Mucosal barrier depletion and loss of bacterial diversity are primary abnormalities in paediatric ulcerative colitis

Journal of Crohn's and Colitis

Volumn 10, Issue 4, 2016, Pages 462-471

  Alipour, Misagh ^a   Zaidi, Deenaz ^a   Valcheva, Rosica ^a   Jovel, Juan ^a   Martínez, Inés ^a   Sergi, Consolato ^a   Walter, Jens ^a   Mason, Andrew L ^a   Ka Shu Wong, Gane ^a,b   Dieleman, Levinus A ^a   Carroll, Matthew W ^a   Huynh, Hien Q ^a   Winea, Eytan ^a  

^a UNIVERSITY OF ALBERTA   (Canada)

^b BGI SHENZHEN   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ALCIAN BLUE; IMMUNOGLOBULIN A; IMMUNOGLOBULIN G; MUCIN 2; RNA 16S;

ADOLESCENT; AMPLICON; ARTICLE; CHILD; CLINICAL ARTICLE; CONTROLLED STUDY; CROHN DISEASE; FEMALE; FLUORESCENCE IN SITU HYBRIDIZATION; GENE; GENE EXPRESSION; GENE SEQUENCE; GOBLET CELL; HUMAN; HUMAN TISSUE; ILEITIS; IMMUNOFLUORESCENCE; INFLAMMATION; INFLAMMATORY BOWEL DISEASE; INTESTINE BIOPSY; INTESTINE FLORA; MALE; NLRP6 GENE; PERIODIC ACID SCHIFF STAIN; PRIORITY JOURNAL; PROTEIN DEPLETION; PROTEIN SECRETION; TERMINAL ILEUM; ULCERATIVE COLITIS; BIOPSY; CASE CONTROL STUDY; GENETICS; ILEUM; INTESTINE MUCOSA; MICROBIOLOGY; PATHOLOGY; PRESCHOOL CHILD; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION;

ADOLESCENT; BIOPSY; CASE-CONTROL STUDIES; CHILD; CHILD, PRESCHOOL; COLITIS, ULCERATIVE; CROHN DISEASE; GASTROINTESTINAL MICROBIOME; HUMANS; ILEUM; IN SITU HYBRIDIZATION, FLUORESCENCE; INTESTINAL MUCOSA; MALE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S;

EID: 84966429158     PISSN: 18739946     EISSN: 18764479     Source Type: Journal    
DOI: 10.1093/ecco-jcc/jjv223     Document Type: Article

References (51)

