Oral microbiome
- Authors: Kopetsky I.S.1, Pobozhieva L.V.1, Kopetskaya A.I.1, Shevelyuk J.V.2
-
Affiliations:
- N.I. Pirogov Russian National Research Medical University
- I.M. Sechenov First Moscow Medicine State University
- Issue: Vol 27, No 4 (2021)
- Pages: 365-372
- Section: Reviews
- URL: https://journals.rcsi.science/0869-2106/article/view/106279
- DOI: https://doi.org/10.17816/0869-2106-2021-27-4-365-372
- ID: 106279
Cite item
Abstract
This study aimed to analyze the characteristics of the oral microbiome in dental caries and inflammatory periodontal diseases based on available data in the modern literature. This article is based on the analysis of materials from international and Russian studies in the PubMed, CyberLeninka, and MedLine databases over the past 15 years. An imbalance in the oral microbiome can develop dental caries and periodontal diseases. Normally, the oral microbiome contains Firmicutes, Proteobacteria, Actinobacteria, Bacteroides, Fusobacterium, and Spirochetes. With dental caries, S. mutans, Atopobium, Propionibacterium, and Lactobacillus are determined. The presence of Veillonella, Porphyromonas gingivalis, Tannerella forsythia, Aggregatibacter actinomycetemcomitans, Treponema, and Prevotella in the oral microbiome is associated with periodontal disease. The oral microbiome database comprises comprehensive data that describe bacterial species and the 16S rRNA that define the set of oral microbes. The microbiome is influenced by local and general factors.
Keywords
Full Text
##article.viewOnOriginalSite##About the authors
Igor S. Kopetsky
N.I. Pirogov Russian National Research Medical University
Email: kopetski@rambler.ru
ORCID iD: 0000-0002-4723-6067
MD, Dr. Sci. (Med.), Professor
Russian Federation, MoscowLudmila V. Pobozhieva
N.I. Pirogov Russian National Research Medical University
Email: ludmila-stomatolog@mail.ru
ORCID iD: 0000-0002-6150-0282
MD, Cand. Sci. (Med.), assistant professor
Russian Federation, MoscowAlena I. Kopetskaya
N.I. Pirogov Russian National Research Medical University
Author for correspondence.
Email: alyonasom@gmail.ru
ORCID iD: 0000-0003-3199-5314
Russian Federation, Moscow
Julia V. Shevelyuk
I.M. Sechenov First Moscow Medicine State University
Email: shevelyuk_yu_v@staff.sechenov.ru
ORCID iD: 0000-0002-3854-456X
MD, Cand. Sci. (Med.), assistant lecturer
Russian Federation, MoscowReferences
- Dewhirst FE. The Oral Microbiome: Critical for Understanding Oral Health and Disease. J Calif Dent Assoc. 2016;44(7):409–410. PMC7061343
- Bowen WH, Burne RA, Wu H, Koo H. Oral Biofilms: Pathogens, Matrix, and Polymicrobial Interactions in Microenvironments. Trends Microbiol. 2018;26(3):229–242. doi: 10.1016/j.tim.2017.09.008
- Kilian M. The oral microbiome – friend or foe? Eur J Oral Sci. 2018;126 Suppl 1:5–12. doi: 10.1111/eos.12527
- Chimenos-Küstner E, Giovannoni ML, Schemel-Suárez M. Dysbiosis as a determinant factor of systemic and oral pathology: Importance of micorbiome. Medicina Clínica (English Edition). 2017;149(7):305–309. doi: 10.1016/j.medcle.2017.05.023
- Chaplin AV, Rebrikov DV, Boldureva MN. The human microbiome. Bulletin of Russian State Medical University. 2017;(2):5-13. (In Russ).
