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NCT Number: NCT06825819

Dysbiosis & Long COVID

The SARS-CoV-2 virus causes COVID-19, which ranges from mild initial symptoms to severe multi-organ dysfunction. While some patients recover to their baseline states, others develop a long COVID, or post-acute sequelae of SARS-CoV-2 (PASC) consisting of symptoms persisting >2-6 months post-infection. PASC symptoms include post-exertional malaise, fatigue, and heart palpitations as well as incident GI disorders, cognitive dysfunction, and arthritis. Based on prevalence/incidence studies, it is estimated that more than 30 million people in the US have ever developed PASC with 10-11% of patients or 11 million people continuing to feel symptoms to the present day10. SARS-CoV-2 vaccines are only ~32% effective against infection at 4 months post-vaccination11, only 15% effective against the development of PASC12, and only 20% of American adults have received an updated booster as of December 202313. It is therefore imperative that the scientific community make progress in identifying underlying causes of PASC to develop effective treatments.

This study will identify microbial metabolites associated with PASC-mediated gut dysbiosis and establish a tractable in vitro model to test T cell-gut epithelium dynamics to develop novel bio-therapeutics for multiple post-viral conditions. This case-control study will collect biospecimens (matched stool & blood) samples from 400 people with and without long COVID (200 participants/group) to understand how COVID-induced dysbiosis impacts symptom severity, immune suppression, and gut barrier dysfunction both ex vivo and in vitro.

Recruiting

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Key information

Age range

18 year–80 year

Sex eligibility

All sexes

Study type

Observational

Primary location

The University of Chicago

Chicago, Illinois, 60637, United States

Location status: Recruiting

Location contact

Lavanya Visvabharathy, Ph.D

CONTACT

773-834-5087

Lavanya Visvabharathy, Ph.D

PRINCIPAL_INVESTIGATOR

Leila Yazdanbakhsh, MSCI

CONTACT

[email protected]

7738345087

Rasika Karnik, MD

SUB_INVESTIGATOR

Who can participate

Healthy volunteers accepted: Yes

Only the study team can determine whether someone qualifies for participation.

Inclusion criteria

  • Age: 18-80
  • Sex: Any
  • Race: Any
  • Last COVID infection: within past 3 years, PCR- or antigen-confirmed, symptomatic (mild/moderate/severe)
  • COVID vaccination status: Any
  • Presence of long COVID symptoms (GI, cardiac, pulmonary, neuro, musculoskeletal, and/or psych): 200 with symptoms, 200 w/o symptoms as defined by SBQ-LCTM.
  • May or may not be doing routine endoscopy at UCM

Exclusion criteria

  • Age <18 or >80
  • Last COVID infection >3 years ago (PCR/antigen-confirmed, symptomatic)
  • Currently or within the last 3 months COVID+ by nasopharyngeal PCR/antigen test
  • Currently diagnosed with cancer
  • Currently pregnant (cannot take colon biopsy sample; only eligible for survey/blood & stool collection)
  • Currently on biologic immunomodulatory medications
  • Official diagnosis of irritable bowel disease (IBD) or other chronic GI disorder

Vulnerable and/or Special Populations

  • Healthy adult volunteers
  • Pregnant people
  • UCMC and UChicago employees
  • Staff/faculty

Treatment and study plan

Subjects with and without Long COVID

Biological

To collect biospecimens (matched stool & blood) samples from 400 people with and without long COVID (200 participants/group) to understand how COVID-induced dysbiosis impacts symptom severity, immune suppression, and gut barrier dysfunction both ex vivo and in vitro.

Primary outcomes

  1. To determine whether people with long COVID exhibit microbial dysbiosis characterized by decreased bacterial diversity, overgrowth of Bacteroides taxa, and lower SCFA, indole, and secondary bile acid production with biospecimen collections

    Time frame: At baseline until final values

Secondary outcomes

  1. To collect matched stool, blood, and intestinal biopsy samples from a cohort of 300 individuals with and without long COVID (150/group)

    Time frame: At baseline until final values

Other outcomes

  1. Viral persistence of SARS-CoV-2 in intestinal biopsies (RNAScope).

    Time frame: At baseline until final values

    This will only be done if participants consent to both this study and the Genesys study.

  2. Composition of microbial taxa in stool (shotgun metagenomics)

    Time frame: At baseline until final values

  3. Generation of colonic organoids; determination of barrier function +/- autologous metabolites, PBMCs, T cell stimulation, Spike pseudovirus infection (BSL-2).

    Time frame: At baseline until final values

    This will only be done if participants consent to both this study and the Genesys study.

  4. Assessment of T cell metabolism by flow cytometry

    Time frame: At baseline until final values

Study contacts

Contact information is provided by the study sponsor or research team.

Lavanya Visvabharathy, Ph.D

CONTACT

[email protected]

773-834-5087

Leila Yazdanbakhsh, MSCI

CONTACT

[email protected]

7738345087

Sponsors and collaborators

Lead sponsor

University of Chicago

Other

Registry information

Official study title

DETERMINING THE IMPACT OF MICROBIAL DYSBIOSIS ON IMMUNE AND BARRIER DYSFUNCTION IN LONG COVID

Important dates

Study start
2025
Primary completion
2029
Study completion
2029
First posted
Feb 13, 2025
Registry last updated
Mar 2, 2026

OpenTrials presents study information sourced from ClinicalTrials.gov. The official registry record should be consulted for the latest information.

View the official ClinicalTrials.gov record (opens in a new tab)

This listing is for discovery and informational purposes only. It is not medical advice, does not guarantee that a study is recruiting, and does not determine eligibility. Contact the study team and a qualified healthcare professional when considering participation.

Published trials that share one or more normalized conditions with this study.