High temporal and inter-individual variation detected in the human ileal microbiota

C.C.G.M. Booijink, S. El-Aidy, M. Rajilic-Stojanovic, G.H.J. Heilig, F.J. Troost, H. Smidt, M. Kleerebezem, W.M. de Vos, E.G. Zoetendal

Research output: Contribution to journalArticleAcademicpeer-review

174 Citations (Scopus)


The diversity and temporal stability of the predominant bacteria in the human ileum was studied with the use of ileal effluent samples of seven individuals with Brooke ileostomies. The total number of bacteria within the ileal effluent was in the range of 10(7) -10(8) bacteria per gram (wet weight). The diversity of the bacteria in the ileal effluent showed marked differences compared with that in faecal samples from age-matched healthy adults. The ileal effluent had a higher relative abundance of species within the orders Lactobacillales and Clostridiales, mainly Streptococcus bovis-related species, and the Veillonella group, and a lower proportion of species related to Ruminococcus gnavus, R. obeum and Bacteroides plebeius. In addition, inter-individual differences were found, indicative of a highly personal ileal microbiota profile. Furthermore, temporal profiles showed large fluctuations per individual over a period of 9-28 days (average similarity over a period of 9 days was as low as 44%), and differences between morning and afternoon profiles were observed. Parallel cloning and sequencing efforts revealed several phylotypes that were not identified in previous studies (12 out of 65 phylotypes showed less than 97% sequence similarity with previously reported sequences). Achaea were found to be below detection limit by quantitative PCR. Overall, the results indicate that the microbiota of the human ileum is relatively unstable, less complex and consisting of different dominating phylotypes when compared with the colonic microbiota
Original languageEnglish
Pages (from-to)3213-3227
JournalEnvironmental Microbiology
Issue number12
Publication statusPublished - 2010


  • 16s ribosomal-rna
  • gradient gel-electrophoresis
  • gastrointestinal-tract microbiota
  • human intestinal microbiota
  • crohns-disease
  • molecular analysis
  • gut microbiome
  • quantitative-analysis
  • bacterial diversity
  • fecal microbiota

Fingerprint Dive into the research topics of 'High temporal and inter-individual variation detected in the human ileal microbiota'. Together they form a unique fingerprint.

Cite this