- Verma D, Garg PK, Dubey AK. Insights into the human oral microbiome. Arch Microbiol. 2018;200(4):525–540. doi: 10.1007/s00203-018-1505-3
- Aas JA, Paster BJ, Stokes LN, et al. Defining the normal bacterial flora of the oral cavity. J Clin Microbiol. 2005;43(11):5721–5732. doi: 10.1128/JCM.43.11.5721-5732.2005
- Blaser MJ. The microbiome revolution. J Clin Invest. 2014;124(10):4162–4165. doi: 10.1172/JCI78366
- Wade WG. The oral microbiome in health and disease. Pharmacol Res. 2013;69(1):137–143. doi: 10.1016/j.phrs.2012.11.006
- Costalonga M, Herzberg MC. The oral microbiome and the immunobiology of periodontal disease and caries. Immunol Lett. 2014;162(2 Pt A):22–38. doi: 10.1016/j.imlet.2014.08.017
- Bandara H, Panduwawala CP, Samaranayake LP. Biodiversity of the human oral mycobiome in health and disease. Oral Dis. 2019;25(2):363–371. doi: 10.1111/odi.12899
- Gao L, Xu T, Huang G, et al. Oral microbiomes: more and more importance in oral cavity and whole body. Protein Cell. 2018;9(5):488–500. doi: 10.1007/s13238-018-0548-1
- Curtis MA, Diaz PI, Van Dyke TE. The role of the microbiota in periodontal disease. Periodontol 2000. 2020;83(1):14–25. doi: 10.1111/prd.12296
- Van Dyke TE, Sima C. Understanding resolution of inflammation in periodontal diseases: Is chronic inflammatory periodontitis a failure to resolve? Periodontol 2000. 2020;82(1):205–213. doi: 10.1111/prd.12317
- Marsh PD, Do T, Beighton D, Devine DA. Influence of saliva on the oral microbiota. Periodontol 2000. 2016;70(1):80–92.
- doi: 10.1111/prd.12098
- Hartenbach F, Velasquez E, Nogueira FCS, et al. Proteomic analysis of whole saliva in chronic periodontitis. J Proteomics. 2020;213:103602. doi: 10.1016/j.jprot.2019.103602
- Larsen T, Fiehn NE. Dental biofilm infections – an update. APMIS. 2017;125(4):376–384. doi: 10.1111/apm.12688
- Struzycka I. The oral microbiome in dental caries. Pol J Microbiol. 2014;63(2):127–135.
- Takahashi N, Nyvad B. The role of bacteria in the caries process: ecological perspectives. J Dent Res. 2011;90(3):294–303. doi: 10.1177/0022034510379602
- Valm AM. The Structure of Dental Plaque Microbial Communities in the Transition from Health to Dental Caries and Periodontal Disease. J Mol Biol. 2019;431(16):2957–2969. doi: 10.1016/j.jmb.2019.05.016
- Proctor DM, Shelef KM, Gonzalez A, et al. Microbial biogeography and ecology of the mouth and implications for periodontal diseases. Periodontol 2000. 2020;82(1):26–41. doi: 10.1111/prd.12268
- Bagramian RA, Garcia-Godoy F, Volpe AR. The global increase in dental caries. A pending public health crisis. Am J Dent. 2009;22(1): 3–8.
- Nyvad B, Crielaard W, Mira A, et al. Dental caries from a molecular microbiological perspective. Caries Res. 2013;47(2):89–102. doi: 10.1159/000345367
- Zaura E, Keijser BJ, Huse SM, Crielaard W. Defining the healthy "core microbiome" of oral microbial communities. BMC Microbiol. 2009;9:259. doi: 10.1186/1471-2180-9-259
- Human Microbiome Project C. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486(7402):207–214. doi: 10.1038/nature11234
- 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(6):R42. doi: 10.1186/gb-2012-13-6-r42
- Simon-Soro A, Guillen-Navarro M, Mira A. Metatranscriptomics reveals overall active bacterial composition in caries lesions. J Oral Microbiol. 2014;6:25443. doi: 10.3402/jom.v6.25443
- Zaura E. Next-generation sequencing approaches to understanding the oral microbiome. Adv Dent Res. 2012;24(2):81–85. doi: 10.1177/0022034512449466
- Ribeiro AA, Azcarate-Peril MA, Cadenas MB, et al. The oral bacterial microbiome of occlusal surfaces in children and its association with diet and caries. PLoS One. 2017;12(7):e0180621. doi: 10.1371/journal.pone.0180621
