Microbiota-based markers predictive of development of Clostridioides difficile infection.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
14 04 2021
14 04 2021
Historique:
received:
11
06
2020
accepted:
03
03
2021
entrez:
15
4
2021
pubmed:
16
4
2021
medline:
12
5
2021
Statut:
epublish
Résumé
Antibiotic-induced modulation of the intestinal microbiota can lead to Clostridioides difficile infection (CDI), which is associated with considerable morbidity, mortality, and healthcare-costs globally. Therefore, identification of markers predictive of CDI could substantially contribute to guiding therapy and decreasing the infection burden. Here, we analyze the intestinal microbiota of hospitalized patients at increased CDI risk in a prospective, 90-day cohort-study before and after antibiotic treatment and at diarrhea onset. We show that patients developing CDI already exhibit significantly lower diversity before antibiotic treatment and a distinct microbiota enriched in Enterococcus and depleted of Ruminococcus, Blautia, Prevotella and Bifidobacterium compared to non-CDI patients. We find that antibiotic treatment-induced dysbiosis is class-specific with beta-lactams further increasing enterococcal abundance. Our findings, validated in an independent prospective patient cohort developing CDI, can be exploited to enrich for high-risk patients in prospective clinical trials, and to develop predictive microbiota-based diagnostics for management of patients at risk for CDI.
Identifiants
pubmed: 33854066
doi: 10.1038/s41467-021-22302-0
pii: 10.1038/s41467-021-22302-0
pmc: PMC8047037
doi:
Substances chimiques
Anti-Bacterial Agents
0
Biomarkers
0
Types de publication
Journal Article
Multicenter Study
Observational Study
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
2241Investigateurs
Annemarie Engbers
(A)
Marieke de Regt
(M)
Lena M Biehl
(LM)
Oliver A Cornely
(OA)
Nathalie Jazmati
(N)
Marie-Noelle Bouverne
(MN)
Frederique Sablier-Gallis
(F)
France Mentré
(F)
Uta Merle
(U)
Andreas Stallmach
(A)
Jan Rupp
(J)
Johannes Bogner
(J)
Christoph Lübbert
(C)
Gerda Silling
(G)
Oliver Witzke
(O)
Achilleas Gikas
(A)
Sofia Maraki
(S)
George Daikos
(G)
Sotirios Tsiodras
(S)
Athanasios Skoutelis
(A)
Helen Sambatakou
(H)
Miquel Pujol
(M)
M Angeles Dominguez-Luzon
(MA)
Jose M Aguado
(JM)
Emilio Bouza
(E)
Javier Cobo
(J)
Jesús Rodríguez-Baño
(J)
Benito Almirante
(B)
Julian de la Torre Cisneros
(J)
Simin A Florescu
(SA)
Maria Nica
(M)
Andrei Vata
(A)
Adriana Hristea
(A)
Mihaela Lupse
(M)
Delia Herghea
(D)
Deborah Postil
(D)
Olivier Barraud
(O)
Jean-Michel Molina
(JM)
Victoire De Lastours
(V)
Thomas Guimard
(T)
Jean-Philippe Talarmin
(JP)
Xavier Duval
(X)
Louis Bernard
(L)
Odile Launay
(O)
Références
Antimicrob Agents Chemother. 2013 May;57(5):2326-32
pubmed: 23478961
mBio. 2014 Apr 22;5(2):e00889
pubmed: 24757212
PLoS Biol. 2008 Nov 18;6(11):e280
