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Mucosa-associated Faecalibacterium prausnitzii phylotype richness is reduced in patients with inflammatory bowel disease

Faecalibacterium prausnitzii depletion in intestinal diseases has been extensively reported, but little is known about intraspecies variability. This work aims to determine if subjects with gastrointestinal disease host mucosa-associated F. prausnitzii populations different from those hosted by healthy individuals. A new species-specific PCR-denaturing gradient gel electrophoresis (PCR-DGGE) method targeting the 16S rRNA gene was developed to fingerprint F. prausnitzii populations in biopsy specimens from 31 healthy control (H) subjects and 36 Crohn’s disease (CD), 23 ulcerative colitis (UC), 6 irritable bowel syndrome (IBS), and 22 colorectal cancer (CRC) patients. The richness of F. prausnitzii subtypes was lower in inflammatory bowel disease (IBD) patients than in H subjects. The most prevalent operational taxonomic units (OTUs) consisted of four phylotypes (OTUs with a 99% 16S rRNA gene sequence similarity [OTU99]), which were shared by all groups of patients. Their distribution and the presence of some disease-specific F. prausnitzii phylotypes allowed us to differentiate the populations in IBD and CRC patients from that in H subjects. At the level of a minimum similarity of 97% (OTU97), two phylogroups accounted for 98% of the sequences. Phylogroup I was found in 87% of H subjects but in under 50% of IBD patients (P = 0.003). In contrast, phylogroup II was detected in >75% of IBD patients and in only 52% of H subjects (P = 0.005). This study reveals that even though the main members of the F. prausnitzii population are present in both H subjects and individuals with gut diseases, richness is reduced in the latter and an altered phylotype distribution exists between diseases. This approach may serve as a basis for addressing the suitability of F. prausnitzii phylotypes to be quantified as a putative biomarker of disease and depicting the importance of the loss of these subtypes in disease pathogenesis

El Títol de la versió postprint o Accepted Manuscript de l’article és ’Mucosa-associated Faecalibacterium prausnitzii phylotype richness is reduced in inflammatory bowel disease patients’

This work was partially funded by the Spanish Ministry of Education and Science through project SAF2010-15896. Mireia Lopez-Siles was the recipient of an FI grant from the Generalitat de Catalunya (2010FI_B2 00135), which receives support from the European Union Commission. Harry J. Flint and Sylvia H. Duncan acknowledge support from the Food, Land, and People program of the Scottish government

© Applied and Environmental Microbiology, 2015, vol. 81, núm. 21, p. 7582-7592

American Society for Microbiology

Author: López Siles, Mireia
Martínez Medina, Margarita
Abellà Ametller, Carles
Busquets Casals, David
Sàbat Mir, Míriam
Duncan, Sylvia H.
Aldeguer, Xavier
Flint, Harry J.
Garcia-Gil, L. J.
Date: 2015
Abstract: Faecalibacterium prausnitzii depletion in intestinal diseases has been extensively reported, but little is known about intraspecies variability. This work aims to determine if subjects with gastrointestinal disease host mucosa-associated F. prausnitzii populations different from those hosted by healthy individuals. A new species-specific PCR-denaturing gradient gel electrophoresis (PCR-DGGE) method targeting the 16S rRNA gene was developed to fingerprint F. prausnitzii populations in biopsy specimens from 31 healthy control (H) subjects and 36 Crohn’s disease (CD), 23 ulcerative colitis (UC), 6 irritable bowel syndrome (IBS), and 22 colorectal cancer (CRC) patients. The richness of F. prausnitzii subtypes was lower in inflammatory bowel disease (IBD) patients than in H subjects. The most prevalent operational taxonomic units (OTUs) consisted of four phylotypes (OTUs with a 99% 16S rRNA gene sequence similarity [OTU99]), which were shared by all groups of patients. Their distribution and the presence of some disease-specific F. prausnitzii phylotypes allowed us to differentiate the populations in IBD and CRC patients from that in H subjects. At the level of a minimum similarity of 97% (OTU97), two phylogroups accounted for 98% of the sequences. Phylogroup I was found in 87% of H subjects but in under 50% of IBD patients (P = 0.003). In contrast, phylogroup II was detected in >75% of IBD patients and in only 52% of H subjects (P = 0.005). This study reveals that even though the main members of the F. prausnitzii population are present in both H subjects and individuals with gut diseases, richness is reduced in the latter and an altered phylotype distribution exists between diseases. This approach may serve as a basis for addressing the suitability of F. prausnitzii phylotypes to be quantified as a putative biomarker of disease and depicting the importance of the loss of these subtypes in disease pathogenesis
El Títol de la versió postprint o Accepted Manuscript de l’article és ’Mucosa-associated Faecalibacterium prausnitzii phylotype richness is reduced in inflammatory bowel disease patients’
This work was partially funded by the Spanish Ministry of Education and Science through project SAF2010-15896. Mireia Lopez-Siles was the recipient of an FI grant from the Generalitat de Catalunya (2010FI_B2 00135), which receives support from the European Union Commission. Harry J. Flint and Sylvia H. Duncan acknowledge support from the Food, Land, and People program of the Scottish government
Format: application/pdf
ISSN: 0099-2240 (versió paper)
1098-5336 (versió electrònica)
Document access: http://hdl.handle.net/10256/11686
Language: eng
Publisher: American Society for Microbiology
Collection: MICINN/PN 2011-2013/SAF2010-15896
Versió postprint del document publicat a: http://dx.doi.org/10.1128/AEM.02006-15
Articles publicats (D-B)
Is part of: © Applied and Environmental Microbiology, 2015, vol. 81, núm. 21, p. 7582-7592
Rights: Tots els drets reservats
Subject: Marcadors bioquímics
Biochemical markers
Intestins -- Inflamació
Inflammatory bowel diseases
Title: Mucosa-associated Faecalibacterium prausnitzii phylotype richness is reduced in patients with inflammatory bowel disease
Type: info:eu-repo/semantics/article
Repository: DUGiDocs

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