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Long Covid/Treatments/Fecal Microbiota Transplantation
Fecal Microbiota Transplantation
TherapyRegenerative

Fecal Microbiota Transplantation

What is it: A clinically regulated procedure transferring beneficial gut communities to recipients.AKA: Fecal Bacteriotherapy, Fecal Microbiota Therapy, Fecal Transplant, FMT, Intestinal Flora Transplant, Intestinal Microbiota Transplant, Stool Transplantation
Researched
Quantity and depth of existing academic research
  1. ⬤ Minimal research: Very little scientific study exists, with no or very few peer-reviewed studies. Insufficient data for conclusions.
  2. ⬤⬤ Limited research: Few studies exist, mostly small trials or case reports. Findings are preliminary and lack strong validation.
  3. ⬤⬤⬤ Moderately researched: Multiple studies, including mid-sized trials, exist. Some findings are replicated, but more research is needed.
  4. ⬤⬤⬤⬤ Well-researched: Supported by substantial evidence, including at least one large trial or meta-analysis.
  5. ⬤⬤⬤⬤⬤ Extensively studied: Numerous large studies and meta-analyses exist. Findings are widely accepted with strong scientific consensus.
 
Ease of access
How easy it is for the average patient to access this treatment
  1. ⬤ Extremely Difficult to Access: Rare, experimental, or highly specialized. Requires multiple referrals, long wait times, travel, and strict follow-up.
  2. ⬤⬤ Difficult to Access: Limited to select centers with moderate barriers. Requires referral, potential travel, and wait times of weeks to months.
  3. ⬤⬤⬤ Moderately Accessible: Available in larger hospitals or clinics. Requires a basic referral, with moderate wait times and some coordination.
  4. ⬤⬤⬤⬤ Easy to Access: Widely available in most clinics. Minimal referral, short wait times, and simple preparation or follow-up.
  5. ⬤⬤⬤⬤⬤ Trivial to Access: Easily found in pharmacies or clinics. No referral needed, minimal wait, and straightforward access.
 
Cost
How much in USD does it approximately cost for a patient to see the benefits of this treatment.
  1. ⬤ Up to $100
  2. ⬤⬤ Up to $500
  3. ⬤⬤⬤ Up to $2000
  4. ⬤⬤⬤⬤ Up to $10,000
  5. ⬤⬤⬤⬤⬤ More than $10,000
 
Reported effectiveness
The average perceived effectiveness of the treatment amongst the patient views found for this page.

To calculate the reported effectiveness for a patient view, the model first analyses whether it can be ascertained that the person writing the review has had direct experience of the treatment for themselves or a loved one. If so, it then uses sentiment analysis to rate their view from 1-5 on how effective this treatment was for them, with 1 being the least effective, and 5 the most effective.

 
Best suited for: Severe gut microbiome imbalance; Neurological symptoms with gut link; Persistent gastrointestinal symptoms; Immune system dysregulation
last updatedTue, 07 Oct 2025
curated byTurnto community

3 Resources

Referenced in this guide

11 Research papers

Referenced in this guide

3 Expert views

Contributed in this guide

13 Patient views

Contributed in this guide

Figure out what Fecal Microbiota Transplantation means for you

Page contents

Basics: What you need to know

Fecal Microbiota Transplantation (FMT) is a precise clinical procedure involving the careful screening of healthy donor stool, its laboratory processing, and administration to a recipient’s gastrointestinal tract. For individuals experiencing persistent complications, it has emerged as an area of research aimed at potentially restoring microbial balance. While well recognized for managing recurrent Clostridioides difficile infections, it is now under investigation for a broader range of conditions, including its potential to help those with lingering post-viral symptoms.

History and development

  • First documented use: In 1958, Dr. Ben Eiseman performed one of the earliest modern stool transplants to treat severe colitis, laying the groundwork for future practice.
  • Later refinements: Throughout the 20th and early 21st centuries, techniques became more controlled, including donor screening and precise laboratory protocols.
  • Key contributors: Dr. Thomas Borody and other researchers have led advancements in standardizing donor-screening approaches, refining procedures, and exploring new clinical uses beyond recurrent Clostridioides difficile.

