Role of Intestinal Microbiota in Ulcerative Colitis

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Introduction Methodology part The aim of this study was to examine the ability of fecal microbiota derived from UC patients in either remission or relapse, and healthy subjects to colonize an artificial mucus layer using a dynamic in vitro gut model. Flow diagram Paper 2 The author, Louise K. Vigsnæs, participated in the design of the study, conducted the experiments, performed the data analyzes and drafted the manuscript. The manuscript is still in a preliminary state. The following analyzes and data treatments will be added in the final version: • Growth curves for sixteen different bacterial taxa (see flow diagram): Samples were taken out at 0, 18, 26 and 42 hours from the lumen. Louise K. Vigsnæs is conducting these analyzes. • SCFA analysis for acetate, butyrate and propionate: Samples were taken out at 0, 1.5, 3, 5, 18, 20, 22, 23.5, 25, and 42 hours. Louise K. Vigsnæs and Pieter Van den Abbeele are conducting these analyzes. • Mass spectrometry (MS) on samples from the lumen and mucus (42 hours). Karolina Sulek is conducting the MS. 70
Fecal lactobacilli and bifidobacteria from ulcerative colitis patients display reduced ability to colonize mucus in the MSHIME. Louise Kristine Vigsnaes 1* , Pieter van den Abbeele 2 , Tom van de Wiele 2 and Tine Rask Licht 1 . 1 Department of Microbiology and Risk Assessment, National Food Institute, Technical University of Denmark, Mørkhøj Bygade 19, 2860 Søborg, Denmark. 2 Laboratory of Microbial Ecology and Technology (LabMET), Ghent University, Coupure Links 653, B‐9000 Gent, Belgium *Corresponding author: Tel.: +45 35 88 70 24; Fax: +45 35 88 70 28; E‐mail: lokv@food.dtu.dk Key word: Ulcerative colitis, mucus colonization, qPCR, bifidobacteria, lactobacilli, butyrate‐ producing bacteria, dynamic gut model. 1
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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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Page 45 and 46: Theoretical part 5. Production of p
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Page 60 and 61: Introduction Methodology part 42 Pa
Page 62 and 63: Abstract Background Detailed knowle
Page 64 and 65: depending the level of disease acti
Page 66 and 67: in 1 x TAE at 60 °C for 16 h at 36
Page 68 and 69: Statistics PCA were generated by SA
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Page 74 and 75: Acknowledgements The authors thank
Page 76 and 77: Table 2 ‐ 16S rRNA gene and 16S
Page 78 and 79: 1. Firmicutes phylum 2. Bacteroidet
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Page 82 and 83: Reference List 1. Ahmed S, Macfarla
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Page 91 and 92: Introduction The mucus layer lining
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Page 101 and 102: that C. coccoides group and C. lept
Page 103 and 104: Table 1 ‐ 16S rRNA gene of phylum
Page 105 and 106: Table 2 ‐ Preference of bacterial
Page 107 and 108: Figure 1. A) Schematic overview of
Page 109 and 110: A. B. Figure 3. Principal component
Page 111 and 112: 15. Fooks LJ, Gibson GR. (2002) In
Page 113 and 114: 47. Ouwehand AC, Suomalainen T, Tol
Page 115 and 116: Methodology part Paper 3 Paper 3 In
Page 117 and 118: APPLIED AND ENVIRONMENTAL MICROBIOL
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Methodology part Paper 5 Paper 5 Ma
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Appl Microbiol Biotechnol (2011) 90
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Methodology part Paper 6 Tailored e
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Process Biochemistry 46 (2011) 1039
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Table 1 List of enzymes. Enzyme Sou
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J. Holck et al. / Process Biochemis
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Intensity 50 0 C1 175.05 J. Holck e
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J. Holck et al. / Process Biochemis
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[29] Bauer S, Vasu P, Persson S, Mo
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Methodology part 150
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Methodology part 152 Appendix 1 hor
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Appendix 3 Methodology part Appendi
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Methodology part 156 Appendix 3
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7. Discussion and perspectives Disc
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Discussion and conclusion 161 7. Di
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References References Abreu,M.T., V
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References Derrien,M., Vaughan,E.E.
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References Haarman,M. and Knol,J. (
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References Lantz,P.G., Matsson,M.,
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References Matsuki,T., Watanabe,K.,
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References Pullan,R.D., Thomas,G.A.
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References Tannock,G.W. (2010). Ana
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National Food Institute Technical U
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Role of Intestinal Microbiota in Ulcerative Colitis

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