Role of Intestinal Microbiota in Ulcerative Colitis

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References Olano‐Martin,E., Mountzouris,K.C., Gibson,G.R., and Rastall,R.A. (2001). Continuous production of pectic oligosaccharides in an enzyme membrane reactor. Journal of Food Science. 66:966‐971. Olano‐Martin,E., Mountzouris,K.C., Gibson,G.R., and Rastall,R.A. (2000). In vitro fermentability of dextran, oligodextran and maltodextrin by human gut bacteria. British Journal of Nutrition. 83:247‐255. Oosterveld,A., Beldman,G., Schols,H.A., and Voragen,A.G.J. (2000). Characterization of arabinose and ferulic acid rich pectic polysaccharides and hemicelluloses from sugar beet pulp. Carbohydrate Research. 328:185‐197. Osman,N., Adawi,D., Molin,G., Ahrne,S., Berggren,A., and Jeppsson,B. (2006). Bifidobacterium infantis strains with and without a combination of Oligofructose and Inulin (OFI) attenuate inflammation in DSS‐induced colitis in rats. Bmc Gastroenterology doi: 10.1186/1471‐230X‐6‐31. Ott,S.J., Musfeldt,M., Wenderoth,D.F., Hampe,J., Brant,O., Folsch,U.R., Timmins,K.N., and Schreiber,S. (2004). Reduction in diversity of the colonic mucosa associated bacterial microflora in patients with active inflammatory bowel disease. Gut. 53:685‐693. Ouwehand,A.C., Salminen,S., Tolkko,S., Roberts,P., Ovaska,J., and Salminen,E. (2002a). Resected human colonic tissue: New model for characterizing adhesion of lactic acid bacteria. Clinical and Diagnostic Laboratory Immunology. 9:184‐186. Ouwehand,A.C., Suomalainen,T., Tolkko,S., and Salminen,S. (2002b). In vitro adhesion of propionic acid bacteria to human intestinal mucus. Lait. 82:123‐130. Palmer,C., Bik,E.M., DiGiulio,D.B., Relman,D.A., and Brown,P.O. (2007). Development of the human infant intestinal microbiota. Plos Biology. 5:1556‐1573. Peran,L., Camuesco,D., Comalada,M., Bailon,E., Henriksson,A., Xaus,J., Zarzuelo,A., and Galvez,J. (2007). A comparative study of the preventative effects exerted by three probiotics, Bifidobacterium lactis, Lactobacillus casei and Lactobacillus acidophilus, in the TNBS model of rat colitis. Journal of Applied Microbiology. 103:836‐844. Perez,S., Mazeau,K., and du Penhoat,C.H. (2000). The three‐dimensional structures of the pectic polysaccharides. Plant Physiology and Biochemistry. 38:37‐55. Perez,S., Rodriguez‐Carvajal,M.A., and Doco,T. (2003). A complex plant cell wall polysaccharide: rhamnogalacturonan II. A structure in quest of a function. Biochimie. 85:109‐121. Pfaffl,M.W., Vandesompele,J., and Kubista,M. (2009). Data Analysis Software. In: Real‐Time PCR; Current Technology and Applications. Ed. J.Logan, K.Edwards, and N.Saunders. Norfolk: Caister Academic Press. 65‐84. Pochart,P., Lemann,F., Flourie,B., Pellier,P., Goderel,I., and Rambaud,J.C. (1993). Pyxigraphic Sampling to Enumerate Methanogens and Anaerobes in the Right Colon of Healthy Humans. Gastroenterology. 105:1281‐1285. Pokusaeva,K., Fitzgerald,G.F., and van Sinderen,D. (2011). Carbohydrate metabolism in Bifidobacteria. Genes and Nutrition. 6:285‐306. Poltorak,A. et al. (1998). Defective LPS signaling in C3H/HeJ and C57BL/10ScCr mice: Mutations in Tlr4 gene. Science. 282:2085‐2088. Ponchel,F. et al. (2003). Real‐time PCR based on SYBR‐Green I fluorescence: An alternative to the TaqMan assay for a relative quantification of gene rearrangements, gene amplifications and micro gene deletions. Bmc Biotechnology doi:10.1186/1472‐6750‐3‐18. Pretzer,G., Snel,J., Molenaar,D., Wiersma,A., Bron,P.A., Lambert,J., de Vos,W.M., van der Meer,R., Smits,M.A., and Kleerebezem,M. (2005). Biodiversity‐based identification and functional characterization of the mannose‐specific adhesin of Lactobacillus plantarum. Journal of Bacteriology. 187:6128‐6136. Pridmore,R.D. et al. (2004). The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533. Proceedings of the National Academy of Sciences of the United States of America. 101:2512‐2517. Probert,H.M. and Gibson,G.R. (2002). Investigating the prebiotic and gas‐generating effects of selected carbohydrates on the human colonic microflora. Letters in Applied Microbiology. 35:473‐480. 176
