Faecal microbiota profile of Crohn’s disease determined by terminal restriction fragment length polymorphism analysis
Article first published online: 26 SEP 2008
© 2008 The Authors. Journal compilation © 2008 Blackwell Publishing Ltd
Alimentary Pharmacology & Therapeutics
Volume 29, Issue 1, pages 75–82, January 2009
How to Cite
ANDOH, A., TSUJIKAWA, T., SASAKI, M., MITSUYAMA, K., SUZUKI, Y., MATSUI, T., MATSUMOTO, T., BENNO, Y. and FUJIYAMA, Y. (2009), Faecal microbiota profile of Crohn’s disease determined by terminal restriction fragment length polymorphism analysis. Alimentary Pharmacology & Therapeutics, 29: 75–82. doi: 10.1111/j.1365-2036.2008.03860.x
- Issue published online: 16 DEC 2008
- Article first published online: 26 SEP 2008
- Publication data Submitted 26 August 2008 First decision 20 September 2008 Resubmitted 22 September 2008 Accepted 23 September 2008 Epub Accepted Article 26 September 2008
Background Terminal restriction fragment length polymorphism (T-RFLP) analyses are powerful tools to assess the diversity of complex microbiota. T-RFLPs permit rapid comparisons of microbiota from many samples.
Aim To perform T-RFLP analyses of faecal microbiota in Crohn’s disease (CD) patients to investigate potential alterations in faecal microbial communities and furthermore to analyse the effects of elemental diet on faecal microbiota profiles.
Methods Thirty-four patients with CD and 30 healthy individuals were enrolled in the study. DNA was extracted from stool samples and 16S rRNA genes were amplified by PCR. PCR products were digested with BslI restriction enzymes and T-RF lengths were determined.
Results Faecal microbial communities were classified into seven clusters. Almost all healthy individuals (28/30) were included in cluster I, II and III, but the majority of CD patients (25/34) could be divided into another four clusters (cluster IV–VII). Prediction of bacteria based on the BslI-digested T-RFLP database showed a significant decrease in Clostridium cluster IV, Clostridium cluster XI and subcluster XIVa in CD patients. In contrast, Bacteroides significantly increased in CD patients. Significant increases in Enterobacteriales were also observed in CD patients. Furthermore, elemental diets modulated faecal bacterial communities in CD patients.
Conclusions Terminal restriction fragment length polymorphism analyses showed that the diversity of faecal microbiota in patients with CD differed from that of healthy individuals. Furthermore, elemental diets modulated faecal microbiota composition, and this effect may be involved in mechanisms of clinical effects of elemental diet.