Reference : Altered infective competence of the human gut microbiome in COVID-19

	Document type :	Scientific journals : Article
	Discipline(s) :	Life sciences : Environmental sciences & ecology Life sciences : Microbiology Human health sciences : Immunology & infectious disease
	Focus Areas :	Systems Biomedicine
	To cite this reference:	http://hdl.handle.net/10993/54844

Title :	Altered infective competence of the human gut microbiome in COVID-19
Language :	English
Author, co-author :	de Nies, Laura [> >]
	Galata, Valentina [> >]
	Martin-Gallausiaux, Camille [> >]
	Despotovic, Milena [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Systems Ecology]
	Busi, Susheel Bhanu [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Systems Ecology]
	Snoeck, Chantal J. []
	Delacour, Lea [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > LCSB Operations]
	Budagavi, Deepthi Poornima [> >]
	Laczny, Cedric Christian [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Systems Ecology]
	Habier, Janine [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Scientific Central Services]
	Lupu, Paula-Cristina [> >]
	Halder, Rashi [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Scientific Central Services]
	Fritz, Joëlle V. [> >]
	Marques, Tainá [University of Luxembourg > > >]
	Sandt, Estelle [> >]
	O'Sullivan, Marc Paul [> >]
	Ghosh, Soumyabrata [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core]
	Satagopam, Venkata [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core]
	Consortium, CON-Vince [> >]
	Krüger, Rejko [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Translational Neuroscience]
	Fagherazzi, Guy [Luxembourg Institute of Health - LIH]
	Ollert, Markus [Luxembourg Institute of Health - LIH]
	He, Feng [Luxembourg Institute of Health - LIH]
	May, Patrick [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core]
	Wilmes, Paul [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Systems Ecology]
Publication date :	9-Mar-2023
Journal title :	Microbiome
Volume :	11
Issue/season :	1
Pages :	46
Peer reviewed :	Yes
Audience :	International
ISSN :	2049-2618
Keywords :	[en] COVID-19 ; Gut microbiome ; Metagenomics ; Metatranscriptomics ; SARS-CoV-2
Abstract :	[en] BACKGROUND: Infections with SARS-CoV-2 have a pronounced impact on the gastrointestinal tract and its resident microbiome. Clear differences between severe cases of infection and healthy individuals have been reported, including the loss of commensal taxa. We aimed to understand if microbiome alterations including functional shifts are unique to severe cases or a common effect of COVID-19. We used high-resolution systematic multi-omic analyses to profile the gut microbiome in asymptomatic-to-moderate COVID-19 individuals compared to a control group. RESULTS: We found a striking increase in the overall abundance and expression of both virulence factors and antimicrobial resistance genes in COVID-19. Importantly, these genes are encoded and expressed by commensal taxa from families such as Acidaminococcaceae and Erysipelatoclostridiaceae, which we found to be enriched in COVID-19-positive individuals. We also found an enrichment in the expression of a betaherpesvirus and rotavirus C genes in COVID-19-positive individuals compared to healthy controls. CONCLUSIONS: Our analyses identified an altered and increased infective competence of the gut microbiome in COVID-19 patients. Video Abstract.
Research centres :	Luxembourg Centre for Systems Biomedicine (LCSB): Bioinformatics Core (R. Schneider Group) ; Luxembourg Centre for Systems Biomedicine (LCSB): Eco-Systems Biology (Wilmes Group) ; Luxembourg Centre for Systems Biomedicine (LCSB): Clinical & Experimental Neuroscience (Krüger Group)
Funders :	Fonds National de la Recherche - FnR ; Fondation André Losch ; FEDER ; SBB ; ERC
Name of the research project :	Co-infectomics
Target :	Researchers ; Professionals ; Students ; General public
Permalink :	http://hdl.handle.net/10993/54844
DOI :	10.1186/s40168-023-01472-7
Other URL :	https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-023-01472-7
FnR project :	FnR ; FNR14716281 > Rejko Krueger > CON-VINCE > > 01/04/2020 > 31/12/2021 > 2020

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