Is fecal microbiota transplantation (FMT) a treatment for Clostridioides difficile (C. diff) infection or just a method to prevent recurrence after initial treatment?

Medical Advisory BoardAll articles are reviewed for accuracy by our Medical Advisory Board
Educational purpose only • Exercise caution as content is pending human review
Article Review Status
Submitted
Under Review
Approved

Last updated: April 25, 2025View editorial policy

Personalize

Help us tailor your experience

Which best describes you? Your choice helps us use language that's most understandable for you.

From the Guidelines

Fecal microbiota transplantation (FMT) is both a treatment for active Clostridioides difficile (C. diff) infection and a preventive measure against recurrence.

Key Points

  • FMT can be used as a primary treatment for C. diff, particularly in cases that have failed to respond to standard antibiotic therapy such as vancomycin, fidaxomicin, or metronidazole 1.
  • FMT is especially effective for recurrent or refractory C. diff infections, with success rates of 80-90% after a single treatment 1.
  • The procedure involves transferring stool from a healthy donor to the patient's intestinal tract, which helps restore a healthy gut microbiome that can resist C. diff colonization 1.
  • FMT can be administered via colonoscopy, nasogastric tube, enema, or oral capsules, with the method chosen based on patient factors and facility capabilities 1.
  • Patients typically see improvement within days of receiving FMT, though some may require a second treatment for complete resolution 1.

Administration and Considerations

  • FMT should be considered in hospitalized patients with severe or fulminant C. diff infection not responding to standard of care antibiotics, generally within 2–5 days after initiating CDI treatment 1.
  • FMT is not advised in patients with a bowel perforation, obstruction, or those who are severely immunocompromised 1.
  • The use of FMT in mildly or moderately immunocompromised adults with recurrent C. diff infection is suggested, but its use in severely immunocompromised adults is not recommended 1.

Prevention of Recurrence

  • FMT can be used as a preventive measure against recurrence, particularly in patients who have experienced multiple recurrences of CDI 1.
  • Suppressive anti-CDI antibiotics, such as vancomycin, should be used to bridge standard of care antibiotics until FMT is given 1.
  • After resolution of colitis, suppressive vancomycin should be continued at discharge and a final fecal microbiota–based therapy performed as an outpatient to prevent CDI recurrence 1.

From the Research

Fecal Transplant as a Treatment for C-diff

  • Fecal microbiota transplantation (FMT) has been recommended for the treatment of recurrent Clostridioides difficile infection (CDI) 2, 3, 4, 5.
  • FMT is considered a safe procedure, although risks range from mild gastrointestinal symptoms to serious infection 2.
  • The current evidence suggests that FMT can lead to a large increase in resolution of recurrent CDI compared to alternative treatments such as antibiotics 4.
  • FMT is also used for the prevention of multiply recurrent CDI after two recurrences, with cure rates approaching 90% 5.

Fecal Transplant for Prevention of Recurrence

  • FMT is recommended for the prevention of multiply recurrent CDI after two recurrences 5.
  • Emerging evidence supports the use of FMT in the management of severe and fulminant CDI, resulting in decreased mortality and colectomy rates compared with standard of care approach 5.
  • FMT should be considered early in the clinical course of severe CDI, preferably within 48 hours of failing to respond to antibiotic therapy and volume resuscitation 5.

Comparison of Fecal Transplant to Other Treatments

  • FMT has been compared to other treatments such as vancomycin and fidaxomicin, and has been shown to be effective in reducing recurrence of CDI 4, 6.
  • Extended-pulsed fidaxomicin therapy has been proposed as an alternative treatment for recurrent CDI, especially in high-risk patients 6.
  • FMT may offer a viable option for patients with recurrent CDI refractory to standard therapies 6.

References

Guideline

Guideline Directed Topic Overview

Dr.Oracle Medical Advisory Board & Editors, 2025

Research

Fecal Microbiota Transplantation: The Evolving Risk Landscape.

The American journal of gastroenterology, 2021

Research

Fecal microbiota transplantation: Review and update.

Journal of the Formosan Medical Association = Taiwan yi zhi, 2019

Research

Fecal Microbiota Transplantation.

Clinics in colon and rectal surgery, 2023

Research

Extended-pulsed Fidaxomicin Therapy for Recurrent Clostridioides difficile Infection After Standard Vancomycin and Fidaxomicin Failure: A Case Report.

Journal of infection and chemotherapy : official journal of the Japan Society of Chemotherapy, 2025

Professional Medical Disclaimer

This information is intended for healthcare professionals. Any medical decision-making should rely on clinical judgment and independently verified information. The content provided herein does not replace professional discretion and should be considered supplementary to established clinical guidelines. Healthcare providers should verify all information against primary literature and current practice standards before application in patient care. Dr.Oracle assumes no liability for clinical decisions based on this content.

Have a follow-up question?

Our Medical A.I. is used by practicing medical doctors at top research institutions around the world. Ask any follow up question and get world-class guideline-backed answers instantly.