The Way to BE

Biofilm: How This Slimy Coating Is Causing Chronic Fatigue, Fibromyalgia, Irritable Bowel, and More!

Whether it is in our gut or on our teeth, bacteria survive and thrive in a structure that they create around themselves called biofilm.

Biofilm is just what the name implies: a sticky film made by living, microscopic critters. Why do they make it? To ensure their survival.

But there is more to biofilm than just that. It turns out that biofilm makes fighting an infection pretty tricky. Especially when this infection is lodged somewhere in the gut!  

The Slimy Goo That Ensures Microbial Survival

If you run your tongue along your teeth after a long day and feel a slimy coating, this stuff is the beginning of biofilm.

Little bugs, which are found everywhere inside and outside the body, create biological homes using a mixture of sugars and proteins.

These structures are pretty tough. For example, biofilm in the mouth is dental plaque. (1) You know - that hard stuff the dentist scrapes off your teeth with a special dental tool.

In a healthy gut that is filled with beneficial microflora, the biofilm that they create is thin mucus. This healthy biofilm allows the passage of nutrients through the intestinal wall. Healthy gut biofilm is moistening, lubricating, and anti-inflammatory.

The anti-inflammatory function of healthy biofilm is a big plus since these days, the gut is so prone to infection and inflammation from outside chemicals, drugs, and processed foods.

But what about an unhealthy gut biofilm? What is that like?

An unhealthy gut biofilm, as you might suspect, does all the wrong things. For example, an unhealthy gut biofilm:

  • If you have an infection that just won't go away, it could be due to unhealthy gut biofilm. Unhealthy gut biofilm will promote inflammation and protect bacteria, parasites, and yeast from even the strongest medications.

    Prevents the full absorption of nutrients across the intestinal wall.

  • Protects disease-causing microorganisms from the immune system.
  • Protects disease-causing microorganisms from antibiotics and antifungals (this means both herbal and pharmaceutical-grade).
  • Promotes inflammation.
  • Houses toxins like heavy metals.

The sturdy protection that biofilm provides from pathogenic bugs is one reason why some infections are so troublesome to resolve. Yeasts, parasites, and bacteria find shelter in the biofilm matrix, evading an onslaught of even the strongest of medications.

This applies to conditions like:

  • Chronic fatigue syndrome and fibromyalgia, which are often thought to have an infectious root.
  • Parasites.
  • Systemic Candida overgrowth.
  • Heartburn or GERD (gastroesophageal reflux).
  • Small intestine bacterial overgrowth (SIBO), which includes symptoms like heartburn, bloating, gas, abdominal cramping, brain fog, arthritis, acne, and other skin conditions.
  • Irritable bowel syndrome, ulcerative colitis, and Crohn’s disease. (2)

Unhealthy biofilm allows some infections to persist for years. This means that the body may become more susceptible to other infections, or co-infections, as well as other chronic degenerative diseases.

In short, unhealthy biofilms promote disease and accelerate aging.

How to Break Through Unhealthy Biofilm

Unhealthy gut biofilm is a hideout for many pathogenic, or disease-causing, microorganisms. This means yeasts like Candida. It also includes the more noxious varieties of bacteria that are related to things like diarrhea, constipation, weight gain, and bloating. (3) Parasites also seek refuge in a well-built biofilm.

Just like dental plaque that needs to be picked away at with a special dental tool, unhealthy gut biofilm is a slimy substance that adheres to the intestinal wall. And, as rigorous antibiotic therapy has shown, this slime is tough to break apart.

Unhealthy gut biofilm requires special care.

The goal of most antibiotic, antifungal, and anti-parasitic therapies is to get rid of the disease-causing microorganism. In the past, biofilms have made this near impossible. This was because we did not know about biofilms. Only recently have scientists discovered biofilms and their function in the body. (4)

First, Proteolytic enzymes can help to break apart the structure of unhealthy gut biofilm when taken on an empty stomach. Proteolytic enzymes are enzymes like protease, papain, and pepsidase FP. If you take these enzymes with food, they will only help with the digestion of food. Make sure the enzymes are high potency and in the right proportions, like Assist Full Spectrum Enzymes.

