De novo inflammatory bowel disease is a potential post-acute sequela of SARS-CoV-2 infection

Thanita Thongtan MD*, Anasua Deb MD*, Sameer Islam MD

Corresponding author: Thanita Thongtan
Contact Information: Thanita.thongtan@ttuhsc.edu
DOI: 10.12746/swrccc.v9i41.913


Background: Even though patients with inflammatory bowel disease (IBD) are not at increased risk of COVID-19 infection, patients with post-acute COVID-19 have been reported to have de novo IBD or a new diagnosis of IBD.

Objective: This article reviews the presentation, diagnosis, and clinical course of patients described in the literature to have new-onset IBD after the diagnosis of COVID-19 infection and discusses the possible pathophysiological mechanism.

Methods: Extensive literature review by compiling information from case reports and original studies identified by a PubMed and EMBASE search from inception to May 2021.

Results: We identified 4 case reports de novo IBD that occurred 2 weeks to 5 months after acute COVID-19 infection. Patients presented with persistent bloody diarrhea, abdominal pain, and anemia. Three patients were diagnosed with ulcerative colitis, and one patient was diagnosed with Crohn’s disease. Available evidence suggests that COVID-19 infection can cause intestinal inflammation and trigger de novo IBD, potentially through intestinal barrier leakage, alterations in gene expression, gut microbiota dysbiosis, and an exaggerated immune response.

Conclusion: The presence of the SARS-CoV-2 virus in the gut can cause de novo IBD through complex multiple factors. Further studies need to be done to confirm a causal link and the underlying mechanism. Clinicians should be vigilant about the possibility of IBD in patients present with anemia, abdominal pain, or chronic bloody diarrhea after a short interval of COVID-19 infection which may warrant a referral to a gastroenterologist.

Keyword: de novo inflammatory bowel disease, COVID-19 infection, SARS-CoV-2 virus, pathophysiology


In December 2019, viral infections cause by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged as a global pandemic.1 Although most patients infected with SARS-CoV-2 have respiratory tract involvement, it is now clear that the virus can infect any organ, including the gastrointestinal system2 as the viral host receptor, angiotensin-converting enzyme (ACE) 2, is distributed not only in the lung but also in the gastrointestinal tract.3 Even though patients with inflammatory bowel disease (IBD) are not at increased risk of COVID-19 infection,4 there have been reports on patients who developed de novo IBD as a post-acute sequela of SARS-CoV-2 infection.5–8 The mechanisms underlying both IBD9 and SARS-CoV-2 infection10 pathophysiology are not completely understood. This study reviews the current evidence on the potential pathophysiology behind the emergence of de novo IBD following acute SARS-CoV-2 infection.


We searched PubMed and EMBASE using the search term of “(inflammatory bowel disease [MeSH Terms]) AND ((covid-19) OR (coronavirus) OR (SARS-CoV-2))” from inception to April 2021, to identify all studies reporting the new-onset IBD in patients with a history of COVID-19 infection. We also searched for current evidence on the mechanisms underlying gastrointestinal involvement in COVID-19 infection and inflammatory bowel disease to understand the potential link between the two. We excluded studies that reported findings in patients with established diagnosis of IBD. The initial search yielded 1,243 articles that were relevant (965 articles from EMBASE and 278 studies from PubMed).


We identified four articles reported cases of de novo IBD that were diagnosed ranging from 2 weeks to 5 months after acute COVID-19 infection (Table 1). The mean age of diagnosis was 30 years, 50% were female. Common presentations included bloody diarrhea, abdominal pain, and anemia. Three patients were diagnosed with ulcerative colitis, and one patient was diagnosed with Crohn’s disease. All patients met the criteria for the diagnosis of IBD by using a combination of clinical features and characteristic findings on endoscopy, as well as histopathologic analysis. SARS-CoV-2 was found to be negative in two cases’s intestinal samples.5,8 Two cases were reported improvement with IBD treatment.6,8