What is known

  • Restores gut balance: The leading aim of this procedure is to replenish beneficial bacteria in the recipient’s gut, potentially improving overall microbial diversity.
  • Investigational expansion: Beyond its recognized utility for specific infections, studies are exploring its impact on chronic or lingering inflammatory processes and persistent symptoms.
  • Potential immune modulation: Some lesser-known advantages include the possibility of influencing immune responses, which may help reduce certain types of inflammation.
  • Symptom flare risks: There is a possibility of activating immune overreactions in susceptible individuals, so meticulous donor screening and professional oversight are essential to minimize unexpected adverse events.

What is not known

  • Long-term impact: The overall durability and sustained benefits of this therapy remain uncertain, and more research is needed to assess whether improvements are permanent.
  • Best donor profiles: Scientists are still working to pinpoint the ideal donor characteristics for the most effective results.
  • Applicability to multiple conditions: While in investigations for various disorders, there is still a lack of consensus on how and why it may or may not help certain individuals.
  • Donor selection: Strictly screened donors ensure minimal risk of transmitting pathogens.
  • Stool processing: Advanced lab techniques prepare collected material for safe transplantation.
  • Administration routes: Delivery into the recipient’s colon occurs via colonoscopy, enema, or capsules.
  • Microbial restoration: The new microbes can help promote a healthier gut environment.
  • Infection risk: Rare, but careful donor screening minimizes transmitted pathogens.
  • Digestive upset: Some recipients may experience cramping, bloating, or diarrhea.
  • Allergic response: Though uncommon, reactions to donor microbes can occur.
  • Antibiotic resistance transfer: Rigorous testing aims to prevent passing on resistant bacteria.
  • Research stage: Some experts believe its usage is still too experimental outside well-studied infections.
  • Regulatory concerns: Lack of universal guidelines or standardized protocols has raised concerns.
  • Ethical questions: Debates arise over donor compensation, informed consent, and patient safety.

Patient views

Experiences

  • Patients appreciate potential symptom relief for Long Covid and ME/CFS.
  • Some report improved energy and reduced brain fog post-treatment.
  • FMT is seen as promising for gut-related health issues.
  • Positive outcomes in other conditions like Parkinson's encourage optimism.

Challenges

  • Concerns about donor quality and potential risks of infection.
  • Mixed results; some patients see no improvement or worsening.
  • Lack of large-scale studies and clinical trials.
  • Repeated treatments may be needed, raising long-term concerns.

Tips

  • Ensure donor stool is thoroughly screened for pathogens.
  • Consult with a knowledgeable doctor before attempting FMT.
  • Consider professional administration over DIY methods.
  • Research and understand risks and benefits before proceeding.
Reported effectiveness
The average perceived effectiveness of the treatment amongst the patient views found for this page.

To calculate the reported effectiveness for a patient view, the model first analyses whether it can be ascertained that the person writing the review has had direct experience of the treatment for themselves or a loved one. If so, it then uses sentiment analysis to rate their view from 1-5 on how effective this treatment was for them, with 1 being the least effective, and 5 the most effective.

 

Sorted by relevancy

Patient view

Hey guys, me again ha... has anyone had a fecal transplant? If so have you seen improvement of all our any of your symptoms?

August 2024 • /r/LongCovid

Patient view

Tom Borody talks at the bottom of this article. Fecal transplant for Inflammatory Bowel Disease also mentioned here, scroll down. ScienceDaily (Oct. 31, 2011) Growing evidence for the effectiveness of fecal microbiota transplants as a treatment for patients with recurrent bouts of Clostridium difficile (C.difficile) associated diarrhea is presented in three studies -- including a long-term follow-up of colonoscopic fecal microbiota transplant (FMT) for recurrent C. difficile Infection that included 77 patients from five different states -- unveiled at the American College of Gastroenterology's (ACG) 76th Annual Scientific meeting in Washington, DC.

