Intestinal mycobiome associated with diagnosis of inflammatory bowel disease based on tissue biopsies
Language English Country England, Great Britain Media print
Document type Journal Article
PubMed
34850076
DOI
10.1093/mmy/myab076
PII: 6438442
Knihovny.cz E-resources
- Keywords
- Crohn's disease, FFPE samples, NGS, mycobiome, ulcerative colitis,
- MeSH
- Ascomycota * MeSH
- Biopsy MeSH
- Adult MeSH
- Inflammatory Bowel Diseases * diagnosis MeSH
- Middle Aged MeSH
- Humans MeSH
- Young Adult MeSH
- Mycobiome * MeSH
- Aged MeSH
- Intestines MeSH
- Check Tag
- Adult MeSH
- Middle Aged MeSH
- Humans MeSH
- Young Adult MeSH
- Male MeSH
- Aged MeSH
- Female MeSH
- Publication type
- Journal Article MeSH
UNLABELLED: 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.
Dairy Research Institute Ltd Ke Dvoru 21a Prague 160 00 Czech Republic
Department of Molecular Genetics Bioptická Laboratoř s r o 326 00 Pilsen Czech Republic
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