Spatial organization of bacterial flora in normal and inflamed intestine: A fluorescence in situ hybridization study in mice

World Journal of Gastroenterology

Volumn 11, Issue 8, 2005, Pages 1131-1140

  Swidsinski, Alexander ^a   Loening Baucke, Vera ^a   Lochs, Herbert ^a   Hale, Laura P ^b  

^a HUMBOLDT UNIVERSITY   (Germany)

^b DUKE UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

IBD; Intestinal flora

Indexed keywords

ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; ASCENDING COLON; BACTERIAL FLORA; BACTERIUM ADHERENCE; BACTEROIDES; CECUM; COLITIS; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; DESCENDING COLON; DISEASE MODEL; FECES MICROFLORA; FLUORESCENCE IN SITU HYBRIDIZATION; GRAM POSITIVE BACTERIUM; HOST; INNATE IMMUNITY; INTESTINE CRYPT; INTESTINE EPITHELIUM; INTESTINE FLORA; INTESTINE FUNCTION; INTESTINE WALL; MOUSE; NONHUMAN; STIMULUS RESPONSE;

EID: 14844351844     PISSN: 10079327     EISSN: None     Source Type: Journal    
DOI: 10.3748/wjg.v11.i8.1131     Document Type: Article

References (41)

1. Sartor RB. Pathogenesis and immune mechanisms of chronic inflammatory bowel disease. Am J Gastroenterol 1997; 92 5-11
2. Wilson M. Bacterial biofilms and human disease. Sci Prog 2001; 84: 235-254
3. Podolsky DK. Inflammatory bowel disease. New Engl J Med 2002; 347: 417-429
4. Amann RI, Ludwig W, Schleifer KH. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbial Reviews 1995; 59: 143-169
5. Matsuo K, Ota H, Akamatsu T, Sugiyama A, Katsuyama T. Histochemistry of the surface mucous gel layer of the human colon. Gut 1997; 40: 782-789
6. Amann R, Krumholz L, Stahl DA. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J Bacteriol 1990; 172: 762-770
7. Manz W, Amann R, Ludwig W, Wagner M, Schleifer KH. Phylogenetic oligodeoxynucleotide probes for the major subclasses of Proteobacteria: Problems and solutions. System Appl Microbiol 1992; 15: 593-600
8. Bohnert J, Hübner B, Botzenhart K. Rapid identification of Enterobacteriaceae using a novel 23S rRNA-targeted oligonucleotide probe. Int J Hyg Environ Health 2002; 203: 77-82
9. Poulsen LK, Licht TR, Rang C, Krogfelt KA, Molin S. Physiological state of Escherichia coli BJ4 growing in the large intestines of streptomycin-treated mice. J Bacteriol 1995; 177 5840-5845
10. Trebesius K, Harmsen D, Rakin A, Schmelz J, Heesemann J. Development of rRNA-targeted PCR and in situ hybridization with fluorescently labelled oligonucleotides for detection of versinia species. J Clin Microbiol 1998; 36: 2557-2564
11. Amann R, Stromley J, Devereux R, Key R, Stahl DA. Molecular and microscopic identification of sulfate-reducing bacteria in multispecies biofilms. Appl Environ Microbiol 1992; 58: 614-623
12. Hristova KR, Mau M, Zheng D, Aminov RI, Mackie RI, Gaskins HR, Raskin L. Genus- and subgenus-specific 16S rRNA hybridization probes for environmental studies. Environ Microbiol 2000; 2: 143-159
13. Feydt-Schmidt A, Rüssmann H, Lehn N, Fischer A, Antoni L, Störk D, Koletzko S. Fluorescence in situ hybridization vs epsilometer test for detection of clarithromycin-susceptible and clarithromycin-resistant Helicobacter pylori strains in gastric biopsies from children. Aliment Pharmacol Ther 2002; 16: 2073-2079
14. Snaidr J, Amann R, Huber I, Ludwig W, Schleifer KH. Phylogenetic analysis and in-situ identification of bacteria in activated sludge. Appl Environ Microbiol 1997; 63: 2884-2896
15. Roller C, Wagner M, Amann R, Ludwig W, Schleifer KH. In situ probing of gram-positive bacteria with high DNA G + C content using 23S rRNA-targeted oligonucleotides. Microbiology 1994; 140 2849-2858
16. Meier H, Amann R, Ludwig W, Schleifer KH. Specific oligonucleotide probes for in situ detection of a major group of gram-positive bacteria with low DNA G + C content. Syst Appl Microbiol 1999; 22: 186-196
17. Urdaci MC, Regnault B, Grimont PA. Identification by in situ hybridization of segmented filamentous bacteria in the intestine of diarrheic rainbow trout (Oncorhynchus mykiss). Res Microbiol 2001; 152: 67-73
18. Franks AH, Harmsen HJ, Raangs GC, Jansen GJ, Schut F, Welling GW. Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes. Appl Environ Microbiol 1998; 64: 3336-3345
19. Harmsen HJ, Raangs GC, He T, Degener JE, Welling GW. Extensive set of 16S rRNA-based probes for detection of bacteria in human feces. Appl Environ Microbiol 2002; 68: 2982-2990
20. Harmsen HJ, Elfferich P, Schut F, Welling GW. A 16S rRNA-targeted probe for detection of lactobacilli and enterococci in fecal samples by fluorescent in situ hybridization. Microbiol Ecol Health Dis 1999; 11: 3-12
