Fecal Microbiota Transplants for Ulcerative Colitis (UC): What to Know

If you have ulcerative colitis (UC), you may wish you could swap out your entire digestive system. There's a potential treatment that may come close: someone else's fecal matter.
"In concept, a fecal transplant can help restore gut microbiome balance, which would go a long way toward addressing UC because that condition is characterized by an imbalance between the intestinal immune system and the gut microbiome," says Jeremy Polman, DO, an inflammatory bowel disease fellow and gastroenterology researcher at Northwell Lenox Hill Hospital in New York City. "This is not yet approved as a front-line treatment option for UC, but it's progressing through clinical trials to the point that it might be more widely available in the future."
There are some instances where people with UC are receiving these treatments, however. Here's what to know about when it's used, and what may be on the horizon.
How Do Fecal Transplants Work?
Because the gut microbiome — which is a mix of bacteria, fungi, and viruses that live in your digestive system — plays a significant role in UC, finding better ways to support and nourish those beneficial gut bugs is crucial, says Seifeldin Hakim, MD, a gastroenterologist at Memorial Hermann in Houston.
Strategies for managing your microbiome can include stress reduction, probiotic-rich foods, and high-quality sleep, but FMT has the potential to be a major shortcut, he says
"The whole goal of fecal transplantation is restoring the balance between good bacteria and bad bacteria," he says. "We've seen in clinical trials and also in instances where FMT is done in patients with a recurrent Clostridioides difficile (C. diff) infection that it works quite well and also very quickly."
If you have some healthy friends with bulletproof digestive systems, you might be tempted to do it yourself and try an at-home process. Don’t do that, says Polman.
Fecal Transplants for Ulcerative Colitis: What the Science Shows
FMT could be an option in those cases.
Would a Fecal Transplant Help Your Ulcerative Colitis Symptoms?
Although FMT is considered a promising option after nearly a decade of clinical trials and testing, keep in mind that it's still not to the point where it might replace existing UC treatments like immunomodulators, says Polman.
"At some point, we may see fecal transplants as a complement to existing therapies as a way to manage UC more effectively," says Polman. "Even in that case, though, lifestyle changes and medication adherence will continue to be top focus for minimizing UC symptoms."
If you're struggling to get your UC symptoms under control even with different medications, you might want to consider asking your gastroenterologist about whether enrolling in a clinical trial for FMT could be right for you, says Dr. Hakim.
The Takeaway
- Fecal microbiota transplants involve taking beneficial bacteria from a healthy donor's stool and inserting them into a recipient via a colonoscopy, enema, or pill.
- These transplants are designed to populate an inflamed gut with bacteria that can help reduce inflammation and subsequently heal the digestive system.
- Fecal microbiota transplants are only FDA-approved for treating recurrent C. diff infections right now, but they may be part of the UC treatment mix in the future after more research is done.
Resources We Trust
- Mayo Clinic: The Microbiome, Fecal Microbiota Transplants and Inflammatory Bowel Disease
- Cleveland Clinic: Fecal Transplant
- Crohn's & Colitis Foundation: Fecal Bacterial Transplantation Position Statement
- American Society for Microbiology: Fecal Microbiota Transplants (FMT): Past, Present and Future
- Johns Hopkins Medicine: Fecal Transplant
- Fecal Transplant. Cleveland Clinic. August 2023.
- Fecal Transplant. Johns Hopkins Medicine.
- Řehořová V et al. Multi-Donor Fecal Microbial Transplantation for Critically Ill Patients: Rationale and Standard Operating Procedure. Future Pharmacology. March 4, 2022.
- Rebyota. Rebyota. 2025.
- VOWST. VOWST. 2025.
- Ekekezie C et al. Understanding the Scope of Do-It-Yourself Fecal Microbiota Transplant. American Journal of Gastroenterology. April 2021.
- Shoaei P et al. Clostridium difficile isolated from faecal samples in patients with ulcerative colitis. BMC Infectious Diseases. April 2019.
- Costello SP et al. Effect of Fecal Microbiota Transplantation on 8-Week Remission in Patients with Ulcerative Colitis. JAMA. January 2019.
- Paramsothy S et al. Multidonor intensive faecal microbiota transplantation for active ulcerative colitis. Lancet. March 2017.
- MacDermott RP et al. Refractory Ulcerative Colitis Treatment. Gastroenterology & Hepatology. January 2007.

Yuying Luo, MD
Medical Reviewer
Yuying Luo, MD, is an assistant professor of medicine at Mount Sinai West and Morningside in New York City. She aims to deliver evidence-based, patient-centered, and holistic care for her patients.
Her clinical and research focus includes patients with disorders of gut-brain interaction such as irritable bowel syndrome and functional dyspepsia; patients with lower gastrointestinal motility (constipation) disorders and defecatory and anorectal disorders (such as dyssynergic defecation); and women’s gastrointestinal health.
She graduated from Harvard with a bachelor's degree in molecular and cellular biology and received her MD from the NYU Grossman School of Medicine. She completed her residency in internal medicine at the Icahn School of Medicine at Mount Sinai, where she was also chief resident. She completed her gastroenterology fellowship at Mount Sinai Hospital and was also chief fellow.