References Pullan,R.D., Thomas,G.A.O., Rhodes,M., Newcombe,R.G., Williams,G.T., Allen,A., and Rhodes,J. (1994). Thickness of Adherent Mucus Gel on Colonic Mucosa in Humans and Its Relevance to Colitis. Gut. 35:353‐359. Qin,J.J. et al. (2010). A human gut microbial gene catalogue established by metagenomic sequencing. Nature. 464:59‐U70. Rajilic‐Stojanovic,M., Smidt,H., and de Vos,W.M. (2007). Diversity of the human gastrointestinal tract microbiota revisited. Environmental Microbiology. 9:2125‐2136. Rastall,R.A. (2007). Prebiotics. In: Chemical and Functional Properties of Food Components Taylor & Francis Group. 391‐411. Roberfroid,M. (2007). Prebiotics: The concept revisited. Journal of Nutrition. 137:830S‐837S. Roberfroid,M.B. and Delzenne,N.M. (1998). Dietary fructans. Annual Review of Nutrition. 18:117‐143. Rodriguez‐Cabezas,M.E. et al. (2010). The combination of fructooligosaccharides and resistant starch shows prebiotic additive effects in rats. Clinical Nutrition. 29:832‐839. Roos,S. and Jonsson,H. (2002). A high‐molecular‐mass cell‐surface protein from Lactobacillus reuteri 1063 adheres to mucus components. Microbiology. 148:433‐442. Rose,D.J., Venema,K., Keshavarzian,A., and Hamaker,B.R. (2010). Starch‐entrapped microspheres show a beneficial fermentation profile and decrease in potentially harmful bacteria during in vitro fermentation in faecal microbiota obtained from patients with inflammatory bowel disease. British Journal of Nutrition. 103:1514‐1524. Round,J.L., Lee,S.M., Li,J., Tran,G., Jabri,B., Chatila,T.A., and Mazmanian,S.K. (2011). The Toll‐Like Receptor 2 Pathway Establishes Colonization by a Commensal of the Human Microbiota. Science. 332:974‐977. Rowan,F., Docherty,N.G., Murphy,M., Murphy,B., Coffey,J.C., and O'Connell,P.R. (2010). Desulfovibrio Bacterial Species Are Increased in Ulcerative Colitis. Diseases of the Colon & Rectum. 53:1530‐1536. Rumi,G., Tsubouchi,R., Okayama,M., Kato,S., Mozsik,G., and Takeuchi,K. (2004). Protective effect of lactulose on dextran sulfate sodium‐induced colonic inflammation in rats. Digestive Diseases and Sciences. 49:1466‐1472. Saikaly,P.E., Barlaz,M.A., and de los Reyes,F.L. (2007). Development of quantitative real‐time PCR assays for detection and quantification of surrogate biological warfare agents in building debris and leachate. Applied and Environmental Microbiology. 73:6557‐6565. Salminen,S., Bouley,C., Boutron‐Ruault,M.C., Cummings,J.H., Franck,A., Gibson,G.R., Isolauri,E., Moreau,M.C., Roberfroid,M., and Rowland,I. (1998). Functional food science and gastrointestinal physiology and function. British Journal of Nutrition. 80:S147‐S171. Sangeetha,P.T., Ramesh,M.N., and Prapulla,S.G. (2005). Recent trends in the microbial production, analysis and application of Fructooligosaccharides. Trends in Food Science & Technology. 16:442‐457. Sanz,M.L., Cote,G.L., Gibson,G.R., and Rastall,R.A. (2006). Influence of glycosidic linkages and molecular weight on the fermentation of maltose‐based oligosaccharides by human gut bacteria. Journal of Agricultural and Food Chemistry. 54:9779‐9784. Sanz,M.L., Gibson,G.R., and Rastall,R.A. (2005). Influence of disaccharide structure on prebiotic selectivity in vitro. Journal of Agricultural and Food Chemistry. 53:5192‐5199. Sanz,Y. and De Palma,G. (2009). Gut Microbiota and Probiotics in Modulation of Epithelium and Gut‐ Associated Lymphoid Tissue Function. International Reviews of Immunology. 28:397‐413. Sartor,R.B. (2006). Mechanisms of disease: pathogenesis of Crohn's disease and ulcerative colitis. Nature Clinical Practice Gastroenterology & Hepatology. 3:390‐407. Sartor,R.B. (2008). Therapeutic correction of bacterial dysbiosis discovered by molecular techniques. Proceedings of the National Academy of Sciences of the United States of America. 105:16413‐16414. Saulnier,D.M., Santos,F., Roos,S., Mistretta,T.A., Spinler,J.K., Molenaar,D., Teusink,B., and Versalovic,J. (2011). Exploring Metabolic Pathway Reconstruction and Genome‐Wide Expression Profiling in Lactobacillus reuteri to Define Functional Probiotic Features. Plos One. 6:1‐14. 177
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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 177 and 178: 7. Discussion and perspectives Disc
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