21. Frahm E, Heiber I, Hoffman S, Koob C, Meier H, Ludwig W, Amann R, Schleifer KH, Obst U. Application of 23S rDNA-targeted oligonucleotide probes specific for enterococci to water hygiene control. Syst Appl Microbiol 1998; 21: 450-453
22. Jansen GJ, Mooibroek M, Idema J, Harmsen HJ, Welling GW, Degener JE. Rapid identification of bacteria in blood cultures by using fluorescently labeled oligonucleotide probes. J Clin Microbiol 2000; 38: 814-817
23. Harmsen HJ, Wildeboer-Veloo AC, Grijpstra J, Knol J, Degener JE, Welling GW. Development of 16S rRNA-based probes for the Coriobacterium group and the atopobiumcluster and their application for enumeration of coriobacteriaceae in human feces from volunteers of different age groups. Appl Environ Microbiol 2000; 66: 4523-4527
24. Zoetendal EG, Ben-Amor K, Harmsen HJ, Schut F, Akkermans AD, de Vos WM. Quantification of uncultured Ruminococcus obeum-like bacteria in human fecal samples by fluorescent in situ hybridization and flow cytometry using 16S rRNA-targeted probes. Appl Environ Microbiol 2002; 68: 4225-4232
25. Jensen TK, Boye M, Ahrens P, Korsager B, Teglbjaerg PS, Lindboe CF, Moller K. Diagnostic examination of human intestinal spirochetosis by fluorescent in situ hybridization for Brachyspira aalborgi, brachyspira pilosicoli, and other species of the genus brachyspira. (Serpulina). J Clin Microbiol 2001; 39: 4111-4118
26. Langendijk PS, Schut F, Jansen GJ, Raangs GC, Kamphuis GR, Wilkinson MH, Welling GW. Quantitative fluorescence in situ hybridization of bifidobacterium spp. with genus-specific 16SrRNA-targeted probes and its application in fecal samples. Appl Environ Microbiol 1995; 61: 3069-3075
27. Manz W, Amann R, Ludwig W, Vancanneyt M, Schleifer KH. Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum cytophaga-flavobacter-bacteroides in the natural environment. Microbiology 1996; 142: 1097-1106
28. Suau A, Rochet V, Sghir A, Gramet G, Brewaeys S, Sutren M, Rigottier-Gois L, Dore J. Fusobacterium prausnitzii and related species represent a dominant group within the human fecal flora. Syst Appl Microbiol 2001; 24: 139-145
29. Manz W, Eisenbrecher M, Neu TR, Szewzyk U. Abundance and spatial organization of gram-negative sulfatereducing bacteria in activated sludge investigated by in situ probing with specific 16S rRNA targeted oligonucleotides. FEMS Microbiol Ecol 1998; 25: 43-61
30. Stahl DA, Amann R. Development and application of nucleic acid probes in bacterial systematics. In E. Stackebrandt and M.Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. Chichester, England: John Wiley Sons Ltd. Pub 1991: 205-248
31. Costerton W, Veeh R, Shirtliff M, Pasmore M, Post C, Ehrlich G. The application of biofilm science to the study and control of chronic bacterial infections. J Clin Invest 2003; 112: 1466-1477
32. Kolenbrander PE. Oral microbial communities: Biofilms, interactions, and genetic systems. Ann Rev Microbiol 2000; 54 413-437
33. Marsh PD, Bradshaw DJ. Dental plaque as a biofilm. J Ind Microbiol 1995; 15: 169-175
34. Schultsz C, Van Den Berg FM, Ten Kate FW, Tytgat GN, Dankert J. The intestinal mucus layer from patients with inflammatory bowel disease harbors high numbers of bacteria compared with controls. Gastroenterology 1999; 117: 1089-1097
35. Kleessen B, Kroesen AJ, Buhr HJ, Blaut M. Mucosal and invading bacteria in patients with inflammatory bowel disease compared with controls. Scand J Gastroenterol 2002; 37: 1034-1041
36. Kleessen B, Hartmann L, Blaut M. Fructans in the diet cause alterations of intestinal mucosal architecture, released mucins and mucosa-associated bifidobacteria in gnotobiotic rats. Br J Nutr 2003; 89: 597-606
37. Einerhand AW, Renes IB, Makkink MK, van der Sluis M, Buller HA, Dekker J. Role of mucins in inflammatory bowel disease: Important lessons from experimental models. Eur J Gastroenterol Hepatol 2002; 14: 757-765
38. Campieri M, Gionchetti P. Bacteria as the cause of ulcerative colitis. Gut 2001; 48: 132-135
39. Sartor RB. Microbial factors in the pathogenesis of Crohn's disease, ulcerative colitis, and experimental intestinal inflammation. In: Kirsner JB (editor) Inflammatory Bowel Disease. Philadelphia: Saunders Pub 2000: 153-178
40. Guarner F, Malagelada JR. Role of bacteria in experimental colitis. Best Pract Res Clin Gastroenterol 2003; 5 793-804
41. Shanahan F. Inflammatory bowel disease: Immunodiagnostics, immunotherapeutics, and ecotherapeutics. Gastroenterology 2001; 129: 622-635