In a fourth study, investigators from the Centre for Digestive Diseases in Australia explored fecal bacterial transplantation as a treatment for Inflammatory Bowel Disease. While this is a new area of research, results of this study show success in treating IBD when the fecal transplant is done recurrently. The first study, "Long-term Follow-up of Colonoscopic Fecal Microbiota Transplant (FMT) for Recurrent C. difficile Infection (RCDI)," included 77 patients from five different states (RI, NY, OK, CA,WA) who previously had a colonoscopic fecal microbiota transplant at least three months ago for recurrent C. difficile infection, and found that FMT was successful in 70 out of 77 patients (91 percent) who were on average elderly, debilitated and had undergone multiple failed treatments, including antibiotic and probiotic therapies. Additionally, in six of the remaining seven patients, a single two-week course of vancomycin or a two-week vancomycin course plus one further FMT resulted in cure (98 percent). "Many of these patients we followed up with had been ill for a long time, but once they underwent the fecal microbiota transplant their response to the treatment was quick and their symptoms improved on average in about six days," said investigator Mark H. Mellow, MD, FACG, of INTERGRIS Baptist Medical Center in Oklahoma. The average duration of illness for these patients was 11 months, but after the procedure patients continued to improve and --without subsequent antibiotic treatment--did not have a recurrence of C. difficile infection during follow-up (on average , 17 months), according to Dr. Mellow and his team of co-investigators which included a leading pioneer of fecal microbiota transplantation, Lawrence J. Brandt, MD, MACG, of the Albert Einstein College of Medicine in New York. Results from a meta-analysis by researchers at the University of Toledo Medical Center were also unveiled, providing further evidence of the effectiveness of fecal microbiota transplantation. "Fecal Bacteriotherapy Works for Clostridium difficile Infection -A Meta-Analysis," reviewed the cases of 148 patients who had received fecal transplants for C. difficile infection. Follow-up ranged from 10 days to 62 months after the transplant, with an average follow-up of 1 year. Fecal transplant had an overall success rate of 85.4 percent, according to researchers, who also concluded that the procedure was a safe and effective treatment option for C. difficile infection. Clostridium difficile is a bacterium that causes infection leading to diarrhea and is most often related to antibiotic use during medical treatment. A major cause of morbidity and increasing health care costs among hospitalized patients, C. difficile infections have dramatically increased in recent years, with 500,000 cases in the United States annually and approximately 15,000 deaths each year, according to the U.S. Centers for Disease Control & Prevention. Up to 25 percent of patients will have a recurrence of C. difficile infection, and a proportion will be refractory to antibiotics. C. difficile is especially dangerous for patients with weakened immune systems such as the elderly and those with Inflammatory Bowel Disease (IBD). Therapies for this difficult-to-treat subpopulation include antibiotics, probiotics, toxin-binding medications, active vaccination, intravenous immunoglobon, and fecal microbiota transplant, for which the evidence has been mounting as an effective rescue for recurrent and refractory cases of C. difficile associated diarrhea. "While the concept of fecal transplantation may sound unpleasant to some, patient acceptance of this treatment is growing, especially when they have been suffering for months with recurrent C. difficile," said Dr. Mellow. "When we asked patients in our study about their choice of treatment if their infection recurred, 53 percent said fecal transplant would be their first choice for treatment." In a related study also unveiled at the ACG meeting, "Clostridium difficile Infection in Ulcerative Colitis: Increased Risk of Colectomy and Postoperative Infectious Complications," researchers from the University of Calgary found that patients with ulcerative colitis who were diagnosed with C. difficile were significantly less likely to respond to medical treatment and as a result require a colectomy when they diagnosed with C. difficile in the hospital or within 90 days of admission. In addition, patients with ulcerative colitis who had concomitant C. difficile, preoperatively were at a higher risk of infectious complications following a colectomy. Researchers Find Fecal Microbiota Transplantation Effective For Treatment of IBD With the growing success of fecal transplantation for C.Difficile, researchers have started to explore the effectiveness of this procedure for other serious conditions, such as Inflammatory Bowel Disease (IBD). A second study, "Reversal of Inflammatory Bowel Disease (IBD) with Recurrent Fecal Microbiota Transplants (FMT)," reports successful treatment of severe mixed IBD using recurrent fecal microbiota transplants in three patient cases. In Case 1, a 19-year old female with an 11-year history of severe IBD and who presented with worsening symptoms including bloody diarrhea and inflamed, ulcerated mucosa , and was considering a colectomy, experienced symptom improvement within several days after receiving FMT. She underwent FMT initially via colonoscopy in July 2009 then by seven daily rectal FMT and 26 weekly FMT's. Follow-up colonoscopy revealed no gross inflammation or edema, with the patient remaining clinically well. In Case 2, a 23- year old male with a five-year history of steroid and anti-TNF? refractory ulcerative colitis presented with bloody diarrhea more than 20 times per day, anal fissures, severe abdominal pain and joint pain. Pre-FMT colonoscopy -- showed severe disease of the left colon with marked cecal inflammation. He underwent daily rectal FMT for the first month, followed by infusions of lessening frequency until he reached 1 FMT/6 weeks. He reported resolution of bleeding 1-2 weeks post-FMT, and formed stool at 1 month post-FMT, resumed work, study activities and regained weight. Colonoscopy at one year showed no histological inflammation but occasional pseudopolyps in the cecum and ascending colon. In Case 3, a 57-year old female with a nine- year history of 5-ASA antibiotics, probiotics and immunosuppressant refractory ulcerative proctitis in spite of treatment. After training in our clinic, she performed 69, initially daily, then weekly rectal FMT with virtually immediate resolution of diarrhea, bleeding and mucus. Follow-up colonoscopy showed no visible or histological inflammation and she has remained off all therapy for the last four years. FMT may act as an antagonist to etiological infective agent(s) and aid in re-establishing depleted bacterial species, thereby reversing IBD, according to researchers from the Centre for Digestive Diseases in Australia. Commenting on the cases of FMT in IBD, lead researcher Thomas Borody, MD, PhD, FACG, said, "the rapid response of FMT and lack of adverse effects make FMT a viable option for treatment-refractory patients and is certainly an added option for those facing colectomy."