1. El Aidy S, Merrifield CA, Derrien M, et al. The gut microbiota elicits a profound metabolic reorientation in the mouse jejunal mucosa during conventionalisation. Gut 2013;62:1306-14.
2. Wlodarska M, Willing BP, Bravo DM, Finlay BB. Phytonutrient diet supplementation promotes beneficial clostridia species and intestinal mucus secretion resulting in protection against enteric infection. Sci Rep 2015;5:9253.
3. Sanchez de Medina F, Romero-Calvo I, Mascaraque C, Martinez-Augustin O. Intestinal inflammation and mucosal barrier function. Inflamm Bowel Dis 2014;20:2394-404.
4. Johansson ME, Sjovall H, Hansson GC. The gastrointestinal mucus system in health and disease. Nat Rev Gastroenterol Hepatol 2013;10:352-61.
5. Johansson ME. Mucus layers in inflammatory bowel disease. Inflamm Bowel Dis 2014;20:2124-31.
6. Kamada N, Sakamoto K, Seo SU, et al. Humoral immunity in the gut selectively targets phenotypically virulent attaching-and-effacing bacteria for intraluminal elimination. Cell Host Microbe 2015;17:617-27.
7. Antoni L, Nuding S, Weller D, et al. Human colonic mucus is a reservoir for antimicrobial peptides. J Crohns Colitis 2013;7:e652-64.
8. Mantis NJ, Rol N, Corthesy B. Secretory IgA's complex roles in immunity and mucosal homeostasis in the gut. Mucosal Immunol 2011;4:603-11.
9. Kaiko GE, Stappenbeck TS. Host-microbe interactions shaping the gastrointestinal environment. Trends Immunol 2014;35:538-48.
10. Ushiku T, Moran CJ, Lauwers GY. Focally enhanced gastritis in newly diagnosed pediatric inflammatory bowel disease. Am J Surg Pathol 2013;37:1882-8.
11. DeRoche TC, Xiao SY, Liu X. Histological evaluation in ulcerative colitis. Gastroenterol Rep [Oxf] 2014;2:178-92.
12. Wlodarska M, Kostic AD, Xavier RJ. An integrative view of microbiomehost interactions in inflammatory bowel diseases. Cell Host Microbe 2015;17:577-91.
13. Missaghi B, Barkema HW, Madsen KL, Ghosh S. Perturbation of the human microbiome as a contributor to inflammatory bowel disease. Pathogens 2014;3:510-27.
14. Kostic AD, Xavier RJ, Gevers D. The microbiome in inflammatory bowel disease: Current status and the future ahead. Gastroenterology 2014;146:1489-99.
15. Michail S, Durbin M, Turner D, et al. Alterations in the gut microbiome of children with severe ulcerative colitis. Inflamm Bowel Dis 2012;18:1799- 808.
16. Hedin C, van der Gast CJ, Rogers GB, et al. Siblings of patients with Crohn's disease exhibit a biologically relevant dysbiosis in mucosal microbial metacommunities. Gut 2015, 10.1136/gutjnl-2014-308896.
17. Boltin D, Perets TT, Vilkin A, Niv Y. Mucin function in inflammatory bowel disease: An update. J Clin Gastroenterol 2013;47:106-11.
18. Patel KK, Miyoshi H, Beatty WL, et al. Autophagy proteins control goblet cell function by potentiating reactive oxygen species production. EMBO J 2013;32:3130-44.
19. Sadaghian Sadabad M, Regeling A, de Goffau MC, et al. The ATG16l1- t300a allele impairs clearance of pathosymbionts in the inflamed ileal mucosa of Crohn's disease patients. Gut 2015;64:1546-52.
20. Schaubeck M, Clavel T, Calasan J, et al. Dysbiotic gut microbiota causes transmissible Crohn's disease-like ileitis independent of failure in antimicrobial defence. Gut 2015, 10.1136/gutjnl-2015-309333.
21. Wehkamp J, Harder J, Weichenthal M, et al. Inducible and constitutive beta-defensins are differentially expressed in Crohn's disease and ulcerative colitis. Inflamm Bowel Dis 2003;9:215-23.
22. Larsson JM, Karlsson H, Crespo JG, et al. Altered o-glycosylation profile of muc2 mucin occurs in active ulcerative colitis and is associated with increased inflammation. Inflamm Bowel Dis 2011;17:2299-307.
23. Johansson ME, Gustafsson JK, Holmen-Larsson J, et al. Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis. Gut 2014;63:281-91.
24. Png CW, Linden SK, Gilshenan KS, et al. Mucolytic bacteria with increased prevalence in IBD mucosa augment in vitro utilization of mucin by other bacteria. Am J Gastroenterol 2010;105:2420-8.
25. Heazlewood CK, Cook MC, Eri R, et al. Aberrant mucin assembly in mice causes endoplasmic reticulum stress and spontaneous inflammation resembling ulcerative colitis. PLoS Med 2008;5:e54.
