Gut Feelings: What You Need to Know About Probiotic Enemas
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Gut Feelings: What You Need to Know About Probiotic Enemas

Published on Tuesday, February 25, 2025
by
Keydella Fuller

IBS
Gut Health

Probiotic Enemas: Can They Improve Gut Health and Digestion? 

Probiotic enemas are an emerging therapeutic approach to gut health. Conventionally, enemas are used to assist with constipation. However, some utilize them for detoxification, and new research is showing some benefits of instilling probiotics directly into the colon for individuals with inflammatory bowel disease (IBD) and irritable bowel syndrome (IBS). Here, we explore what probiotic enemas are, their effectiveness, when to consider their use, their pros and cons, and alternatives to this treatment.

What Are Probiotic Enemas?

Enemas involve instilling fluid into the rectum through tubes. Probiotic enemas are administered with the intention of retaining the contents in the rectum as long as possible, allowing for maximum absorption of the liquid contents. They are designed to deliver specific strains of probiotics directly into the colon, thus introducing beneficial bacteria that can help restore gut flora balance directly to the site needed. Common strains used include Lactobacillus and Bifidobacterium, which are known for their positive effects on digestive health.

Are They Effective?

While more research is needed, and probiotic enemas have not become standard therapy; some research indicates that they can indeed be effective in reducing inflammatory markers and improving mucosal health in patients with ulcerative colitis (UC) when treated with specific probiotic strains such as E. coli Nissle 1917 and Lactobacillus reuteri ATCC 55730. Some have even achieved remission

When to Consider Using Them

Probiotic enemas may be utilized at any time. However, as they are still experimental, they would be best considered for individuals suffering from conditions like difficult-to-treat ulcerative colitis (UC), resistant or challenging-to-treat irritable bowel syndrome (IBS), and Antibiotic-Associated Diarrhea, particularly Clostridium difficile (C.Diff). They can be an alternative, under provider supervision, for individuals with IBS who have been unable to get relief from traditional methods. 

Why rectally? Wouldn't oral probiotics work? 

Both oral and enema administration methods have their advantages. Oral probiotics are generally easier to take and less invasive. However, they must survive stomach acid and bile before reaching the intestines, which can reduce their efficacy. In contrast, probiotic enemas deliver bacteria directly to the colon without this barrier, potentially enhancing their impact on gut health.

Since the colon is the primary affected area for patients with UC, rectally administering probiotics directly in the affected area may have superior benefits. Oral probiotics have been shown to help some GI conditions but may worsen other GI conditions. 

Fecal microbiota transfer (FMT) is essentially like a probiotic enema, instilling good bacteria into the GI tract of individuals with overgrowth of C-diff, causing recurrent, contagious diarrhea. Instead of an enema, fecal matter from healthy individuals is transferred into the gut of individuals with C-diff. This can be done via colonoscopy or endoscopy and has been shown to be efficacious. This treatment has become FDA-approved for this condition. Maybe probiotic enemas will be also. More research is needed to show improved benefits over risk. 

Pros and Cons of Probiotic Enemas

Pros

  • Direct Delivery: Probiotics administered through the rectum bypass the harsh environment of the digestive tract. When taken orally, probiotics may be destroyed before reaching the colon. In enema form, higher concentrations of beneficial bacteria can reach the colon, which may improve their effectiveness.

  • May help achieve remission in UC patients

  • Symptom Relief: Some studies suggest they can reduce inflammation and improve gut health

Cons

  • Discomfort: Enemas can be uncomfortable or distressing for some individuals 

  • Risk of Infection: Improper technique or unsterile equipment can lead to infections as well as injury to the colon 

  • Limited Research: While promising, more research is needed on its efficacy, safety, and comparison to other available treatments. 

Alternatives to Probiotic Enemas

If you are not about the enema life, I can’t say that I blame you. There are many natural methods that you can try incorporating to see if you get any symptom relief. As with any probiotic, start with a low dose and go slowly. Probiotics increase bacteria count, while prebiotics provide nourishment/food to the gut bacteria. 

  • Oral Probiotics: As discussed, several different strains of probiotics have been shown to help improve gut health. They are available in capsules or powders and are convenient for daily use.

  • Fermented Foods: Foods like yogurt, kefir, sauerkraut, and kimchi naturally contain probiotics. This contains naturally occurring healthy bacteria to increase good bacteria counts in the gut.

  • Dietary Adjustments: Incorporating prebiotics (fiber-rich foods) can help nourish beneficial gut bacteria. Prebiotics are food for the gut bacteria.

Consultation with Healthcare Providers

Before attempting probiotic enemas or any new treatment regimen, it is essential to consult with a healthcare provider. While probiotic enemas, which deliver probiotics directly to the colon lining, present promising results for enhancing gut health, especially for ulcerative colitis patients, further research is necessary. As with any health intervention, informed decision-making in consultation with a healthcare provider is crucial. Given the potential side effects, this should not be attempted alone.  



  1. Estevinho, M. m., Yuan, Y., Rodríguez-Lago, I., Sousa-Pimenta, M., Camila Dias, C., Barreiro-de Acosta, M., Jairath, V., & Magro, F. (2024). Efficacy and safety of probiotics in IBD: An overview of systematic reviews and updated meta-analysis of randomized controlled trials. UEG Journal, 12(7), 960-981. https://onlinelibrary.wiley.com/doi/full/10.1002/ueg2.12636

  2. Fecal Transplant. (n.d.). Johns Hopkins Medicine. Retrieved December 18, 2024, from https://www.hopkinsmedicine.org/health/treatment-tests-and-therapies/fecal-transplant

  3. Khatri, M. (2023, September 15). Probiotic enemas: Fad or medical superstar? WebMD. Retrieved December 18, 2024, from https://www.webmd.com/digestive-disorders/what-to-know-probiotic-enema

  4. Matthes, H., Krummenerl, T., Giensch, M., Wolff, C., & Schulze, J. (2010). Clinical trial: probiotic treatment of acute distal ulcerative colitis with rectally administered Escherichia coli Nissle 1917 (EcN). BMC Complement Altern Med, 10-13. https://pmc.ncbi.nlm.nih.gov/articles/PMC2861635/

  5. Oliva, S., Di Nardo, G., Ferrari, f., Mallardo, S., Rossi, P., Patrizi, G., Cucchiara, S., & Stronati, L. (2011). Randomised clinical trial: the effectiveness of Lactobacillus reuteri ATCC 55730 rectal enema in children with active distal ulcerative colitis. Ailmentary Pharmacology and Therapeutics. https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1365-2036.2011.04939.x 

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Keydella Fuller

MSN, APRN, FNP-C

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