December +43803 • Phoenix Rising Forum

Read all (13)

Expert views

What they liked

  • Experts appreciate FMT's ability to restore gut microbiome balance.
  • Positive outcomes include reduced inflammation and improved gut health.
  • FMT has shown success in treating Clostridium difficile infections.
  • Experts highlight its potential for addressing chronic conditions like Long Covid.

What they didn't like

  • Concerns about FMT's long-term effectiveness without lifestyle changes.
  • Risk of adverse effects, especially in gut-related conditions.
  • Experts worry about insufficient regulation and standardization.
  • Some experts note FMT may not be a universal solution.

What are they unsure about

  • Experts are uncertain about FMT's effectiveness for Long Covid specifically.
  • Questions remain about the best patient subgroups for FMT.
  • Uncertainty about how environmental factors affect FMT outcomes.
  • Experts need more studies to confirm FMT's safety and efficacy.

3 expert views

Sorted by relevancy

Expert view

Jarred Younger discusses the potential of fecal microbiota transplantation (FMT) as a treatment for gut-related issues that may contribute to chronic conditions like Long Covid. He explains that gut bacteria imbalances, such as overgrowth of harmful bacteria, can lead to inflammation and other health problems. While dietary changes, probiotics, and antibiotics are common treatments, they don't always work. FMT involves replacing the gut's bacteria with a healthy balance from a donor's stool, introduced via colonoscopy, after clearing out the patient's existing gut bacteria with antibiotics. This approach aims to restore a healthy bacterial balance and address the underlying issues.