- Tanner ACR, Kressirer CA, Rothmiller S, et al. The Caries Microbiome: Implications for Reversing Dysbiosis. Adv Dent Res. 2018;29(1):78–85. doi: 10.1177/0022034517736496
- Gomez A, Nelson KE. The Oral Microbiome of Children: Deve lopment, Disease, and Implications Beyond Oral Health. Microb Ecol. 2017;73(2):492–503. doi: 10.1007/s00248-016-0854-1
- Lif Holgerson P, Ohman C, Ronnlund A, Johansson I. Maturation of Oral Microbiota in Children with or without Dental Caries. PLoS One. 2015;10(5):e0128534. doi: 10.1371/journal.pone.0128534
- Jiang S, Gao X, Jin L, Lo EC. Salivary Microbiome Diversity in Caries-Free and Caries-Affected Children. Int J Mol Sci. 2016;17(12). doi: 10.3390/ijms17121978
- Johansson I, Witkowska E, Kaveh B, et al. The Microbiome in Populations with a Low and High Prevalence of Caries. J Dent Res. 2016;95(1):80–86. doi: 10.1177/0022034515609554
- Deng W, Xi D, Mao H, Wanapat M. The use of molecular techniques based on ribosomal RNA and DNA for rumen microbial ecosystem studies: a review. Mol Biol Rep. 2008;35(2):265–274. doi: 10.1007/s11033-007-9079-1
- Yang B, Wang Y, Qian PY. Sensitivity and correlation of hypervariable regions in 16S rRNA genes in phylogenetic analysis. BMC Bioinformatics. 2016;17:135. doi: 10.1186/s12859-016-0992-y
- Yamashita Y, Takeshita T. The oral microbiome and human health. J Oral Sci. 2017;59(2):201–206. doi: 10.2334/josnusd.16-0856
- Belibasakis GN, Bostanci N, Marsh PD, Zaura E. Applications of the oral microbiome in personalized dentistry. Arch Oral Biol. 2019;104:7–12. doi: 10.1016/j.archoralbio.2019.05.023
- Krishnan K, Chen T, Paster BJ. A practical guide to the oral microbiome and its relation to health and disease. Oral Dis. 2017;23(3):276–286. doi: 10.1111/odi.12509
- Becker MR, Paster BJ, Leys EJ, et al. Molecular analysis of bacterial species associated with childhood caries. J Clin Microbiol. 2002;40(3):1001–1009. doi: 10.1128/JCM.40.3.1001-1009.2002
- Belstrom D, Fiehn NE, Nielsen CH, et al. Differentiation of salivary bacterial profiles of subjects with periodontitis and dental caries. J Oral Microbiol. 2015;7:27429. doi: 10.3402/jom.v7.27429
- Belstrom D, Paster BJ, Fiehn NE, et al. Salivary bacterial fingerprints of established oral disease revealed by the Human Oral Microbe Identification using Next Generation Sequencing (HOMINGS) technique. J Oral Microbiol. 2016;8:30170. doi: 10.3402/jom.v8.30170
- Benitez-Paez A, Belda-Ferre P, Simon-Soro A, Mira A. Microbiota diversity and gene expression dynamics in human oral biofilms. BMC Genomics. 2014;15:311. doi: 10.1186/1471-2164-15-311
- Caporaso JG, Lauber CL, Walters WA, et al. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci U S A. 2011;108 Suppl 1:4516–4522. doi: 10.1073/pnas.1000080107
- Colombo AP, Boches SK, Cotton SL, et al. Comparisons of subgingival microbial profiles of refractory periodontitis, severe perio dontitis, and periodontal health using the human oral microbe identification microarray. J Periodontol. 2009;80(9):1421–1432. doi: 10.1902/jop.2009.090185
- 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(10):1279–1287. doi: 10.1902/jop.2012.110566
- Duran-Pinedo AE, Chen T, Teles R, et al. Community-wide transcriptome of the oral microbiome in subjects with and without perio dontitis. ISME J. 2014;8(8):1659–1672. doi: 10.1038/ismej.2014.23
- Gomes BP, Berber VB, Kokaras AS, et al. Microbiomes of Endodontic-Periodontal Lesions before and after Chemomechanical Preparation. J Endod. 2015;41(12):1975–1984. doi: 10.1016/j.joen.2015.08.022
- Guerra F, Mazur M, Ndokaj A, et al. Periodontitis and the microbiome: a systematic review and meta-analysis. Minerva Stomatol. 2018;67(6):250–258. doi: 10.23736/S0026-4970.18.04198-5