Inter-kingdom relationships in Crohn's disease explored using a multi-omics approach

Frau, Alessandra ORCID: 0000-0002-6885-1042, Ijaz, Umer Z, Slater, Rachael, Jonkers, Daisy, Penders, John, Campbell, Barry J ORCID: 0000-0002-7407-012X, Kenny, John G, Hall, Neil, Lenzi, Luca ORCID: 0000-0003-2697-691X, Burkitt, Michael D
et al (show 3 more authors) (2021) Inter-kingdom relationships in Crohn's disease explored using a multi-omics approach. GUT MICROBES, 13 (1). 1930871-.

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The etiology of Crohn's disease (CD) is multifactorial. Bacterial and fungal microbiota are involved in the onset and/or progression of the disease. A bacterial dysbiosis in CD patients is accepted; however, less is known about the mycobiome and the relationships between the two communities. We investigated the interkingdom relationships, their metabolic consequences, and the changes in the fungal community during relapse and remission in CD.Two cohorts were evaluated: a British cohort (n = 63) comprising CD and ulcerative colitis patients, and controls. The fungal and bacterial communities of biopsy and fecal samples were analyzed, with the fecal volatiles; datasets were also integrated; and a Dutch cohort (n = 41) comprising CD patients and healthy controls was analyzed for stability of the gut mycobiome.A dysbiosis of the bacterial community was observed in biopsies and stool. Results suggest <i>Bacteroides</i> is likely key in CD and may modulate <i>Candida</i> colonization. A dysbiosis of the fungal community was observed only in the Dutch cohort; <i>Malassezia</i> and <i>Candida</i> were increased in patients taking immunosuppressants. Longitudinal analysis showed an increase in <i>Cyberlindnera</i> in relapse. <i>Saccharomyces</i> was dominant in all fecal samples, but not in biopsies, some of which did not yield fungal reads; amino acid degradation was the main metabolic change associated with CD and both bacteria and fungi might be implicated.We have shown that <i>Bacteroides</i> and yeasts may play a role in CD; understanding their role and relationship in the disease would shed new light on the development and treatment of CD.

Item Type: Article
Uncontrolled Keywords: Crohn's disease, metabolome, microbiome, mycobiome, volatile organic compound
Divisions: Faculty of Health and Life Sciences
Faculty of Health and Life Sciences > Institute of Infection, Veterinary and Ecological Sciences
Faculty of Health and Life Sciences > Institute of Systems, Molecular and Integrative Biology
Depositing User: Symplectic Admin
Date Deposited: 27 Jul 2021 12:59
Last Modified: 18 Jan 2023 21:35
DOI: 10.1080/19490976.2021.1930871
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