Table 1. Clinical Summaries of Case Reports

Demographics Initial Presentation COVID-19 Diagnosis IBD Diagnosis Treatment for COVID-19 Infection Time to Diagnosis in IBD After the Onset of Symptoms Symptoms, Labs, or Imaging that Lead to Endoscopic Evaluation Treatment for IBD
Clinical Outcome
Case 15
19 y/o female, non-smoker
Fever, nausea, vomiting, bloody diarrhea, and loss of taste and smell. Anemia Nasopharyngeal swab Ileocolonoscopy with colon biopsy showed findings consistent with ulcerative colitis
SARS-CoV2 RNA in colon/ileal and fecal samples was negative
Hydroxychloroquine 16 days Persistent anemia requiring transfusion. Enhanced inflammatory markers. Small bowel ultrasonography showed colonic thickening Oral beclomethasone dipropionate and MMX-mesalamine
Not reported
Case 26
Female, non-smoker, no past medical history
Fever, sore throat, myalgia, dyspnea, and watery diarrhea. Nasopharyngeal swab Ileocolonoscopy with colon biopsy showed findings consistent with ulcerative colitis Hydroxychloroquine, lopinavir/ritonavir, and azithromycin 5 months Bloody diarrhea followed persistent chronic watery diarrhea. Elevated fecal calprotectin Oral and topical mesalamine
Achieved remission in IBD on day 10
Case 37
55 y/o male, no past medical history
Pneumonia. No gastrointestinal symptoms High antispike antibody IgG Ileocolonoscopy with colon biopsy showed findings consistent with ulcerative colitis Steroids, azithromycin, and heparin 3 months Severe abdominal pain and chronic bloody diarrhea. Small bowel ultrasound showed colonic thickening Not reported
Not reported
Case 48
16 y/o male, no past medical history
Rhinorrhea No initial test was done. SARS-CoV-2 IgG returned positive Colonoscopy with colon biopsy showed findings consistent with Crohn disease
Immunostaining results for SARS-CoV-2 were negative
Vitamin K, methylprednisolone 7 weeks Post-infectious multisystem inflammatory syndrome in children (MIS-C). Abdominal pain, fever, diarrhea, and hematochezia. SIRS. Anemia. CT showed ileitis and colitis. Steroids, IVIG, and infliximab
Discharged on day 24
Improved at follow up visit


Various components of the renin-angiotensin system (RAS), including ACE2, are expressed in the terminal ileum and colonic mucosa.11 The expression and activity of ACE2 were found to be lower in a colonic biopsy from IBD patients with active disease as compared to IBD patients with no inflammation.12 Microarray transcriptomics for expressed RNA from colonic biopsies of IBD patients have shown that ACE2 transcript copies were 70% more in UC and 30% more in CD compared to controls;13 however, the results need to be interpreted with caution since RNA expression does not always reflect in protein expression. In the small bowel biopsies of Crohn’s disease patients, on the other hand, the expression of ACE2 was reduced.14 In animal studies, ACE2 knockout predisposes to increased susceptibility to colitis through mechanisms involving altered gut microbiota and increased expression of the pro-inflammatory molecule angiotensin II. ACE2 knockout was also found to impede the absorption of tryptophan, the precursor to niacin, the deficiency of which has been linked to intestinal inflammation.15 In fact, patients with IBD, particularly Crohn’s disease, have lower serum tryptophan levels compared to control patients with non-IBD intestinal inflammation.16

SARS-CoV-2 through its interaction with ACE2 receptors on target mucosal membranes triggers downstream effectors that perpetuate inflammatory response with increased fecal calprotectin and serum IL-6 expression.17 SARS-CoV-2 binding to the ACE2 receptors causes their internalization resulting in downregulation of the surface expression of ACE2,18–20 which in itself, can predispose to a pro-inflammatory environment through mechanisms discussed above. SARS-CoV-2 binding to ACE2 receptors results in tryptophan deficiency, reduced angiotensin 1–7 levels, and elevated angiotensin II and tumor necrosis factor-alpha expression,21 all of which trigger inflammation in the gut.