pubmed: 19018661
Front Microbiol. 2016 May 26;7:788
pubmed: 27303380
Nucleic Acids Res. 2007;35(21):7188-96
pubmed: 17947321
N Engl J Med. 2011 Nov 3;365(18):1693-703
pubmed: 22047560
Microbiome. 2013 Jun 28;1(1):18
pubmed: 24450844
Genome Biol. 2011 Jun 24;12(6):R60
pubmed: 21702898
ISME J. 2007 May;1(1):56-66
pubmed: 18043614
J Infect Dis. 2010 Dec 15;202(12):1877-84
pubmed: 21050115
J Clin Microbiol. 2013 Sep;51(9):2884-92
pubmed: 23804381
Clin Microbiol Rev. 2010 Jul;23(3):529-49
pubmed: 20610822
Int J Syst Evol Microbiol. 2014 May;64(Pt 5):1600-1616
pubmed: 24480908
Appl Environ Microbiol. 2013 Sep;79(17):5112-20
pubmed: 23793624
Gigascience. 2017 Feb 1;6(2):1-10
pubmed: 28369460
PLoS One. 2019 Feb 20;14(2):e0212626
pubmed: 30785932
Nat Microbiol. 2018 Nov;3(11):1255-1265
pubmed: 30349083
Nat Rev Gastroenterol Hepatol. 2011 Jan;8(1):17-26
pubmed: 21119612
BMC Bioinformatics. 2016 Apr 29;17(1):192
pubmed: 27130479
N Engl J Med. 2014 Mar 27;370(13):1198-208
pubmed: 24670166
Int J Antimicrob Agents. 2016 Jul;48(1):1-10
pubmed: 27216385
Clin Microbiol Infect. 2016 Aug;22 Suppl 4:S63-81
pubmed: 27460910
Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4554-61
pubmed: 20847294
Appl Environ Microbiol. 2009 Dec;75(23):7537-41
pubmed: 19801464
Nat Commun. 2021 Apr 14;12(1):2240
pubmed: 33854064
Nat Rev Microbiol. 2012 Mar 16;10(4):266-78
pubmed: 22421879
Genome Med. 2016 Apr 27;8(1):47
pubmed: 27121861
Anaerobe. 2015 Aug;34:1-7
pubmed: 25817005
Nat Methods. 2013 Oct;10(10):996-8
pubmed: 23955772
Microbiology (Reading). 2010 Nov;156(Pt 11):3216-3223
pubmed: 20705661
Appl Environ Microbiol. 2007 Aug;73(16):5261-7
pubmed: 17586664
Appl Environ Microbiol. 2015 Mar;81(5):1573-84
pubmed: 25527546
Microbes Infect. 2016 Jan;18(1):30-8
pubmed: 26383014
Aliment Pharmacol Ther. 2016 Oct;44(7):715-727
pubmed: 27481036
mBio. 2015 Nov 10;6(6):e01693-15
pubmed: 26556275
Genome Res. 2009 Sep;19(9):1639-45
pubmed: 19541911
Gut Pathog. 2018 Jul 09;10:28
pubmed: 30002733
Braz J Microbiol. 2017 Jul - Sep;48(3):489-492
pubmed: 28389190
Clin Infect Dis. 2005 Nov 1;41(9):1254-60
pubmed: 16206099
Clin Microbiol Rev. 2019 Jan 30;32(2):
pubmed: 30700430
Sci Transl Med. 2018 Oct 24;10(464):
pubmed: 30355801
Scand J Gastroenterol. 1997 Sep;32(9):920-4
pubmed: 9299672
J Comput Biol. 2012 May;19(5):455-77
pubmed: 22506599
mBio. 2014 May 06;5(3):e01021-14
pubmed: 24803517
PeerJ. 2017 Jan 11;5:e2836
pubmed: 28097056
J Antimicrob Chemother. 2014 Apr;69(4):881-91
pubmed: 24324224
Infect Immun. 2012 Jan;80(1):62-73
pubmed: 22006564
Nat Rev Dis Primers. 2016 Apr 07;2:16020
pubmed: 27158839
Clin Infect Dis. 2008 Jan 15;46 Suppl 1:S19-31
pubmed: 18177218
Genome Biol. 2019 Nov 28;20(1):257
pubmed: 31779668
Methods Ecol Evol. 2013 Dec 1;4(12):
pubmed: 24358444
Anaerobe. 2004 Jun;10(3):179-84
pubmed: 16701516
PLoS One. 2014 Apr 18;9(4):e95476
pubmed: 24748167