Alterations of the Subgingival Microbiota in Pediatric Crohn's Disease Studied Longitudinally in Discovery and Validation Cohorts

Inflammatory Bowel Diseases

Volumn 21, Issue 12, 2015, Pages 2797-2805

  Kelsen, Judith ^a   Bittinger, Kyle ^b   Pauly Hubbard, Helen ^a   Posivak, Leah ^a   Grunberg, Stephanie ^b   Baldassano, Robert ^a   Lewis, James D ^c   Wu, Gary D ^c   Bushman, Frederic D ^b  

^a CHILDREN S HOSPITAL OF PHILADELPHIA   (United States)

^b 426 Johnson Pavilion ^*  (United States)

^c UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

16S; infliximab; microbiome

Indexed keywords

ACETYLSALICYLIC ACID; ANTIBIOTIC AGENT; IMMUNOMODULATING AGENT; INFLIXIMAB; RNA 16S; STEROID; ANTIINFECTIVE AGENT; ANTIINFLAMMATORY AGENT; GASTROINTESTINAL AGENT; IMMUNOLOGIC FACTOR; MESALAZINE;

ADOLESCENT; ADULT; ARTICLE; CAPNOCYTOPHAGA; CHILD; CLINICAL ARTICLE; CLINICAL FEATURE; COHORT ANALYSIS; CONTROLLED STUDY; CROHN DISEASE; DISEASE ACTIVITY; DISEASE ASSOCIATION; GENE SEQUENCE; HUMAN; LONGITUDINAL STUDY; MICROBIAL COMMUNITY; MOUTH FLORA; PHENOTYPE; PRIORITY JOURNAL; ROTHIA; TREATMENT DURATION; UNITED STATES; CASE CONTROL STUDY; COMPLICATION; DRUG EFFECTS; FEMALE; GENETICS; GINGIVA; GINGIVAL DISEASES; MALE; MICROBIOLOGY; MICROFLORA; PATHOLOGY; PRESCHOOL CHILD; YOUNG ADULT;

ADOLESCENT; ANTI-BACTERIAL AGENTS; ANTI-INFLAMMATORY AGENTS; CAPNOCYTOPHAGA; CASE-CONTROL STUDIES; CHILD; CHILD, PRESCHOOL; CROHN DISEASE; FEMALE; GASTROINTESTINAL AGENTS; GINGIVA; GINGIVAL DISEASES; HUMANS; IMMUNOLOGIC FACTORS; INFLIXIMAB; LONGITUDINAL STUDIES; MALE; MESALAMINE; MICROBIOTA; RNA, RIBOSOMAL, 16S; STEROIDS; YOUNG ADULT;

EID: 84948160354     PISSN: 10780998     EISSN: 15364844     Source Type: Journal    
DOI: 10.1097/MIB.0000000000000557     Document Type: Article

References (42)