Transmembrane serine protease (TMPRSS) −2 and −4 are another class of membrane protein in the colonic mucosa, which primes the SARS-CoV-2 spike protein, allowing it to bind more efficiently to ACE2.22–24 Analysis of autopsy tissue from fatal COVID-19 cases showed that SARS-CoV-2 RNA was highly colocalized in cells expressing TMPRSS2.25 Interestingly, microarray analysis for RNA expression of ileal TMPRSS2 was 30% higher in the ileum of patients with UC as compared to controls.13,26

Besides ACE2 and TMPRSS2, several other genes, particularly those involved in innate immune signaling, are upregulated in IBD and may contribute to the pro-inflammatory state in the gut. Suarez-Farinas et al. studied the gene expression in SARS-CoV-2 infection and compared that to the genes which are differentially upregulated in inflamed regions of the gut in IBD.26 They also studied the genes that are upregulated in the peripheral blood in patients with active IBD and compared that to genes up-regulated in the blood of COVID-19–infected patients. Using both these approaches, the authors found that there is a significant overlap of the genes that are over-expressed in active IBD as well as COVID-19 infection. These genes include IL6, CXCL1/2/5, PDPN, and S100A8/A9. Several other genes that are relevant for IBD pathways were also upregulated with SARS-CoV-2 infection of murine models such as dextran sodium sulfate (DSS), TNBS, and T-cell transfer colitis model. All these upregulated genes contribute towards an environment of exaggerated immune response in the gut which is one of the characteristics of IBD pathogenesis.9

Another crucial pathophysiologic mechanism for IBD that has been explored in detail is the dysbiosis of the gut microbiota.27–29 Such dysbiosis may either deplete the anti-inflammatory microbial metabolites (e.g., acetate, propionate, and butyrate group of short-chain fatty acids) or increase the amount of pro-inflammatory metabolites.30 COVID-19 infection has also been linked to similar effects in the gut, in that SARS-COV-2 infection promotes alteration in the gut microbiota leading to dysbiosis.31,32 Real-time analysis of the fecal microbiota in hospitalized patients with COVID-19 infection showed that the infection led to persistent alteration of the gut microbiome as compared to uninfected controls, resulting in deletion of beneficial commensals and enrichment of potential pathogens.32 Such alteration in the gut microbiome can lead to altered immune pathway regulation and increased expression of inflammatory pathways.

Post-COVID conditions associated with a systemic inflammatory reaction, including gastrointestinal damage, were driven by uncontrolled immune system activation and resulted in cytokine storm.33 Initial plasma IL1B, IL1RA, IL7, IL8, IL9, IL10, basic FGF, GCSF, GMCSF, IFNγ, IP10, MCP1, MIP1A, MIP1B, PDGF, TNFα, and VEGF concentrations were higher in the patients with COVID-19 infection than in healthy adults suggesting higher expression of T-helper-1 cell response.1 Similarly, the excessive mucosal immune responses against food antigens and commensal microbiota through an increase in T-helper-1 cells, T-helper-17 cells, and regulatory T cells may contribute to the pathogenesis of IBD.9


Available evidence suggests that COVID-19 infection can cause intestinal inflammation and trigger de novo IBD, potentially through intestinal barrier leakage, changes in genetic expression, gut microbiota dysbiosis, and excessive immune responses. It should be noted that all reported cases developed de novo IBD weeks to months following acute SARS-CoV-2 infection and not during the acute phase. Because of the large number of COVID-19 infections worldwide, these two events could have occurred in close proximity coincidentally or causally. To definitively establish a causal link, a larger number of COVID-19 patients developing IBD needs to be studied, and more research into the underlying mechanism needs to be conducted. Gene expression and epigenetic modifications of the inflamed gastrointestinal tissues from the patients with post-COVID-19 de novo IBD should be tested in order to understand the molecular pathways involved in the pathogenesis as well as the distinguished subtypes of the IBD. Clinicians should be vigilant about the possibility of IBD in patients with new-onset anemia, abdominal pain, or chronic bloody diarrhea following COVID-19 infection, and this may warrant a referral to a gastroenterologist.


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Article citation: Thongtan T, Deb A, Islam S. De novo inflammatory bowel disease is a potential post-acute sequela of SARS-CoV-2 infection The Southwest Respiratory and Critical Care Chronicles 2021;9(41):35–39
From: Department of Internal Medicine, Texas Tech University Health Sciences Center, Lubbock, Texas
Submitted: 7/18/2021
Accepted: 9/26/2021
Reviewer: Drew Payne DO
Conflicts of interest: none
This work is licensed under a Creative Commons
Attribution-ShareAlike 4.0 International License.

* Co-first author.