) work well, and some people tolerate goat or sheep milk cheese. See my milk alternatives and dairy-free recipe pages for ideas.
True feta is made from sheep or goat milk and may be tolerated by some. But many store brands use cow’s milk, so check labels carefully.
Yes, but the casein profile differs from cow’s milk. Some people tolerate goat cheese better, while others still react.
Yes. It’s made from sheep’s milk, which some people tolerate better than cow’s-milk cheeses.
Baking changes milk proteins, so some people tolerate small amounts of baked-in milk. Others react to any casein, baked or not.
Yes for many people—especially as the gut heals from celiac or other conditions. You can try reintroducing small amounts after a healing period.
Hi, I'm Patty — a celiac since 2012, culinary school grad, and the creator of Naturally Gluten Free.
I earned my Culinary Skills diploma from George Brown College with a focus on nutrition and cooking for special diets. After years of living with celiac disease and a casein intolerance, I know how confusing and frustrating it can be.
I created this guide to help you feel confident and informed. Every recommendation is based on personal experience, brand research, and reliable sources — no guesswork, no fluff.
If you’re ever unsure about a product, reach out! We’re in this together.
1. John Berardi, P. (2022, July 14). Whey sensitivity and intolerance: Here’s when Whey Protein just isn’t for you. Precision Nutrition. https://www.precisionnutrition.com/whey-protein-allergies-intolerances-bloating
2. Kristjánsson, G., Venge, P., & Hällgren, R. (2007, March). Mucosal reactivity to cow’s milk protein in coeliac disease. Clinical and experimental immunology. https://pmc.ncbi.nlm.nih.gov/articles/PMC1810502/
3. Kay SS;Delgado S;Mittal J;Eshraghi RS;Mittal R;Eshraghi AA; (n.d.). Beneficial effects of milk having a2 β-casein protein: Myth or reality?. The Journal of nutrition. https://pubmed.ncbi.nlm.nih.gov/33693747/
4. Vojdani, A., & Tarash, I. (2013, January 15). Cross-reaction between gliadin and different food and tissue antigens. SCIRP. https://www.scirp.org/journal/paperinformation?paperid=26626&utm
5. G;, P. S. (n.d.). Lack of cross-reactivity between casein and gliadin in Sera from coeliac disease patients. International archives of allergy and immunology. https://pubmed.ncbi.nlm.nih.gov/9784660/
6. Yan, M., Wu, H., Zhang, K., Gong, P., Wang, Y., & Wei, H. (2024, September 30). Analysis of the correlation between Hashimoto’s thyroiditis and food intolerance. Frontiers in nutrition. https://pmc.ncbi.nlm.nih.gov/articles/PMC11471614/
1. Vojdani, A., & Igal, T. (2013). Cross-Reaction between Gliadin and Different Food and Tissue Antigens. Food and Nutrition Sciences, 4, 20–23. https://www.scirp.org/pdf/fns_2013011516575568.pdf
2. Stout, J., MS. (2019, March 12). Is Goat Milk Gluten Free? Retrieved April 23, 2021, from https//mtcapra.com/is-goat-milk-gluten-free/
3. Demarco, P.,MD and Lupoli, T.,DO (2020). Milk Allergies: Understanding Milk Allergy Symptoms and Treatments. Retrieved April 23, 2021, from https://www.jaxallergy.com/allergy-treatments/food-allergies/milk-allergy/
4. Vojdani, A., & Igal, T. (2013). Cross-Reaction between Gliadin and Different Food and Tissue Antigens. Food and Nutrition Sciences, 4, 20–23. https://www.scirp.org/pdf/fns_2013011516575568.pdf
5. Vojdani, A., & Igal, T. (2013). Cross-Reaction between Gliadin and Different Food and Tissue Antigens. Food and Nutrition Sciences, 4, 20–23. https://www.scirp.org/pdf/fns_2013011516575568.pdf
6. Wikimedia Foundation. (2023, March 5). Casein. Wikipedia. Retrieved March 5, 2023, from https://en.wikipedia.org/wiki/Casein
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