From: Intestinal microbiota in human health and disease: the impact of probiotics
Study material | Population | Analytical methods | References |
---|---|---|---|
Biopsies (terminal ileum, colon) | 12 CD patients (active disease) 12 UC patients (active disease) 14 Non-IBD controls | FISH | Kleessen et al. (2002) |
Biopsies: inflamed and non-inflamed tissue (ileum, ascending/sigmoid colon) | 28 Self-limiting colitis patients 104 Indeterminate colitis patients 119 UC patients 54 CD patients 40 Non-IBD controls | Conventional culturing qPCR FISH | Swidsinski et al. (2002) |
Faeces | 8 CD patients (active disease) 9 CD patients (in remission) 16 Healthy individuals | Dot-blot hybridisation TGGE | Seksik et al. (2003) |
Faeces | 4 CD patients 4 Healthy controls | Clone library sequencing (16S) | Mangin et al. (2004) |
Colonic biopsies: inflamed tissue | 26 CD patients (active disease) 31 UC patients (active disease) 15 Inflammatory controls 31 Non-inflammatory controls | SSCP Clone library sequencing (16S) qPCR | Ott et al. (2004) |
Rectal biopsies: inflamed and non-inflamed tissue | 4 CD patients (active disease) 2 CD patients (in remission) 14 UC patients (active disease) 19 UC patients (in remission) 14 Non-IBD controls | FISH | Mylonaki et al. (2005) |
Biopsies: inflamed and non-inflamed tissue (ileum, ascending/sigmoid colon) | 20 CD patients 20 UC patients 20 Self-limiting colitis patients 20 IBS patients 20 Non-IBD controls | FISH | Swidsinski et al. (2005) |
Biopsies: inflamed and non-inflamed tissue (ileum, ascending/transverse/descending colon, rectum) | 20 CD patients (active disease) 15 UC patients (active disease) 14 Non-IBD controls | Clone library sequencing (16S) DGGE qPCR | Bibiloni et al. (2006) |
Biopsies: inflamed and non-inflamed tissue (ileum, transverse/sigmoid colon, rectum) | 6 CD patients 5 UC patients 5 Non-IBD controls | Clone library sequencing (16S) | Gophna et al. (2006) |
Faeces | 6 CD patients (in remission) 6 Healthy individuals | Clone library screening (metagenome: 16S) FISH/flow cytometry | Manichanh et al. (2006)* |
Biopsies: inflamed and non-inflamed tissue (ileum, ascending/transverse/descending/sigmoid colon, rectum) | 19 CD patients 2 UC patients 1 Ischemic colitis patient 15 Non-IBD controls | DGGE 16S rRNA gene sequence analysis | Martinez–Medina et al. (2006) |
Faeces (several time points) | 16 CD patients 18 Healthy individuals | DGGE | Scanlan et al. (2006) |
Faeces | 13 CD patients (active disease) 13 UC patients (active disease) 5 Infectious colitis patients 13 Healthy individuals | FISH/flow cytometry | Sokol et al. (2006)# |
Faeces | 29 UC patients (active disease) 12 UC patients (in remission) 46 Healthy individuals | T-RFLP | Andoh et al. (2007) |
Ileal biopsies | 13 CD patients (ileum) 8 CD patients (colon) 7 Non-IBD controls | Clone library sequencing (16S) qPCR FISH | Baumgart et al. (2007) |
Biopsies (small intestine and colon) | 68 CD patients 61 UC patients 61 Non-IBD controls | Clone library sequencing (16S) qPCR | Frank et al. (2007) |
Biopsies (caecum, colon, rectum) | 13 CD patients 19 UC patients 15 Healthy individuals | RISA Conventional culturing | Kotlowski et al. (2007) |
Faeces | 17 CD patients (active disease) 17 CD patients (in remission) 20 Healthy controls | T-RFLP | Andoh et al. (2008) |
Faeces | 10 Twin pairs with CD 8 Healthy twin pairs | G+C profiling Clone library sequencing (16S) T-RFLP | Dicksved et al. (2008)†|
Faeces (several time points) | 16 UC patients (in remission) 8 Healthy controls | DGGE | Martinez et al. (2008) |
Colonic biopsies Faeces | 15 CD patients (active disease) 8 CD patients (in remission) 44 UC patients (active disease) 29 UC patients (in remission) | Conventional culturing qPCR FISH HPLC | Takaishi et al. (2008) |
Rectal biopsies: inflamed and non-inflamed tissue | 9 UC patients (active disease) 11 Non-IBD controls | T-RFLP | Nishikawa et al. (2009) |
Faeces | 22 CD patients (active disease) 10 CD patients (in remission) 12 UC patients (active disease) 4 UC patients (in remission) 8 Infectious colitis patients 27 Healthy individuals | qPCR | Sokol et al. (2009)# |
Biopsies (terminal ileum, ascending/transverse/descending colon, rectum) | 10 Twin pairs with CD 8 Healthy twin pairs | T-RFLP Clone library sequencing (16S) qPCR | Willing et al. (2009)†|
Faeces | 6 CD patients (in remission) 6 Healthy individuals | qPCR Phylogenetic microarray (16S) | Kang et al. (2010)* |
Faeces | 4 CD patients (in remission) 21 UC patients (in remission) 14 Healthy individuals | Clone library sequencing (metagenome) | Qin et al. (2010) |
Faeces | 68 CD patients (in remission) 84 Unaffected relatives 55 Healthy individuals | DGGE qPCR | Joossens et al. (2011) |
Faeces | 16 CD patients (active disease) 16 Healthy individuals | qPCR Phylogenetic microarray (16S) | Mondot et al. (2011) |
Biopsies: inflamed and non-inflamed tissue (ileum, ascending/transverse/descending/sigmoid colon, rectum) | 12 CD patients (active disease) 6 UC patients (active disease) 5 Non-IBD controls | qPCR Clone library sequencing (16S) | Walker et al. (2011) |