Role of Intestinal Microbiota in Ulcerative Colitis

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References Ventura,M., Turroni,F., Canchaya,C., Vaughan,E.E., O'Toole,P.W., and van Sinderen,D. (2009). Microbial diversity in the human intestine and novel insights from metagenomics. Frontiers in Bioscience. 14:3214‐3863. Vernazza,C.L., Rabiu,B.A., and Gibson,G.R. (2006). Human Colonic Microbiology and the Role of Dietary Intervention: Introduction to Prebiotics. In: Prebiotics: Development and Application. Ed. G.R.Gibson and R.A.Rastall John Wiley & Sons, Ltd. 1‐28. 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. Applied and Environmental Microbiology. 66:297‐303. Wang,M., Ahrne,S., Jeppsson,B., and Molin,G. (2005a). Comparison of bacterial diversity along the human intestinal tract by direct cloning and sequencing of 16S rRNA genes. Fems Microbiology Ecology. 54:219‐231. Wang,X.K., Geng,X., Egashira,Y., and Sanada,H. (2005b). Release of ferulic acid from wheat bran by an inducible feruloyl esterase from an intestinal bacterium Lactobacillus acidophilus. Food Science and Technology Research. 11:241‐247. Warchol,M., Perrin,S., Grill,J.P., and Schneider,F. (2002). Characterization of a purified beta‐ fructofuranosidase from Bifidobacterium infantis ATCC 15697. Letters in Applied Microbiology. 35:462‐467. Wikoff,W.R., Anfora,A.T., Liu,J., Schultz,P.G., Lesley,S.A., Peters,E.C., and Siuzdak,G. (2009). Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites. Proceedings of the National Academy of Sciences of the United States of America. 106:3698‐3703. Wright,D.P., Rosendale,D.I., and Roberton,A.M. (2000). Prevotella enzymes involved in mucin oligosaccharide degradation and evidence for a small operon of genes expressed during growth on mucin. Fems Microbiology Letters. 190:73‐79. Yoo,J.Y. and Chen,X.D. (2006). GIT Physicochemical Modeling ‐ A Critical Review. International Journal of Food Engineering. 2:Article 4. Yun,J.W., Kim,D.H., Kim,B.W., and Song,S.K. (1997). Comparison of sugar compositions between inulo‐ and fructo‐oligosaccharides produced by different enzyme forms. Biotechnology Letters. 19:553‐556. Zenhom,M., Hyder,A., de Vrese,M., Heller,K.J., Roeder,T., and Schrezenmeir,J. (2011). Prebiotic Oligosaccharides Reduce Proinflammatory Cytokines in Intestinal Caco‐2 Cells via Activation of PPAR gamma and Peptidoglycan Recognition Protein 3. Journal of Nutrition. 141:971‐977. Zeuthen,L.H., Fink,L.N., Metzdorff,S.B., Kristensen,M.B., Licht,T.R., Nellemann,C., and Frokiaer,H. (2010). Lactobacillus acidophilus induces a slow but more sustained chemokine and cytokine response in naive foetal enterocytes compared to commensal Escherichia coli. Bmc Immunology. 11:1‐10. Zhang,B.W., Li,M., Ma,L.C., and Wei,F.W. (2006). A widely applicable protocol for DNA isolation from fecal samples. Biochemical Genetics. 44:503‐512. Zhang,D.K., Zhang,G.L., Hayden,M.S., Greenblatt,M.B., Bussey,C., Flavell,R.A., and Ghosh,S. (2004). A toll‐ like receptor that prevents infection by uropathogenic bacteria. Science. 303:1522‐1526. Zoetendal,E.G., von Wright,A., Vilpponen‐Salmela,T., Ben‐Amor,K., Akkermans,A.D.L., and de Vos,W.M. (2002). Mucosa‐associated bacteria in the human gastrointestinal tract are uniformly distributed along the colon and differ from the community recovered from feces. Applied and Environmental Microbiology. 68:3401‐3407. 180
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Role of Intestinal Microbiota in Ul
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Role of Intestinal Microbiota in Ul
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Preface Preface This thesis present
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Summary Summary The microbiota of t
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Dansk sammendrag Dansk sammendrag M
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Introduction and objectives Introdu
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List of Manuscripts Not included in
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List of contents List of Centents P
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List of Centents Methodology append
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1. The intestinal environment Theor
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Theoretical part 5 1. The intestina
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2. The colonic environment Theoreti
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Theoretical part 9 2. The colonic e
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Table 1: The presence of glycoside
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Theoretical part Figure 3: The colo
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3. Inflammatory Bowel disease Theor
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Theoretical part 17 3. Inflammatory
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Theoretical part 19 4. Modulation o
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Table 4: Clinical trials on the pre
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Theoretical part 5. Production of p
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Methodology part
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Methodology part 6. Methodology, co
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Introduction Methodology part 42 Pa
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Abstract Background Detailed knowle
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depending the level of disease acti
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in 1 x TAE at 60 °C for 16 h at 36
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Statistics PCA were generated by SA
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The PCA of the Gram‐positive bact
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layer of UC patients and found that
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Acknowledgements The authors thank
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Table 2 ‐ 16S rRNA gene and 16S
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1. Firmicutes phylum 2. Bacteroidet
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Supplementary Figure S1. Dice clust
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Reference List 1. Ahmed S, Macfarla
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32. Matsuki T, Watanabe K, Fujimoto
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Methodology part Paper 2 Fecal lact
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Fecal lactobacilli and bifidobacter
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Introduction The mucus layer lining
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efore enrolment and there was no si
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(Bio‐Rad Labs, Hercules, Californ
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Microbial community analysis using
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difference from the luminal microbi
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that C. coccoides group and C. lept
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Table 1 ‐ 16S rRNA gene of phylum
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Table 2 ‐ Preference of bacterial
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Figure 1. A) Schematic overview of
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A. B. Figure 3. Principal component
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15. Fooks LJ, Gibson GR. (2002) In
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47. Ouwehand AC, Suomalainen T, Tol
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Methodology part Paper 3 Paper 3 In
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APPLIED AND ENVIRONMENTAL MICROBIOL
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8338 VIGSNÆS ET AL. APPL. ENVIRON.
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Methodology part Introduction The a
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Journal of Agricultural and Food Ch
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Methodology part Paper 5 Paper 5 Ma
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Appl Microbiol Biotechnol (2011) 90
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Page 157 and 158: Table 1 List of enzymes. Enzyme Sou
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Page 172 and 173: Appendix 3 Methodology part Appendi
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Page 177 and 178: 7. Discussion and perspectives Disc
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Page 185 and 186: References References Abreu,M.T., V
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Page 189 and 190: References Haarman,M. and Knol,J. (
Page 191 and 192: References Lantz,P.G., Matsson,M.,
Page 193 and 194: References Matsuki,T., Watanabe,K.,
Page 195 and 196: References Pullan,R.D., Thomas,G.A.
Page 197: References Tannock,G.W. (2010). Ana
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