High-throughput clone library analysis of the mucosa-associated microbiota reveals dysbiosis and differences between inflamed and non-inflamed regions of the intestine in inflammatory bowel disease

BMC Microbiology

Research Article

Barry N Hudspith¹  Jonathan Brostoff¹  Jeremy D Sanderson¹  Gareth C Parkes¹  Neil Rayment¹  Liljana Petrovska²  Julian Parkhill³  Gordon Dougan³  Alan W Walker³  Carol Churcher³ 

[1] King's College London, Biomedical & Health Sciences, Dept. of Nutrition and Dietetics, Franklin-Wilkins Building, 4th floor, 150 Stamford Street, SE1 8NH, London, UK;King's College London, Biomedical & Health Sciences, Dept. of Nutrition and Dietetics, Franklin-Wilkins Building, 4th floor, 150 Stamford Street, SE1 8NH, London, UK;Department of Bacteriology, Veterinary Laboratories Agency (Weybridge), Woodham Lane, KT15 3NB, Addlestone, Surrey, UK;Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, CB10 1SA, Hinxton, Cambridge, UK;

关键词: Inflammatory Bowel Disease;    Ulcerative Colitis;    Clone Library;    Ulcerative Colitis Patient;    Mycobacterium Avium Subspecies Paratuberculosis;   

DOI  :  10.1186/1471-2180-11-7

 received in 2010-08-20, accepted in 2011-01-10,  发布年份 2011

来源: Springer

【 摘 要 】

BackgroundThe gut microbiota is thought to play a key role in the development of the inflammatory bowel diseases Crohn's disease (CD) and ulcerative colitis (UC). Shifts in the composition of resident bacteria have been postulated to drive the chronic inflammation seen in both diseases (the "dysbiosis" hypothesis). We therefore specifically sought to compare the mucosa-associated microbiota from both inflamed and non-inflamed sites of the colon in CD and UC patients to that from non-IBD controls and to detect disease-specific profiles.ResultsPaired mucosal biopsies of inflamed and non-inflamed intestinal tissue from 6 CD (n = 12) and 6 UC (n = 12) patients were compared to biopsies from 5 healthy controls (n = 5) by in-depth sequencing of over 10,000 near full-length bacterial 16S rRNA genes. The results indicate that mucosal microbial diversity is reduced in IBD, particularly in CD, and that the species composition is disturbed. Firmicutes were reduced in IBD samples and there were concurrent increases in Bacteroidetes, and in CD only, Enterobacteriaceae. There were also significant differences in microbial community structure between inflamed and non-inflamed mucosal sites. However, these differences varied greatly between individuals, meaning there was no obvious bacterial signature that was positively associated with the inflamed gut.ConclusionsThese results may support the hypothesis that the overall dysbiosis observed in inflammatory bowel disease patients relative to non-IBD controls might to some extent be a result of the disturbed gut environment rather than the direct cause of disease. Nonetheless, the observed shifts in microbiota composition may be important factors in disease maintenance and severity.

【 授权许可】

CC BY   
© Walker et al; licensee BioMed Central Ltd. 2011