Some traditional herbal preparations break through tough biofilm. We now know that of anti-parasitic and antimicrobial herbs that are so effective because they naturally bust through and degrade biofilm. These are:

  • Clove, or Syzygium aromaticum
  • False black pepper, or Embelia ribes (5)

Apple cider vinegar, a popular all-purpose home remedy and household cleaning agent, is an acetic acid solution. Apple cider vinegar strips away important minerals from the biofilm matrix. It can be taken internally for this purpose. Start with two teaspoons mixed in 8 ounces of water.

Once you have restored the health of your gut, it is a good idea to promote the growth of a healthy biofilm to prevent a recurrence of an unhealthy biofilm.

There are two ways to do this - which anyone can do, and everyone should do.

1.    Eat a diet of whole and nutrient-dense foods. Eating this way sounds like a lot work, and it is. But your health matters. Think of it this way: if you only cut out all processed flours, sugars, and refined oils, you are off to a good start!

2.    Eat a diet rich in beneficial microbes. Fermented foods like sauerkraut, kimchee, and natto, cultured sauces and dips with sour cream and yogurt, and drinks such as probiotic beverages are all great sources of healthy bacteria.

What to Remember Most About This Article:

Biofilm is a sticky film created by microscopic bacteria to protect them and ensure survival. When unhealthy biofilm develops in the body, it makes it even more difficult to fight infection, especially an infection of the gut.

A healthy gut is filled with beneficial bacteria that create a thin biofilm that is anti-inflammatory and lubricating to the body. Unhealthy gut biofilm will prevent the absorption of nutrients, make pathogenic bacteria resistant to the immune system, and protect harmful bacteria from antifungals and antibiotics.

Unhealthy gut biofilm can be attacked with Proteolytic enzymes, antimicrobial herbs, and apple cider vinegar. Once health has been restored to the gut, you can promote a healthy biofilm by eating a diet rich in beneficial bacteria found in fermented foods and beverages! 

Product Recommendations:

  • Assist Full Spectrum Enzymes

    Assist Full Spectrum Enzymes

    Break Down Food, Absorb Nutrients and Prevent Gas and Bloating

    • One of the most complete and powerful digestive enzymes available
    • Assures digestion of proteins over the entire pH range from 2.0 to 11.0
    • Fast-acting, high-potency enzyme formula
  • Veggie Culture Starter

    Veggie Culture Starter

    Resist Infections, Enhance Digestion

    • Ideal for appetite and weight control
    • Ideal for pregnant women
    • Ideal for children with Autism and ADD
    • Can be enjoyed daily
    • Easy to make at home
  • Kefir Starter

    Kefir Starter

    Better Digestion, Boost Immunity

    Kefir has many benefits, including better digestion of fats, proteins and carbohydrates. It has been known for thousands of years for its anti-aging and immune-enhancing properties.

    Kefir is an ancient cultured food, rich in amino acids, enzymes, calcium, magnesium, phosphorus and B vitamins. Kefir means "feel good" in Turkish, and that's just how you'll feel after drinking a glass in the morning! Easy and fun to make at home, it is superior to commercial yogurt. An absolute must after antibiotic use!

    Unlike yogurt, kefir can actually colonize the intestinal tract and is simple and fun to make at home. To make kefir: Mix one packet with 1 quart of warm milk, cover and set at room temperature for 18-24 hours. Refrigerate and enjoy!

    Each packet yields 1 quart of kefir, and can be reused up to 7 times. This means you can create 10 ½ gallons of kefir from one box!

    • Digest fats, proteins and carbohydrates
    • Has anti-aging and immune-enhancing properties
    • Rich in amino acids, enzymes, calcium, magnesium, phosphorus and B vitamins
    • An absolute must after antibiotic use


  1. A H Rogers. Molecular Oral Microbiology. Caister Academic Press. 2008. 65 – 108.
  2. S. Macfarlane, J.F. Dillon. Microbial biofilms in the human gastrointestinal tract. Journal of Applied Microbiology. 2007 May; 102 (5): 1187 – 1196.
  3. Peter J. Turnbaugh, et al. An obesity-associated gut microbiome with increased capacity for energy harvest. Nature. 2006 Dec; 444: 1027 – 1031.
  4. Sandra Macfarlane, et al. Colonization of Mucin by Human Intestinal Bacteria and Establishment of Biofilm Communities in a Two-Stage Continuous Culture System. Appl Environ Microbiol. 2005 November; 71(11): 7483–7492.
  5. Vishnu Agarwal, et al. Prevention of Candida albicans biofilm by plant oils. Mycopathologia. 165 (1): 13 – 19.

Want more articles like this?

