Analysis of the large bowel microbiota of colitic mice using PCR/DGGE

Letters in Applied Microbiology

Volumn 41, Issue 1, 2005, Pages 45-51

  Bibiloni, R ^a,c   Simon, M A ^a   Albright, C ^b   Sartor, B ^b   Tannock, G W ^a  

^a UNIVERSITY OF OTAGO   (New Zealand)

^b UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

^c UNIVERSITY OF ALBERTA   (Canada)

Author keywords

Bifidobacterium; Colitis; DNA:RNA hybridizations; IL 10 deficient mice; PCR denaturing gradient gel electrophoresis

Indexed keywords

DISEASES; ELECTROPHORESIS; MAMMALS; POLYMERASE CHAIN REACTION; RNA;

BIFIDOBACTERIUM; COLITIS; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA:RRNA HYBRIDIZATION; HYBRIDISATION; INTERLEUKIN 10-DEFICIENT MOUSE; INTERLEUKIN-10; MICROBIOTAS; PCR-DGGE; PCR/DENATURING GRADIENT GEL ELECTROPHORESIS;

DNA;

BACTERIAL DNA; DNA FRAGMENT; INTERLEUKIN 10; RNA 16S;

DIGESTIVE SYSTEM; MICROBIAL COMMUNITY; POLYMERASE CHAIN REACTION; RODENT;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; BACTERIUM DETECTION; BACTEROIDES; BIFIDOBACTERIUM; CLOSTRIDIUM; COLITIS; COLON DISEASE; CONTROLLED STUDY; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA PROBE; DNA RNA HYBRIDIZATION; ENTEROCOCCUS; EXPERIMENTAL MODEL; GERMFREE ANIMAL; IMMUNE SYSTEM; INTERLEUKIN 10 DEFICIENT MOUSE; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION;

ANIMALIA; BACTEROIDES SP.; BIFIDOBACTERIUM; BIFIDOBACTERIUM ANIMALIS; CLOSTRIDIUM COCLEATUM; EUBACTERIUM VENTRIOSUM;

EID: 21344465481     PISSN: 02668254     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1472-765X.2005.01720.x     Document Type: Article

References (36)

