Role of Intestinal Microbiota in Ulcerative Colitis

More documents

Recommendations

Info

32. Matsuki T, Watanabe K, Fujimoto J, Takada T, Tanaka R. (2004) Use of 16S rRNA gene‐targeted group‐specific primers for real‐time PCR analysis of predominant bacteria in human feces. Applied and Environmental Microbiology. 70:7220‐7228. 33. Matsuki T, Watanabe K, Tanaka R, Oyaizu H. (1998) Rapid identification of human intestinal bifidobacteria by 16S rRNA‐targeted species‐ and group‐specific primers. Fems Microbiology Letters. 167:113‐121. 34. O'Sullivan DJ, Kullen MJ. (1998) Tracking of probiotic bifidobacteria in the intestine. International Dairy Journal. 8:513‐525. 35. Ott SJ, Musfeldt M, Timmis KN, Hampe J, Wenderoth DF, Schreiber S. (2004) In vitro alterations of intestinal bacterial microbiota in fecal samples during storage. Diagnostic Microbiology and Infectious Disease. 50:237‐ 245. 36. Peran L, Camuesco D, Comalada M, Bailon E, Henriksson A, Xaus J et al.. (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. 37. Peran L, Camuesco D, Comalada M, Nieto A, Concha A, Adrio JL et al.. (2006) Lactobacillus fermentum, a probiotic capable to release glutathione, prevents colonic inflammation in the TNBS model of rat colitis. International Journal of Colorectal Disease. 21:737‐746. 38. Pfaffl MW: Relative Quantification. In Real‐Time PCR. Edited by Torak D. Taylor & Francis; 2006:63‐82. 39. Png CW, Linden SK, Gilshenan KS, Zoetendal EG, McSweeney CS, Sly LI et al.. (2010) Mucolytic Bacteria With Increased Prevalence in IBD Mucosa Augment In Vitro Utilization of Mucin by Other Bacteria. American Journal of Gastroenterology. 105:2420‐2428. 40. Pullan RD, Thomas GAO, Rhodes M, Newcombe RG, Williams GT, Allen A et al.. (1994) Thickness of Adherent Mucus Gel on Colonic Mucosa in Humans and Its Relevance to Colitis. Gut. 35:353‐359. 41. Qin JJ, Li RQ, Raes J, Arumugam M, Burgdorf KS, Manichanh C et al.. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature. 464:59‐70. 42. Riedel CU, Foata F, Philippe D, Adolfsson O, Eikmanns BJ, Blum S. (2006) Anti‐inflammatory effects of bifidobacteria by inhibition of LPS‐induced NF‐kappa B activation. World Journal of Gastroenterology. 12:3729‐ 3735. 43. Sartor RB. (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. 44. Sartor RB. (2006) Mechanisms of disease: pathogenesis of Crohn's disease and ulcerative colitis. Nature Clinical Practice Gastroenterology & Hepatology. 3:390‐407. 45. Sartor RB. (2004) Therapeutic manipulation of the enteric microflora in inflammatory bowel diseases: Antibiotics, probiotics, and prebiotics. Gastroenterology. 126:1620‐1633. 46. Segain JP, de la Bletiere DR, Bourreille A, Leray V, Gervois N, Rosales C et al.. (2000) Butyrate inhibits inflammatory responses through NF kappa B inhibition: implications for Crohn's disease. Gut. 47:397‐403. 47. Shanks OC, Atikovic E, Blackwood AD, Lu JR, Noble RT, Domingo JS et al.. (2008) Quantitative PCR for detection and enumeration of genetic markers of bovine fecal pollution. Applied and Environmental Microbiology. 74:745‐752. 24
48. Shen J, Zhang BR, Wei GF, Pang X, Wei H, Li M et al.. (2006) Molecular profiling of the Clostridium leptum subgroup in human fecal microflora by PCR‐denaturing gradient gel electrophoresis and clone library analysis. Applied and Environmental Microbiology. 72:5232‐5238. 49. Shirasawa Y, Shibahara‐Sone H, Iino T, Ishikawa F. (2010) Bifidobacterium bifidum BF‐1 suppresses Helicobacter pylori‐induced genes in human epithelial cells. Journal of Dairy Science. 93:4526‐4534. 50. Sokol H, Lay C, Seksik P, Tannock GW. (2008) Analysis of bacterial bowel communities of IBD patients: What has it revealed? Inflammatory Bowel Diseases. 14:858‐867. 51. Sokol H, Seksik P, Furet JP, Firmesse O, Nion‐Larmurier L, Beaugerie L et al.. (2009) Low Counts of Faecalibacterium prausnitzii in Colitis Microbiota. Inflammatory Bowel Diseases. 15:1183‐1189. 52. Takaishi H, Matsuki T, Nakazawa A, Takada T, Kado S, Asahara T et al.. (2008) Imbalance in intestinal microflora constitution could be involved in the pathogenesis of inflammatory bowel disease. International Journal of Medical Microbiology. 298:463‐472. 53. Van Passel MWJ, Kant R, Zoetendal EG, Plugge CM, Derrien M, Malfatti SA et al.. (2011) The Genome of Akkermansia muciniphila, a Dedicated Intestinal Mucin Degrader, and Its Use in Exploring Intestinal Metagenomes. Plos One. 6:1‐8. 54. Vanderpool C, Yan F, Polk DB. (2008) Mechanisms of Probiotic Action: Implications for Therapeutic Applications in Inflammatory Bowel Diseases. Inflammatory Bowel Diseases. 14:1585‐1596. 