26. Wlodarska M, Thaiss CA, Nowarski R, et al. Nlrp6 inflammasome orchestrates the colonic host-microbial interface by regulating goblet cell mucus secretion. Cell 2014;156:1045-59.
27. Elinav E, Strowig T, Kau AL, et al. Nlrp6 inflammasome regulates colonic microbial ecology and risk for colitis. Cell 2011;145:745-57.
28. Levine A, Griffiths A, Markowitz J, et al. Pediatric modification of the Montreal classification for inflammatory bowel disease: The Paris classification. Inflamm Bowel Dis 2011;17:1314-21.
29. Villanacci V, Antonelli E, Geboes K, Casella G, Bassotti G. Histological healing in inflammatory bowel disease: A still unfulfilled promise. World J Gastroenterol 2013;19:968-78.
30. Schneider CA, Rasband WS, Eliceiri KW. Nih image to imagej: 25 years of image analysis. Nat Methods 2012;9:671-5.
31. Klindworth A, Pruesse E, Schweer T, et al. Evaluation of general 16s ribosomal RNA gene PCR primers for classical and next-generation sequencing- based diversity studies. Nucleic Acids Res 2013;41:e1.
32. Caporaso JG, Kuczynski J, Stombaugh J, et al. Qiime allows analysis of high-throughput community sequencing data. Nat Methods 2010;7:335- 6.
33. Edgar RC. Uparse: Highly accurate otu sequences from microbial amplicon reads. Nat Methods 2013;10:996-8.
34. Wang Q, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of RRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 2007;73:5261-7.
35. Lozupone C, Knight R. Unifrac: A new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 2005;71:8228-35.
36. Eren AM, Morrison HG, Lescault PJ, Reveillaud J, Vineis JH, Sogin ML. Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences. ISME J 2015;9:968-79.
37. Pullan RD, Thomas GA, Rhodes M, et al. Thickness of adherent mucus gel on colonic mucosa in humans and its relevance to colitis. Gut 1994;35:353-9.
38. Dorofeyev AE, Vasilenko IV, Rassokhina OA, Kondratiuk RB. Mucosal barrier in ulcerative colitis and Crohn's disease. Gastroenterol Res Pract 2013;2013:431231.
39. Fyderek K, Strus M, Kowalska-Duplaga K, et al. Mucosal bacterial microflora and mucus layer thickness in adolescents with inflammatory bowel disease. World J Gastroenterol 2009;15:5287-94.
40. Lim LG, Neumann J, Hansen T, et al. Confocal endomicroscopy identifies loss of local barrier function in the duodenum of patients with Crohn's disease and ulcerative colitis. Inflamm Bowel Dis 2014;20:892-900.
41. Conte MP, Schippa S, Zamboni I, et al. Gut-associated bacterial microbiota in paediatric patients with inflammatory bowel disease. Gut 2006;55:1760-7.
42. Frehn L, Jansen A, Bennek E, et al. Distinct patterns of IgG and IgA against food and microbial antigens in serum and feces of patients with inflammatory bowel diseases. PLoS One 2014;9:e106750.
43. Palm NW, de Zoete MR, Cullen TW, et al. Immunoglobulin a coating identifies colitogenic bacteria in inflammatory bowel disease. Cell 2014;158:1000-10.
44. Macpherson A, Khoo UY, Forgacs I, Philpott-Howard J, Bjarnason I. Mucosal antibodies in inflammatory bowel disease are directed against intestinal bacteria. Gut 1996;38:365-75.
45. Gremel G, Wanders A, Cedernaes J, et al. The human gastrointestinal tractspecific transcriptome and proteome as defined by RNA sequencing and antibody- based profiling. J Gastroenterol 2014, 10.1007/s00535-014-0958-7.
46. Gersemann M, Becker S, Kubler I, et al. Differences in goblet cell differentiation between Crohn's disease and ulcerative colitis. Differentiation 2009;77:84-94.
47. Gevers D, Kugathasan S, Denson LA, et al. The treatment-naive microbiome in new-onset Crohn's disease. Cell Host Microbe 2014;15:382-92.
48. Frank DN, St Amand AL, Feldman RA, Boedeker EC, Harpaz N, Pace NR. Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proc Natl Acad Sci U S A 2007;104:13780-5.
49. Morgan XC, Tickle TL, Sokol H, et al. Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment. Genome Biol 2012;13:R79.
50. Lennon G, Balfe A, Earley H, et al. Influences of the colonic microbiome on the mucous gel layer in ulcerative colitis. Gut Microbes 2014;5:277-85.
51. O'Brien CL, Allison GE, Grimpen F, Pavli P. Impact of colonoscopy bowel preparation on intestinal microbiota. PLoS One 2013;8:e62815.