1. Amann, R.I., Ludwig, W. and Schleifer, K.-H. (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59, 143-169.
2. Balish, E. and Warner, T. (2002) Enterococcus faecalis induces inflammatory bowel disease in interleukin-10 knockout mice. Am J Pathol 160, 2253-2257.
3. Bartosch, S., Fite, A., Macfarlane, G.T. and McMurdo, M.E. (2004) Characterization of bacterial communities in feces from healthy elderly volunteers and hospitalized elderly patients by using real-time PCR and effects of antibiotic treatment on the fecal microbiota. Appl Environ Microbiol 70, 3575-3581.
4. Dewhirst, F.E., Chien, C.-C., Paster, B.J., Ericson, R.L., Orcutt, R.P., Schauer, D.B. and Fox, J.G. (1999) Phytogeny of the defined murine microbiota: altered Schaedler flora. Appl Environ Microbiol 65, 3287-3292.
5. Dore, J., Sghir, A., Hannequart-Gramet, G., Corthier, G. and Pochart, P. (1998) Design and evaluation of a 16S rRNA-targeted oligonucleotide probe for specific detection and quantitation of human faecal Bacteroides populations. Syst Appl Microbiol 21, 65-71.
6. Duchmann, R., Kaiser, I., Hermann, E., Mayet, W., Ewe, K. and Meyer zum Buschenfelde, K.-H. (1995) Tolerance exists towards resident intestinal flora but is broken in active inflammatory bowel disease (IBD). Clin Exp Immunol 102, 448-455.
7. Elson, C.O., Sartor, R.B., Tennyson, G.S. and Riddell, R.H. (1995) Experimental models of inflammatory bowel disease. Gastroenterology 109, 1344-1367.
8. Felske, A., Rheims, H., Wolterink, A., Stackebrandt, E. and Akkermans, A.D. (1997) Ribosome analysis reveals prominent activity of an uncultured member of the class Actinobacteria in grassland soils. Microbiology 143, 2983-2989.
9. Gibson, G.R. and Roberfroid, M.B. (1995) Dietary modulation of the human colonic microbiota: introducing the concept of prebiotics. J Nutr 125, 1401-1412.
10. Gueimonde, M., Tolkko, S., Korpimaki, T. and Salminen, S. (2004) New real-time quantitative PCR procedure for quantification of bifidobacteria in human fecal samples. Appl Environ Microbiol 70, 4165-4169.
11. Hugenholtz, P., Goebel, B.M. and Pace, N.R. (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180, 4765-4774.
12. Huijsdens, X.W., Linskens, R.K., Mak, M., Meuwissen, S.G., Vandenbroucke-Grauls, C.M. and Savelkoul, P.H. (2002) Quantification of bacteria adherent to gastrointestinal mucosa by real-time PCR. J Clin Microbiol 40, 4423-4427.
13. Knarreborg, A., Simon, M.A., Engberg, R.C., Jensen, B.B. and Tannock, G.W. (2002) Effects of dietary fat source and subtherapeutic levels of antibiotic on the bacterial community in the ileum of broiler chickens of various ages. Appl Environ Microbiol 68, 5918-5924.
14. Kuhn, R., Lohler, J., Rennick, D., Rajewsky, K. and Muller, W. (1993) Interleukin-10-deficient mice develop chronic enterocolitis. Cell 75, 263-274.
15. Madsen, K.L., Doyle, J.S., Jewell, L.D., Tavernini, M.M. and Fedorak, R.N. (1999) Lactobacillus species prevents colitis in interleukin 10 gene-deficient mice. Gastroenlerology 116, 1107-1114.
16. Madsen, K.L., Doyle, J.S., Tavernini, M.M., Jewel, L.D., Rennie, R.P. and Fedorak, R.N. (2000) Antibiotic therapy attenuates colitis in interleukin 10 gene-deficient mice. Gastroenterology 118, 1094-1105.
17. Matsuki, T., Watanabe, K., Fujimoto, J., Kado, Y., Takada, T., Matsumoto, K. and Tanaka, R. (2004) Quantitative PCR with 16S rRNA-gene-targeted species-specific primers for analysis of human intestinal bifidobacteria. Appl Environ Microbiol 70, 167-173.
18. McBurney, W.T. (2003) PCR/DGGE analysis of the intestinal microflora of experimental animal models: potential applications in the study of inflammatory diseases. PhD Thesis, University of Otago, Dunedin, New Zealand.
19. McCarthy, J., O'Mahony, L., O'Callaghan, L., Sheil, B., Vaughan, E.E., Fitzsimons, N., Fitzgibbon, J., O'Sullivan, G.G. et al. (2003) Double blind, placebo controlled trial of two probiotic strains in interleukin 10 knockout mice and mechanistic link with cytokine balance. Gut 52, 975-980.