May 2024 • A new study suggests that fecal microbiota transplantation (FMT) can significantly reduce fibromyalgia pain, fatigue, and mood problems. I want to share what I think about the study, and what needs to happen next. The link to the paper is below. I don't think the complete paper is open-access, but if you search the title with Google, you may find it posted somewhere. - Jarred Younger

Expert view

The expert view on Fecal Microbiota Transplantation (FMT) for Long COVID highlights that while FMT is clinically approved for treating refractory C. difficile colitis, its application for Long COVID is still under investigation. Experts emphasize the importance of assessing stool samples and identifying specific subgroups of patients who might benefit from this treatment. They also mention the need for more research to understand the variables and unknowns involved, including using mouse models to establish proof of concept.

October 2024 • Long COVID Web Webinar Series: Updates on Research Activities for Pillars 1 & 2

Read all (3)

What and who it targets

Best suited for

Severe gut microbiome imbalance

Critical need for microbiome restoration.

Neurological symptoms with gut link

Gut-brain axis involvement suspected.

Persistent gastrointestinal symptoms

Unresponsive to conventional treatments.

Immune system dysregulation

Linked to microbiome disturbances.


Relevant research

How much evidence on this?

  • Evidence spans over a decade, with increasing interest recently.
  • Studies include randomized trials and systematic reviews.
  • Research covers both gastrointestinal and non-GI applications.
  • FMT linked to microbiome modulation in Long Covid symptoms.

Research focusing on

  • FMT improves GI symptoms and fatigue in Long Covid.
  • Post-treatment care includes monitoring for adverse effects.
  • Colonoscopy ensures better FMT distribution than enemas.
  • Researchers exploring microbiome's role in neurocognitive issues.

What needs more research?

  • Long-term safety and efficacy of FMT for Long Covid.
  • Optimal donor selection criteria for FMT.
  • Mechanisms linking microbiome changes to Long Covid recovery.
  • Best delivery methods for consistent outcomes.
Level of research
Quantity and depth of existing academic research
  1. ⬤ Minimal research: Very little scientific study exists, with no or very few peer-reviewed studies. Insufficient data for conclusions.
  2. ⬤⬤ Limited research: Few studies exist, mostly small trials or case reports. Findings are preliminary and lack strong validation.
  3. ⬤⬤⬤ Moderately researched: Multiple studies, including mid-sized trials, exist. Some findings are replicated, but more research is needed.
  4. ⬤⬤⬤⬤ Well-researched: Supported by substantial evidence, including at least one large trial or meta-analysis.
  5. ⬤⬤⬤⬤⬤ Extensively studied: Numerous large studies and meta-analyses exist. Findings are widely accepted with strong scientific consensus.
 

Sorted by relevancy

Research

This study explored the effects of fecal microbiota transplantation (FMT) on COVID-19 patients experiencing mild to moderate symptoms, specifically focusing on digestive issues like diarrhea and neuropsychiatric symptoms such as depression. It was conducted as a randomized, double-blind, placebo-controlled clinical trial with 40 participants.

The study found that FMT significantly improved diarrhea (p=0.026) and depression (p=0.006) in COVID-19 patients. Notably, the number of patients with diarrhea dropped from 19 to 0 within 7 days of treatment, and a biomarker linked to predicting long COVID-19 (AST/ALT ratio) was significantly reduced after FMT.

For individuals dealing with long COVID symptoms, this research suggests that FMT could be a promising treatment option for alleviating persistent digestive and depressive symptoms. It highlights a potential new avenue for managing the long-term effects of COVID-19.

As a randomized, double-blind, placebo-controlled trial published in the reputable Journal of Medical Virology, this study is highly reliable. Its design minimizes bias and provides strong evidence for the observed effects of FMT on COVID-19 symptoms.

July 2024 • Journal of medical virology

Research

This paper reviewed the connection between Long COVID (also known as Post-Acute Coronavirus Disease 2019 Syndrome or PACS) and changes in the gut microbiome. It also explored how treatments like probiotics, prebiotics, and fecal microbiota transplantation (FMT) could help alleviate symptoms of PACS.

The review found that gut microbiome modulation, including FMT, showed promise in improving symptoms such as fatigue, memory issues, trouble concentrating, gastrointestinal problems, and mood or sleep disturbances. These findings suggest that targeting gut health could be a key strategy in managing Long COVID symptoms.