55. Walter J, Tannock GW, Tilsala‐Timisjarvi A, Rodtong S, Loach DM, Munro K et al.. (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. 56. Wu XK, Ma CF, Han L, Nawaz M, Gao F, Zhang XY et al.. (2010) Molecular Characterisation of the Faecal Microbiota in Patients with Type II Diabetes. Current Microbiology. 61:69‐78. 57. Zeuthen LH, Fink LN, Metzdorff SB, Kristensen MB, Licht TR, Nellemann C et al.. (2010) Lactobacillus acidophilus induces a slow but more sustained chemokine and cytokine response in naive foetal enterocytes compared to commensal Escherichia coli. Bmc Immunology. doi: 10.1186/1471‐2172‐11‐2. 58. Zhou JS, Gopal PK, Gill HS. (2001) Potential probiotic lactic acid bacteria Lactobacillus rhamnosus (HN001), Lactobacillus acidophilus (HN017) and Bifidobacterium lactis (HN019) do not degrade gastric mucin in vitro. International Journal of Food Microbiology. 63:81‐90. 59. Zocco MA, Dal Verme LZ, Cremonini F, Piscaglia AC, Nista EC, Candelli M et al.. (2006) Efficacy of Lactobacillus GG in maintaining remission of ulcerative colitis. Alimentary Pharmacology & Therapeutics. 23:1567‐1574. 60. Zoetendal EG, Vaughan EE, de Vos WM. (2006) A microbial world within us. Molecular Microbiology. 59:1639‐ 1650. 25
Page 1:
Role of Intestinal Microbiota in Ul
Page 4 and 5:
Role of Intestinal Microbiota in Ul
Page 6 and 7:
Preface Preface This thesis present
Page 8 and 9:
Summary Summary The microbiota of t
Page 10 and 11:
Dansk sammendrag Dansk sammendrag M
Page 12 and 13:
Introduction and objectives Introdu
Page 14 and 15:
List of Manuscripts Not included in
Page 16 and 17:
List of contents List of Centents P
Page 18 and 19:
List of Centents Methodology append
Page 21 and 22:
1. The intestinal environment Theor
Page 23 and 24:
Theoretical part 5 1. The intestina
Page 25 and 26:
2. The colonic environment Theoreti
Page 27 and 28:
Theoretical part 9 2. The colonic e
Page 29 and 30:
Table 1: The presence of glycoside
Page 31 and 32:
Theoretical part Figure 3: The colo
Page 33 and 34: 3. Inflammatory Bowel disease Theor
Page 35 and 36: Theoretical part 17 3. Inflammatory
Page 37 and 38: Theoretical part 19 4. Modulation o
Page 43 and 44: Table 4: Clinical trials on the pre
Page 45 and 46: Theoretical part 5. Production of p
Page 51: Methodology part
Page 54 and 55: Methodology part 6. Methodology, co
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
Page 70 and 71: The PCA of the Gram‐positive bact
Page 72 and 73: layer of UC patients and found that
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
Page 80 and 81: Supplementary Figure S1. Dice clust
Page 82 and 83: Reference List 1. Ahmed S, Macfarla
Page 87 and 88: Methodology part Paper 2 Fecal lact
Page 89 and 90: Fecal lactobacilli and bifidobacter
Page 91 and 92: Introduction The mucus layer lining
Page 93 and 94: efore enrolment and there was no si
Page 95 and 96: (Bio‐Rad Labs, Hercules, Californ
Page 97 and 98: Microbial community analysis using
Page 99 and 100: difference from the luminal microbi
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
Page 119 and 120: 8338 VIGSNÆS ET AL. APPL. ENVIRON.
Page 125: 8344 VIGSNÆS ET AL. APPL. ENVIRON.
Page 128 and 129: Methodology part Introduction The a
Page 130 and 131: Journal of Agricultural and Food Ch
Page 132 and 133: Journal of Agricultural and Food Ch
Page 134 and 135:
Journal of Agricultural and Food Ch
Page 136 and 137:
Journal of Agricultural and Food Ch
Page 139 and 140:
Methodology part Paper 5 Paper 5 Ma
Page 141 and 142:
Appl Microbiol Biotechnol (2011) 90
Page 143 and 144:
Page 145 and 146:
Page 147 and 148:
Page 149 and 150:
Page 151 and 152:
Page 153 and 154:
Methodology part Paper 6 Tailored e
Page 155 and 156:
Process Biochemistry 46 (2011) 1039
Page 157 and 158:
Table 1 List of enzymes. Enzyme Sou
Page 159 and 160:
J. Holck et al. / Process Biochemis
Page 161 and 162:
Intensity 50 0 C1 175.05 J. Holck e
Page 163 and 164:
J. Holck et al. / Process Biochemis
Page 165:
[29] Bauer S, Vasu P, Persson S, Mo
Page 168 and 169:
Methodology part 150
Page 170 and 171:
Methodology part 152 Appendix 1 hor
Page 172 and 173:
Appendix 3 Methodology part Appendi
Page 174 and 175:
Methodology part 156 Appendix 3
Page 177 and 178:
7. Discussion and perspectives Disc
Page 179 and 180:
Discussion and conclusion 161 7. Di
Page 181 and 182:
Page 183 and 184:
Page 185 and 186:
References References Abreu,M.T., V
Page 187 and 188:
References Derrien,M., Vaughan,E.E.
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 and 198:
References Tannock,G.W. (2010). Ana
Page 200:
National Food Institute Technical U
show all

Role of Intestinal Microbiota in Ulcerative Colitis

Create successful ePaper yourself

Delete template?

Save as template?