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Intestinal mycobiome associated with diagnosis of inflammatory bowel disease based on tissue biopsies
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SYSNO ASEP 0555931 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Intestinal mycobiome associated with diagnosis of inflammatory bowel disease based on tissue biopsies Author(s) Cimická, Jana (FGU-C) ORCID
Riegert, J. (CZ)
Kavková, M. (CZ)
Černá, K. (CZ)Number of authors 4 Article number myab076 Source Title Medical Mycology. - : Oxford University Press - ISSN 1369-3786
Roč. 60, č. 1 (2022)Number of pages 10 s. Language eng - English Country GB - United Kingdom Keywords mycobiome ; FFPE samples ; ulcerative colitis ; Crohn's disease ; NGS OECD category Microbiology Method of publishing Limited access Institutional support FGU-C - RVO:67985823 UT WOS 000763632600001 EID SCOPUS 85123651543 DOI 10.1093/mmy/myab076 Annotation Analysis of mycobiome from formalin-fixed, paraffin-embedded (FFPE) biopsies should preferentially detect only fungi which are actually present in the intestine wall, in contrast to stool samples, which are limited by the diet composition. Next generation sequencing provides the advantage of analyzing many species from a single sample. Consequently, canonical correspondence analysis divided fungal genera present in FFPE intestinal tissues into three well-defined experimental groups (negative controls NC, Crohn's disease CD, ulcerative colitis UC). Simultaneously, the analysis showed that particular fungal genera are associated with these experimental groups and several fungal genera occurred in all experimental groups equally. Our results also showed a noticeable increase of Ascomycota proportion from NC, through CD to UC. Fungal genera Malassezia, Cladosporium and Toninia occurred in all experimental groups assuming that they are common components of the intestinal mycobiome. Other fungal genera found only in the NC experimental group were non-pathogenic and might bring some benefits. In contrast, CD and UC samples were characterized by an accumulation of genera with inhibitive effects on growth of other fungal genera and the presence of opportunistic pathogens. Furthermore, a decrease in the fungal genus Malassezia in inflammatory tissues was observed, Specifically, the UC experimental group showed a connection between the presence of Candida and seven time's lower amounts of Malassezia (compared to amounts found in NC). The CD experimental group was characterized by the simultaneous presence of Engyodontium album with Lecanicillium, and indicates a possible pathogenic effect of Ramularia in disease development. Lay summary Mycobiome analysis of formalin-fixed and paraffin-embedded biopsies may highlight actual fungal genera composition in the intestinal wall. Interestingly, experimental groups of Crohn's disease and ulcerative colitis clearly differed by structure of their mycobiomes. Workplace Institute of Physiology Contact Lucie Trajhanová, lucie.trajhanova@fgu.cas.cz, Tel.: 241 062 400 Year of Publishing 2023 Electronic address https://doi.org/10.1093/mmy/myab076
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