For individuals living with Long COVID, this research highlights a potential new avenue for symptom relief through gut microbiome therapies like FMT. It offers hope for managing the wide range of symptoms that can significantly impact daily life.

As a systematic review published in the reputable journal 'Gut Microbes,' this paper is highly reliable. It synthesizes findings from multiple studies, providing a comprehensive overview of the topic, though further clinical trials are needed to confirm the effectiveness of these treatments.

January 2025 • Gut microbes


Accessibility

Ease of access
How easy it is for the average patient to access this treatment
  1. ⬤ Extremely Difficult to Access: Rare, experimental, or highly specialized. Requires multiple referrals, long wait times, travel, and strict follow-up.
  2. ⬤⬤ Difficult to Access: Limited to select centers with moderate barriers. Requires referral, potential travel, and wait times of weeks to months.
  3. ⬤⬤⬤ Moderately Accessible: Available in larger hospitals or clinics. Requires a basic referral, with moderate wait times and some coordination.
  4. ⬤⬤⬤⬤ Easy to Access: Widely available in most clinics. Minimal referral, short wait times, and simple preparation or follow-up.
  5. ⬤⬤⬤⬤⬤ Trivial to Access: Easily found in pharmacies or clinics. No referral needed, minimal wait, and straightforward access.
 
Cost
How much in USD does it approximately cost for a patient to see the benefits of this treatment.
  1. ⬤ Up to $100
  2. ⬤⬤ Up to $500
  3. ⬤⬤⬤ Up to $2000
  4. ⬤⬤⬤⬤ Up to $10,000
  5. ⬤⬤⬤⬤⬤ More than $10,000
 

Method to access

  • Contact specialized clinics directly for consultation and scheduling.
  • Referrals may be required for insurance claims.
  • At-home options include oral capsules, which can be taken over 30–60 days.

Cost

  • Clinic-based FMT: $2,000–$5,000 per treatment.
  • FDA-approved products (e.g., SER-109, RBX2660): $9,000–$17,500 per dose.
  • At-home capsules: Costs vary; contact clinics for pricing.

Insurance cover

  • Limited coverage for Long Covid; primarily covered for Clostridium difficile infections.
  • Medicare may cover if deemed medically necessary.
  • Premium private insurance may offer partial coverage.

Locations

  • Taymount Clinic, UK: Specializes in FMT for various conditions.
  • IPPM Clinic, Slovakia: Offers rectal and oral FMT.
  • Centre for Digestive Diseases, Australia: Renowned for digestive health treatments.
  • Mount Sinai, USA: Provides FMT for gastrointestinal infections.
  • Other clinics worldwide may offer FMT; contact local gastroenterology centers.

Related clinical trials

FMT for Post-acute COVID-19 Syndrome
Clinical trial
Hong Kong

FMT for Post-acute COVID-19 Syndrome

Chinese University of Hong Kong
Learn more

Frequently asked questions

FMT is minimally invasive and generally painless, though mild discomfort may occur during administration.
Recovery is typically quick, with most patients resuming normal activities within a day.
While rare, infections can occur if donor stool is not properly screened.
Success rates vary, but studies show significant improvement in gut-related symptoms for many patients.

Key resources

016 - Could a fecal transfer abolish your chronic pain and fatigue?

A new study suggests that fecal microbiota transplantation (FMT) can significantly reduce fibromyalgia pain, fatigue, and mood problems. I want to share what I think about the study, and what needs to happen next. The link to the paper is below. I don't think the complete paper is open-access, but if you search the title with Google, you may find it posted somewhere. - Jarred Younger
Learn more

Long COVID Web Webinar Series: Updates on Research Activities for Pillars 1 & 2

Long COVID Web Webinar Series: Updates on Research Activities for Pillars 1 & 2
Learn more

Part 2 with returning guest Rachel Jessey - faecal implant, vitamins and the gut microbiome

Living with Long Covid Podcast
Learn more

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