Sign up to receive weekly articles. You'll also receive a 15% off coupon, weekly articles, and tips from Donna and her team.

I'm most interested in:
  • WAHG

    Thank you for the excellent review. I am going to undertake the suggestions and will report back.
    Can I just ask with RE to the recommendation to take apple cider vinegar? Will any vinegar do the job, or is it something unique to apple cider vinegar?

  • Jeff

    I have for the very first time a very bad yeast infection that started in the throat and inner right ear and moved to the lower respiratory making me very sick unlike any bacterial infection or virus. Cultures show many yeasts via microscope and am waiting for culture results. So I have been taking large doses of colloidal nano practical silver with good results as well as enzymes, probiotics and just started antiparacitic herb tincture from Now brand on Amazon. It has cloves in it. I also have been taking enzymes but not without food until now. This week I passed at least 3 bowel movements with los of thick slimy biofilm substance. Also started the Apple Cider Vinegar. Hoping to restore my gut because even though I don't have big digestive issues other than Gerd, I know my gut is key to healing this yeast infection. Hope this helps someone.

  • Jon

    The title of this article implies that there is a direct link between biofilm and chronic fatigue: "Biofilm: How This Slimy Coating *Is* Causing Chronic Fatigue".

    As a sufferer of chronic fatigue I was intrigued by this and continued reading to find out the exact mechanism by which biofilm contributes to chronic fatigue, yet the best explanation in this article is "Chronic fatigue syndrome and fibromyalgia, which are often thought to have an infectious root."

    OK, so breaking down biofilm means that bacteria can be treated more easily - great. This makes sense. But then bacteria might have absolutely nothing to do with chronic fatigue. "...thought to have an infectious root." is very presumptuous. What evidence is there that chronic fatigue is caused by bacteria that are protecting themselves with biofilm?


    My holistic doctor used an erchonia laser to remove my biofilms. Very effective.

  • I I sassy

    I would like to see a pic of this biofilm is it possible for someone to post?

  • http://no Sheila Duffy

    I have had CFS for 17 years and have not been able to work or do anything I use to once enjoy. I only recently read about biofilms as a cause and I am overwhelmed with joy that there is a reasonable treatment.

    Could you tell me if there are anyone in the medical field that is familiar with CFS and the treatment of biofilms in the Santa Barbara, California area?

    Thank you very very much!

    Sheila Duffy

  • Octavia Brooks

    I am wondering if food-grade diatomaceous earth will erode the bio-film. that's what my Naturopath prescribed. I like the idea that it is slicy. he also said it does not kill probiotics because they (at least Lac) originally came from the soil and are used to the diatoms.

  • Lindsay Wilson

    In the section that speaks about how to denature biofilm, there is no estimate given on how long this may take. I know everyone's guts are different, however -- can you give case study examples or a rough estimate on how long to do an enzyme treatment?

    Thanks, Lindsay

  • Linda Goulder

    I have been researching the use of Ascorbic Acid for the treatment of fibromyalgia and as it is
    antimicrobial I am wondering if this is why it is helpful, perhaps it is effective against biofilm.?

  • http://Body Ecology Linda

    Great article. Have heard of the biofilm, so this is helpful to have ideas of how to deal with the problem.

  • Gary Ammirati

    Great Article, very informative and good to know that Apple Cider Vinegar helps with the breakdown of the Biofilm. I drink a little almost everyday. Also the Full Spectrum Enzymes are amazing.

  • Wanda

    I hear so much about the effects of soy, and how bad it is. I am wondering if you can clarify the topic once and for all.

Community Poll

What Health Topics Are You Most Interested In?


Information and statements regarding dietary supplements/products have not been evaluated by the Food and Drug Administration and are not intended to diagnose, treat, cure, or prevent any disease. Information on this website is provided for informational purposes only and is a result of years of practice and experience by the author. This information is not intended as a substitute for the advice provided by your physician or other healthcare professional or any information contained on or in any product label or packaging. Do not use the information on this website for diagnosing or treating a health problem or disease, or prescribing medication or other treatment. Always speak with your physician or other healthcare professional before taking any medication or nutritional, herbal, or homeopathic supplement, or using any treatment for a health problem. If you have or suspect that you have a medical problem, contact your healthcare provider promptly. Do not disregard professional medical advice or delay in seeking professional advice because of something you have read on this website.

Please wait...

Continue shopping
View cart & checkout
Continue shopping
View cart & checkout