The Newest GI Epidemic: SIBO and Fatty Liver Disease

December 12, 2019

Bad bacteria, like the ones that cause food poisoning, could also be causing your SIBO, and surprisingly, Fatty Liver Disease as well.

You’ve heard it from me countless times over the years – your body is only as healthy as your gut. If you can’t digest and absorb nutrients from food and drinks while also fending off foreign invaders, then there’s something wrong with your gut – and that something might be food poisoning.

Ten percent of people who come down with a case of food poisoning don’t recover and it becomes a chronic bacterial infection. When this happens, it can progress into Small Intestine Bacterial Overgrowth (SIBO), and as researchers have recently discovered, it can wreak further havoc and lead to Nonalcoholic Fatty Liver Disease (NAFLD).

The good news is you can beat the bloat and get your gut health back on track with a few simple steps.

Digestion 101

Your digestive system is the first line of defense for most of the foreign invaders your body comes in contact with. This complex system has multiple internal lines of defense to keep these harmful invaders from breaching its protective front lines and invading your bloodstream, where they are able to travel pretty much anywhere in the body to wreak havoc.

The digestive cascade all starts in your mouth with chewing and saliva production. Chewing your food thoroughly stimulates the release of saliva, which in turn signals how much stomach acid to make, followed by digestive enzymes from the pancreas and bile from the gallbladder. In your intestines, your microbiome – the collection of healthy bacteria that makes up part of the immune system in your gut and helps you break down and absorb nutrients – gets to work breaking down food and attacking unwanted hitchhikers that make it past the stomach.

When all of this is working properly, it also balances the pH needed in each area and controls how much peristalsis – the wave-like contractions of the intestines – needs to happen to move the food along. The end result is food that is broken down, all the nutrients extracted and sent where they’re needed, and any harmful invaders neutralized and easily eliminated through regular bowel movements.

This delicately balanced system can be thrown out of whack at any point along the course – you don’t chew your food thoroughly, which causes less stomach acid to be released, and then fewer pancreatic enzymes and less bile is released. Or you drink too much liquid while you eat, which dilutes your stomach acid, causing a slow down of the whole system. Or perhaps worst of all, a break down in the microbiome allows bad bacteria to survive, and you now have an illness – like food poisoning – to fight.

How Food Poisoning Causes SIBO

Thanks to your microbiome, at least 60 percent of your immune system is in your gut. This is likely because it’s your first line of defense against most of the foreign organisms you encounter. Aside from the food and drinks you put in your mouth, the secretions from your pulmonary system drain into your stomach, and anything you touch before putting your fingers in your mouth also ends up in your digestive system.

If there is any weakness to your microbiome – either not enough probiotic bacteria or not enough diversity – the bad bacteria that cause food poisoning will take over and cause illness, damage, and eventually SIBO (Small Intestine Bacteria Overgrowth). According to researchers, food poisoning bacteria like Salmonella, E. coli, Campylobacter jejuni and Shigella all produce a potent neurotoxin called cytolethal distending toxin B. The more antibodies you make against this toxin, the more likely you are to develop SIBO.

Cytolethal distending toxin B is molecularly similar to a good protein we have in our intestines called vinculin. Because your antibodies can’t tell these two proteins apart, the same antibodies that attack the neurotoxin also attack your good vinculin protein. Vinculin is a “good guy” for the nerve cells in your gut; it stimulates peristalsis in its surroundings. When you have less of this protein then you have weak muscle contractions, which means food stays too long in the small intestine.

This slower transit time gives bacteria the chance to latch on, feed, and overgrow. Once bacteria overgrows in the small intestine, the result is bloating, gas, inflammation (and more), the hallmarks of SIBO. Food poisoning and its resulting gastrointestinal damage is now considered to be one of the major causes of SIBO. But, in the case of E. coli, the damage doesn’t stop there.

From SIBO to NAFLD – How Bad Bacteria Just Get Worse

Did you know the protective lining of the intestines – that separates harmful bacteria from your bloodstream – is only one cell in thickness? It’s true! Normally, there’s a protective mucus layer over this lining that houses the majority of your microbiome. But, when the microbiome gets disrupted, the mucus layer can be destroyed by bad bacteria (or parasites) and invade your body by getting into your bloodstream, causing systemic inflammation.

E. coli is especially heinous, and is a major contributor to Nonalcoholic Fatty Liver Disease (NAFLD). When it overgrows in the small intestine, it gives off alcohol as its byproduct. So this bacteria in particular causes that food to ferment, increasing bloating, the release of toxins, and the production of alcohol. Once it breaks through your intestinal barrier, all of that alcohol floods your system and heads for your liver.

The alcohol produced by bacteria poisons your liver the same way the alcohol you drink does.

It used to be that we only saw Fatty Liver Disease in people who regularly drank excessive amounts of alcohol. Now NAFLD affects more than one-fourth of the adult population in the US. We see it most commonly in people with high carbohydrate diets who are feeding the alcohol-producing bacteria (and yeasts) in their disrupted microbiome. In fact, these alcohol-producing bacteria have been found in more than 60% of NAFLD patients.

