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Article: Antibiotics create a shift from mutualism to competition in human gut communities with a longer-lasting impact on fungi than bacteria

TitleAntibiotics create a shift from mutualism to competition in human gut communities with a longer-lasting impact on fungi than bacteria
Authors
Keywordsadult
aged
antibiotic therapy
antimicrobial activity
bacterial gene
Issue Date2020
PublisherBioMed Central Ltd. The Journal's web site is located at http://www.microbiomejournal.com/
Citation
Microbiome, 2020, v. 8 n. 1, p. article no. 133 How to Cite?
AbstractBackground: Antibiotic treatment has a well-established detrimental effect on the gut bacterial composition, but effects on the fungal community are less clear. Bacteria in the lumen of the gastrointestinal tract may limit fungal colonization and invasion. Antibiotic drugs targeting bacteria are therefore seen as an important risk factor for fungal infections and induced allergies. However, antibiotic effects on gut bacterial-fungal interactions, including disruption and resilience of fungal community compositions, were not investigated in humans. We analysed stool samples collected from 14 healthy human participants over 3 months following a 6-day antibiotic administration. We integrated data from shotgun metagenomics, metatranscriptomics, metabolomics, and fungal ITS2 sequencing. Results: While the bacterial community recovered mostly over 3 months post treatment, the fungal community was shifted from mutualism at baseline to competition. Half of the bacterial-fungal interactions present before drug intervention had disappeared 3 months later. During treatment, fungal abundances were associated with the expression of bacterial genes with functions for cell growth and repair. By extending the metagenomic species approach, we revealed bacterial strains inhibiting the opportunistic fungal pathogen Candida albicans. We demonstrated in vitro how C. albicans pathogenicity and host cell damage might be controlled naturally in the human gut by bacterial metabolites such as propionate or 5-dodecenoate. Conclusions: We demonstrated that antibacterial drugs have long-term influence on the human gut mycobiome. While bacterial communities recovered mostly 30-days post antibacterial treatment, the fungal community was shifted from mutualism towards competition.
Persistent Identifierhttp://hdl.handle.net/10722/287287
ISSN
2023 Impact Factor: 13.8
2023 SCImago Journal Rankings: 3.802
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorSeelbinder, B-
dc.contributor.authorCHEN, J-
dc.contributor.authorBrunke, S-
dc.contributor.authorVazquez-Uribe, R-
dc.contributor.authorSanthaman, R-
dc.contributor.authorMeyer, AC-
dc.contributor.authorde Oliveira Lino, FS-
dc.contributor.authorCHAN, KF-
dc.contributor.authorLoos, D-
dc.contributor.authorImamovic, L-
dc.contributor.authorTsang, CC-
dc.contributor.authorLam, RPK-
dc.contributor.authorSridhar, S-
dc.contributor.authorKang, K-
dc.contributor.authorHube, B-
dc.contributor.authorWoo, PCY-
dc.contributor.authorSommer, MOA-
dc.contributor.authorPanagiotou, G-
dc.date.accessioned2020-09-22T02:58:42Z-
dc.date.available2020-09-22T02:58:42Z-
dc.date.issued2020-
dc.identifier.citationMicrobiome, 2020, v. 8 n. 1, p. article no. 133-
dc.identifier.issn2049-2618-
dc.identifier.urihttp://hdl.handle.net/10722/287287-
dc.description.abstractBackground: Antibiotic treatment has a well-established detrimental effect on the gut bacterial composition, but effects on the fungal community are less clear. Bacteria in the lumen of the gastrointestinal tract may limit fungal colonization and invasion. Antibiotic drugs targeting bacteria are therefore seen as an important risk factor for fungal infections and induced allergies. However, antibiotic effects on gut bacterial-fungal interactions, including disruption and resilience of fungal community compositions, were not investigated in humans. We analysed stool samples collected from 14 healthy human participants over 3 months following a 6-day antibiotic administration. We integrated data from shotgun metagenomics, metatranscriptomics, metabolomics, and fungal ITS2 sequencing. Results: While the bacterial community recovered mostly over 3 months post treatment, the fungal community was shifted from mutualism at baseline to competition. Half of the bacterial-fungal interactions present before drug intervention had disappeared 3 months later. During treatment, fungal abundances were associated with the expression of bacterial genes with functions for cell growth and repair. By extending the metagenomic species approach, we revealed bacterial strains inhibiting the opportunistic fungal pathogen Candida albicans. We demonstrated in vitro how C. albicans pathogenicity and host cell damage might be controlled naturally in the human gut by bacterial metabolites such as propionate or 5-dodecenoate. Conclusions: We demonstrated that antibacterial drugs have long-term influence on the human gut mycobiome. While bacterial communities recovered mostly 30-days post antibacterial treatment, the fungal community was shifted from mutualism towards competition.-
dc.languageeng-
dc.publisherBioMed Central Ltd. The Journal's web site is located at http://www.microbiomejournal.com/-
dc.relation.ispartofMicrobiome-
dc.rightsMicrobiome. Copyright © BioMed Central Ltd.-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.subjectadult-
dc.subjectaged-
dc.subjectantibiotic therapy-
dc.subjectantimicrobial activity-
dc.subjectbacterial gene-
dc.titleAntibiotics create a shift from mutualism to competition in human gut communities with a longer-lasting impact on fungi than bacteria-
dc.typeArticle-
dc.identifier.emailTsang, CC: microbioct@connect.hku.hk-
dc.identifier.emailLam, RPK: lampkrex@hku.hk-
dc.identifier.emailSridhar, S: sid8998@hku.hk-
dc.identifier.emailWoo, PCY: pcywoo@hkucc.hku.hk-
dc.identifier.emailPanagiotou, G: gipa@hku.hk-
dc.identifier.authorityTsang, CC=rp02492-
dc.identifier.authorityLam, RPK=rp02015-
dc.identifier.authoritySridhar, S=rp02249-
dc.identifier.authorityWoo, PCY=rp00430-
dc.identifier.authorityPanagiotou, G=rp01725-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1186/s40168-020-00899-6-
dc.identifier.pmid32919472-
dc.identifier.pmcidPMC7488854-
dc.identifier.scopuseid_2-s2.0-85090872814-
dc.identifier.hkuros314588-
dc.identifier.volume8-
dc.identifier.issue1-
dc.identifier.spagearticle no. 133-
dc.identifier.epagearticle no. 133-
dc.identifier.isiWOS:000570734000001-
dc.publisher.placeUnited Kingdom-
dc.identifier.issnl2049-2618-

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