20. Rath, H.C., Wilson, K.H. and Sartor, R.B. (1999) Differential induction of colitis and gastritis in HLA-B27 transgenic rats selectively colonized with Bacteroides vulgatus or Escherichia coli. Infect Immun 67, 2969-2974.
21. Rath, H.C., Schultz, M., Freitag, R., Dielman, L.A., Li, F., Linde, H.J., Scholmerich, J. and Sartor, R.B. (2001) Different subsets of enteric bacteria induce and perpetuate experimental colitis in rats and mice. Infect Immun 69, 2277-2285.
22. Requena, T., Burton, J., Matsuki, T., Munro, K., Simon, M.A., Tanaka, R., Watanabe, K. and Tannock, G.W. (2002) Identification, detection and enumeration of human bifidobacterium species by PCR targeting the transaldolase gene. Appl Environ Microbiol 68, 2420-2427.
23. Salzman, N.H., de Jong, H., Paterson, Y., Harmsen, H.J.M., Welling, G.W. and Bos, N.A. (2002) Analysis of 16S libraries of mouse gastrointestinal microflora reveals a large new group of mouse intestinal bacteria. Microbiology 148, 3651-3660.
24. Sanger, F., Nicklen, S. and Coulson, A.R. (1977) DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74, 5463-5467.
25. Sartor, R.B. (2004) Microbial influences in inflammatory bowel disease: role in pathogenesis and clinical implications. In Kirstner's Inflammatory Bowel Diseases ed. Sartor, R.B. and Sandborn, W.J. pp. 138-162. London: Elsevier Publishers.
26. Satokari, R.M., Vaughan, E.E., Akkermans, A.D.L., Saarela, M. and de Vos, W.M. (2001) Bifidobacterial diversity in human feces detected by genus-specific PCR and denaturing gradient gel electrophoresis. Appl Environ Microbiol 67, 504-513.
27. Savage, D.C., Dubos, R. and Schaedler, R.W. (1968) The gastrointestinal epithelium and its autochthonous bacterial flora. J Exp Med 127, 67-76.
28. Schultz, M., Munro, K., Tannock, G.W., Melchner, I., Gottl, C., Schwietz, H., Scholmerich, J. and Rath, H.C. (2004) Effects of feeding a probiotic preparation (SIM) containing inulin on the severity of colitis and on the composition of the intestinal microflora in HLA-B27 transgenic rats. Clin Diagn Lab Immunol 11, 581-587.
29. Sellon, R.K., Tonkonogy, S., Schultz, M., Dieleman, L.A., Grenther, W., Balish, E., Rennik, D.M. and Sartor, R.B. (1998) Resident enteric bacteria are necessary for development of spontaneous colitis and immune system activation in interleukin-10-deficient mice. Infect Immun 66, 5224-5231.
30. Stahl, D.A., Flesher, B., Mansfield, H.R. and Montgomery, L. (1988) Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology. Appl Environ Microbiol 54, 1079-1084.
31. Stebbings, S., Munro, K., Simon, M.A., Tannock, G.W., Highton, J., Harmsen, H., Welling, G., Seksik, P. et al. (2002) Comparison of the faecal microflora of patients with ankylosing spondylitis and controls using molecular methods of analysis. Rheumatology 41, 1395-1401.
32. Tannock, G.W., Munro, K. Harmsen, H.J., Welling, G.W., Smart, J. and Gopal, P.K. (2000) Analysis of the fecal microflora of human subjects consuming a probiotic product containing Lactobacillus rhamnosus DR20. Appl Environ Microbiol 66, 2578-2588.
33. Tannock, G.W., Munro, K., Bibiloni, R., Simon, M.A., Hargreaves, P., Gopal, P., Harmsen, H. and Welling, G. (2004) Impact of consumption of oligosaccharide-containing biscuits on the fecal microbiota of humans. Appl Environ Microbiol 70, 2129-2136.
34. Van Heel, D.A., McGovern, P.B. and Jewell, D.P. (2001) Crohn's disease: genetic susceptibility, bacteria, and innate immunity. Lancet 357, 1902-1904.
35. Walter, J., Tannock, G.W., Tilsala-Timisjarvi, A., Rodtong, S., Loach, D.M., Munro, K. and Alatossava, T. (2000) Detection and identification of gastrointestinal Lactobacillus species by using denaturing gradient gel electrophoresis and species-specific PCR primers. Appl Environ Microbiol 66, 297-303.
36. Zoetendal, E.G., Akkermans, A.D.L. and de Vos, W.M. (1998) Temperature gradient gel electrophoretic analysis of 16S rRNA from fecal samples reveals stable and host-specific communities of active bacteria. Appl Environ Microbiol 64, 3854-3859.