Fecal microbiome of patients with ulcerative colitis reflects their phenotype and inflammatory level
Abstract
Abstract Inflammatory bowel diseases affect ever-increasing numbers of individuals worldwide. Alterations of the intestinal microbiome were reported for Crohn’s disease and at relapse in Ulcerative Colitis (UC); they were not clearly detected in UC at remission. Here we report the characterization of the microbiome by quantitative metagenomics in a cohort of 121 individuals, composed of 65 UC adult patients in remission and 56 healthy controls. A cross-sectional comparison revealed substantial microbiome differences, patients in remission having lower microbiome richness and paucity of the Ruminococcus species driven enterotype. The observed microbiome alterations allowed robust classification of patients by intestinal species abundance, yielding an area under the curve (AUC) of 0.87 in a Receiver-Operator Characteristic (ROC) analysis. Loss of richness was linked to an aggressive UC phenotype and to the importance of past relapses; it was associated with a worse IBD quality of life score (IBDQ-36). Unexpectedly, onset of inflammatory bouts, as assessed by white blood cell count and fecal calprotectin levels, was associated with higher richness; in a longitudinal study of patients at high risk of disease flare, we observed a link between increasing gut microbiome richness over time and calprotectin level, in turn related to clinical inflammatory response and relapse.
Article Details
Authors (100)
Nicolas Maziers
Emmanuelle Le Chatelier
Florian Plaza Oñate
Sébastien Fromentin
Florence Thirion
Nicolas Pons
Natalia Borruel
Francesc Casellas
Antonio Torrejon
Virginia Robles-Alonso
Chaysavanh Manichanh
Encarna Varela
Muriel Derrien
Patrick Veiga
Raish Oozeer
Shinichi Sunagawa
Vincent Lombard
Nicolas Terrapon
Bernard Henrissat
Mathieu Almeida
Maria Antolin
François Artiguenave
Manimozhiyan Arumugam
Jean-Michel Batto
Marcelo Bertalan
Hervé Blottière
Peer Bork
Christian Brechot
Thomas Bruls
Søren Brunak
Kristoffer S. Burgdorf
Paul Igor Costea
Antonella Cultrone
Willem M. de Vos
Christine Delorme
Gérard Denariaz
Rozenn Dervyn
Doré Doré
Gwen Falony
Qiang Feng
Department of Biomedical Engineering
Kristoffer Forslund
Niels Grapup
Éric Guédon
Valborg Gudmundsdottir
Florence Haimet
Torben Hansen
Rajna Hercog
Falk Hildebrand
Alexandre Jamet
Torben Jørgensen
Agnieska S. Junker
Catherine Juste
Ghalia Khaci
Sean Kennedy
Michiel Kleerebezem
Jan Knoll
Karsten Kristiansen
Jens Roat Kultima
Séverine Layec
Denis Le Paslier
Marion Leclerc
Pierre Leonard
Florence Levenez
Junhua Li
State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment
Christine M’Rini
Emmanuelle Maguin
Daniel R. Mende
Alexandre Mérieux
Trine Nielsen
Henrik Bjørn Nielsen
Julian Parkhill
Helle Krogh Pedersen
Oluf Pedersen
Eric Pelletier
Edi Prifti
Junjie Qin
Jeroen Raes
Simon Rasmussen
Pierre Renault
Maria Rescigno
Nicolás Sánchez
Thomas Sicheritz-Ponten
Julien Tap
Sebastian Tims
Keith Turner
Maarten van de Guchte
Johan E. T. van Hylckama Vlieg
Gaetana Vandemeulebrouck
Henrik Vestergaard
Sara Vieira-Silva
Anita Yvonne Voigt
Jian Wang
Jun Wang
Jean Weissenbach
Yohanan Winogradski
Takuji Yamada
Huanming Yang
BGI Research, Shenzhen, China.
Erwin G. Zoetendal
Francisco Guarner
S. Dusko Ehrlich