Your alcohol levels from the bacteria (and yeasts) can actually go so high that you register a blood alcohol level of intoxication. This is called Auto-Brewery Syndrome and is rare, but should give you a good idea of just how much alcohol these bacteria can make. So, if you’re experiencing bloating, brain fog, inflammation, and fatigue, then it’s time to tune-up your microbiome and strengthen your intestinal border function.

Get Your Gut Health Back in 3 Easy Steps

When it comes to SIBO and NAFLD, reclaiming your gut health is the first course of action needed, because you have to “close the door” that allows them in to begin with. Here are 3 easy steps you can take to get your gut health back:

  1. Cleanse. SIBO and NAFLD are both signs that your microbiome has been disrupted, allowing harmful bacteria to invade and do damage. So, good gut health starts with a gentle but thorough cleanse. There are two ways to go about this. First, if you’ve only recently developed the symptoms, you may be able to do a broad spectrum herbal colon cleanse. But, if the problem has been ongoing, it may make more sense to start with a comprehensive laboratory test like the Expanded GI Panel from UNI KEY Health or a DNA probe to determine exactly which bacteria are causing your issues so you can make a more targeted, informed approach.
  2. Support. Once the delicate lining of the intestines is injured, the digestive enzymes that are normally attached are flushed out without being able to do their job. So, supplementing with digestive enzymes is not only helpful to fight inflammation but also provides good digestive support while you are healing. I recommend taking a good quality, broad spectrum digestive enzyme formula with every meal. Also, enteric-coated peppermint capsules have been found to soothe the inflammation associated with SIBO and are currently being researched for their antimicrobial effects in the intestine.
  3. Restore. It’s important to “seed and feed” your microbiome – it contains trillions of bacteria ready to come to your aid. Once it is disrupted and harmful microorganisms have begun to overgrow, you need to bring back healthy probiotic populations so it can effectively do its work again. Taking a good quality probiotic that contains the prebiotic food they prefer is something I consider essential to helping restore health to your microbiome. Also, numerous studies show there is a strong relationship between choline deficiency and NAFLD, so I believe choline supplementation is essential for liver support. I recommend taking a supplement twice daily to get your daily dose of choline.


For a FREE daily dose of tips and strategies for maintaining healthy weight, conquering insomnia, and much more… check out my Radical Health Tips.”


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Ann Louise Gittleman, PhD, CNS, is an award-winning New York Times bestselling author of more than thirty books including The Fat Flush Plan series and her latest book, Radical Metabolism. She’s been rewriting the rules of nutrition for more than 40 years and is internationally recognized as a pioneer in the field of diet, detox and women’s health issues. 

For a FREE daily dose of tips and strategies for maintaining healthy weight, conquering insomnia, and much more…check out my Radical Health Tips.

I’d like to meet and greet you on my Facebook groups, so won’t you check us out at the Radical Metabolism RevolutionFat Flush Nation, or my Inner Circle!


  1. Beth Johnson

    Very interesting. I never would have guessed that this could be a cause of fatty liver disease.

  2. Vicki

    I have a dull pain right under my right rib cage. It started the week my father was dying so I thought it was stress. It’s been almost a year and I have the pain off and on daily. I take choline 3 times a day and phos food I heard you suggest on a podcast. Also added bitters to almost every meal. Also drink a liver detox tea. What else can I do? I don’t want my gall bladder taken out! Please help.

    • Team ALG

      Vicki, Bile Builder will give you additional important nutrients to help thin the bile and prevent stones from forming. Many people have had wonderful results using it.

      • Vivian

        What about people that don’t have a gallbladder anymore? I’ve yet to figure out or find info on how this affects the rest of the digestive process. Yes, I know to avoid certain foods, etc. How does this change the digestive process? Please provide any info or resources on this. Thanks!

        • Team ALG

          Vivian, Without a gallbladder you don’t have the bile salts available at the right time to digest dietary fat. When you take Bile Builder it helps you by providing bile salts tohelp with fat digestion.

  3. Patsy Paton

    This may be the situation my husband has. I think he got food poisoning about 3 weeks ago and still has gut problems. Will test to find out for sure. Thanks for the suggestions.

  4. Amanda

    Does the use of antacids and proton pump inhibitors play a part in this?

    • Team ALG

      Amanda, yes they inhibit the ability of the natural stomach acid to break down protein. Food that is not digested can literally rot and cause more pathogenic bacteria.

  5. Louise

    I was prescribed the antibiotic, Cefdinir on January 8, 2020 and several days later began having alot of digestive issues. I stpped taking theantibiotic on Jan. 14 and am still having alot of issues. I have lost 8 lbs. I am taking a scoop of flora key once a day and have restricted my intake. Do you have any other suggestions?

    • Team ALG

      Louise, We’d suggest taking two scoops per day of Flora-Key, one in the morning and one mid afternoon. Restrict your intake of fruit and any sugars.


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