1. Plauth M, Jenss H, Meyle J. Oral manifestations of Crohn's disease. An analysis of 79 cases. J Clin Gastroenterol. 1991;13:29-37.
2. Pittock S, Drumm B, Fleming P, et al. The oral cavity in Crohn's disease. JPediatr. 2001;138:767-771.
3. Harty S, Fleming P, Rowland M, et al. A prospective study of the oral manifestations of Crohn's disease. Clin Gastroenterol Hepatol. 2005;3: 886-891.
4. Hovav AH. Dendritic cells of the oral mucosa. Mucosal Immunol. 2014;7: 27-37.
5. Di Benedetto A, Gigante I, Colucci S, et al. Periodontal disease: linking the primary inflammation to bone loss. Clin Dev Immunol. 2013;2013: 503754.
6. Teles R, Teles F, Frias-Lopez J, et al. Lessons learned and unlearned in periodontal microbiology. Periodontol 2000. 2013;62:95-162.
7. Colombo AP, Bennet S, Cotton SL, et al. Impact of periodontal therapy on the subgingival microbiota of severe periodontitis: comparison between good responders and individuals with refractory periodontitis using the human oral microbe identification microarray. J Periodontol. 2012;83: 1279-1287.
8. Mdala I, Olsen I, Haffajee AD, et al. Multilevel analysis of bacterial counts from chronic periodontitis after root planing/scaling, surgery, and systemic and local antibiotics: 2-year results. J Oral Microbiol. 2013;5:20939.
9. Handfield M, Mans JJ, Zheng G, et al. Distinct transcriptional profiles characterize oral epithelium-microbiota interactions. Cell Microbiol. 2005;7:811-823.
10. Chung WO, An JY, Yin L, et al. Interplay of protease-activated receptors and NOD pattern recognition receptors in epithelial innate immune responses to bacteria. Immunol Lett. 2010;131:113-119.
11. Docktor MJ, Paster BJ, Abramowicz S, et al. Alterations in diversity of the oral microbiome in pediatric inflammatory bowel disease. Inflamm Bowel Dis. 2012;18:935-942.
12. Brito F, Zaltman C, Carvalho AT, et al. Subgingival microflora in inflammatory bowel disease patients with untreated periodontitis. Eur J Gastroenterol Hepatol. 2013;25:239-245.
13. Williams K, Thomson D, Seto I, et al. Standard 6: age groups for pediatric trials. Pediatrics. 2012;129:S153-S160.
14. McKenna P, Hoffmann C, Minkah N, et al. The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis. PLoS Pathog. 2008;4:e20.
15. Caporaso JG, Kuczynski J, Stombaugh J, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7:335-336.
16. Edgar RC. Search and clustering orders of magnitude faster than BLAST. Bioinformatics. 2010;26:2460-2461.
17. McDonald D, Price MN, Goodrich J, et al. An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J. 2012;6:610-618.
18. R Core Team. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing; 2014.
19. Lozupone C, Knight R. UniFrac: a new phylogenetic method for comparing microbial communities. ApplEnviron Microbiol. 2005;71:8228-8235.
20. Lozupone CA, Hamady M, Kelley ST, et al. Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities. Appl Environ Microbiol. 2007;73:1576-1585.
21. Anderson MJ. A new method for non-parametric multivariate analysis of variance. Austral Ecol. 2001;26:32-46.
22. Benjamini Y, Hochberg Y. Controlling the false discovery rate-a Practical and Powerful Approach to multiple testing. J Roy Stat Soc B Met. 1995;57:289-300.
23. Segata N, Haake SK, Mannon P, et al. Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples. Genome Biol. 2012;13:R42.
24. Breiman L. Random forests. Mach Learn. 2001;45:5-32.
25. Bonatti H, Rossboth DW, Nachbaur D, et al. A series of infections due to Capnocytophaga spp in immunosuppressed and immunocompetent patients. Clin Microbiol Infect. 2003;9:380-387.
26. Sixou JL, Aubry-Leuliette A, De Medeiros-Battista O, et al. Capnocyto-phaga in the dental plaque of immunocompromised children with cancer. Int J Paediatr Dent. 2006;16:75-80.
27. Kim JA, Hong SK, Kim EC. Capnocytophaga sputigena bacteremia in a patient with chronic lymphocytic leukemia. Ann Lab Med. 2014;34:325-327.
28. Campbell JR, Edwards MS. Capnocytophaga species infections in children. Pediatr Infect Dis J. 1991;10:944-948.
29. Sakalauskiene J, Kubilius R, Gleiznys A, et al. Relationship of clinical and microbiological variables in patients with type 1 diabetes mellitus and periodontitis. Med Sci Monit. 2014;20:1871-1877.
30. Kumar PS, Griffen AL, Barton JA, et al. New bacterial species associated with chronic periodontitis. J Dent Res. 2003;82:338-344.
31. Abusleme L, Dupuy AK, Dutzan N, et al. The subgingival microbiome in health and periodontitis and its relationship with community biomass and inflammation. ISME J. 2013;7:1016-1025.
32. Kistler JO, Booth V, Bradshaw DJ, et al. Bacterial community development in experimental gingivitis. PLoS One. 2013;8:e71227.
33. Griffen AL, Beall CJ, Campbell JH, et al. Distinct and complex bacterial profiles in human periodontitis and health revealed by 16S pyrosequenc-ing. ISME J. 2012;6:1176-1185.
34. Kataoka H, Taniguchi M, Fukamachi H, et al. Rothia dentocariosa induces TNF-alpha production in a TLR2-dependent manner. Pathog Dis. 2014; 71:65-68.
35. Yeung DF, Parsa A, Wong JC, et al. A case of rothia dentocariosa bac-teremia in a patient receiving infliximab for ulcerative colitis. Am J Gas-troenterol. 2014;109:297-298.
36. Kuehbacher T, Rehman A, Lepage P, et al. Intestinal TM7 bacterial phylogenies in active inflammatory bowel disease. J Med Microbiol. 2008;57:1569-1576.
37. Brinig MM, Lepp PW, Ouverney CC, et al. Prevalence of bacteria of division TM7 in human subgingival plaque and their association with disease. Appl Environ Microbiol. 2003;69:1687-1694.
38. Liu B, Faller LL, Klitgord N, et al. Deep sequencing of the oral microbiome reveals signatures of periodontal disease. PLoS One. 2012;7:e37919.
39. Socransky SS, Haffajee AD, Teles R, et al. Effect of periodontal therapy on the subgingival microbiota over a 2-year monitoring period. I. Overall effect and kinetics of change. J Clin Periodontol. 2013;40:771-780.
40. Santos BR, Demeda CF, Silva EE, et al. Prevalence of subgingival Staph-ylococcus at periodontally healthy and diseased sites. Braz Dent J. 2014; 25:271-276.
41. Lourenco TG, Heller D, Silva-Boghossian CM, et al. Microbial signature profiles of periodontally healthy and diseased patients. J Clin Periodontol. 2014;41:1027-1036.
42. Scher JU, Bretz WA, Abramson SB. Periodontal disease and subgingival microbiota as contributors for rheumatoid arthritis pathogenesis: modifiable risk factors? Curr Opin Rheumatol. 2014;26:424-429.