Beyond the oral microbiome

Environmental Microbiology

Volumn 13, Issue 12, 2011, Pages 3077-3087

  Jenkinson, Howard F ^a  

^a UNIVERSITY OF BRISTOL   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL GENOME; BACTERIUM; GENETICS; GENOMICS; HUMAN; ISOLATION AND PURIFICATION; METAGENOME; MICROBIOLOGY; MOUTH; SHORT SURVEY;

BACTERIA; GENOME, BACTERIAL; GENOMICS; HUMANS; METAGENOME; MOUTH;

EID: 82555165922     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2011.02573.x     Document Type: Short Survey

References (64)

1. Aas, J.A., Paster, B.J., Stokes, L.N., Olsen, I., and Dewhirst, F.E. (2005) Defining the normal bacterial flora of the oral cavity. J Clin Microbiol 43: 5721-5732.
2. Aas, J.A., Barbuto, S.M., Alpagot, T., Olsen, I., Dewhirst, F.E., and Paster, B.J. (2007) Subgingival plaque microbiota in HIV positive patients. J Clin Periodontol 34: 189-195.
3. Abiko, Y., Sato, T., Mayanagi, G., and Takahashi, N. (2010) Profiling of subgingival plaque biofilm microflora from periodontally healthy subjects and from subjects with periodontitis using quantitative real-time PCR. J Periodontal Res 45: 389-395.
4. Apolônio, A.C., Carvalho, M.A., Bemquerer, M.P., Santoro, M.M., Pinto, S.Q., Oliveira, J.S., etal. (2008) Purification and partial characterization of a bacteriocin produced by Eikenella corrodens. J Appl Microbiol 194: 508-514.
5. Bamford, C.V., d'Mello, A., Nobbs, A.H., Dutton, L.C., Vickerman, M.M., and Jenkinson, H.F. (2009) Streptococcus gordonii modulates Candida albicans biofilm formation through intergeneric communication. Infect Immun 77: 3696-3704.
6. Bamford, C.V., Francescutti, T., Cameron, C.E., Jenkinson, H.F., and Dymock, D. (2010) Characterization of a novel family of fibronectin-binding proteins with M23 peptidase domains from Treponema denticola. Mol Oral Microbiol 25: 369-383.
7. Bik, E.M., Long, C.D., Armitage, G.C., Loomer, P., Emerson, J., Mongodin, E.F., etal. (2010) Bacterial diversity in the oral cavity of 10 healthy individuals. ISME J 4: 962-974.
8. Bradshaw, D.J., and Marsh, P.D. (1998) Analysis of pH-driven disruption of oral microbial communities in vitro. Caries Res 32: 456-462.
9. Chen, T., Yu, W.-H., Izard, J., Baranova, O.V., Lakshmanan, A., and Dewhirst, F.E. (2010) The human oral microbiome database: a web accessible resource for investigating oral microbe taxonomic and genetic information. Database 2010: baq013.
10. Colombo, A.P., Boches, S.K., Cotton, S.L., Goodson, J.J., Kent, R., Haffajee, A.D., etal. (2009) Comparisons of subgingival microbial profiles of refractory periodontitis, severe periodontitis, and periodontal health using the human oral microbe identification microarray. J Periodontol 80: 1421-1432.
11. Daep, C.A., Novak, E.A., Lamont, R.J., and Demuth, D.R. (2011) Structural dissection and in vivo effectiveness of a peptide inhibitor of Porphyromonas gingivalis adherence to Streptococcus gordonii. Infect Immun 79: 67-74.
12. Dewhirst, F.E., Chen, T., Izard, J., Paster, B.J., Tanner, A.C.R., Yu, W.H., etal. (2010) The human oral microbiome. J Bacteriol 192: 2002-5017.
13. Diaz, P.I., Chalmers, N.I., Rickard, A.H., Kong, C., Milburn, C.L., Palmer, R.J. Jr., and Kolenbrander, P.E. (2006) Molecular characterization of subject-specific oral microflora during initial colonization of enamel. Appl Environ Microbiol 72: 2837-2848.
14. Faveri, M., Mayer, M.P., Feres, M., de Figueiredo, I.C., Dewhirst, F.E., and Paster, B.J. (2008) Microbial diversity of generalized aggressive periodontitis by 16S rRNA clonal analysis. Oral Microbiol Immunol 23: 112-118.
15. Fitzgerald, R.J., and Keyes, P.H. (1960) Demonstration of the etiologic role of streptococci in experimental caries in the hamster. J Am Dent Assoc 61: 9-19.
16. Ghannoum, M.A., Jurevic, R.J., Mukherjee, P.K., Cui, F., Sikaroodi, M., Naqvi, A., and Gillevet, P.M. (2010) Characterization of the oral fungal microbiome (mycobiome) in healthy individuals. PLoS Pathog 6: e10000713.
17. Gross, E.L., Leys, E.J., Gasparovich, S.R., Forestone, N.D., Schwartzbaum, J.A., Janies, D.A., etal. (2010) Bacterial 16S sequence analysis of severe caries in young permanent teeth. J Clin Microbiol 48: 4121-4128.
18. Haffajee, A.D., Socransky, S.S., Patel, M.R., and Song, X. (2008) Microbial complexes in supragingival plaque. Oral Microbiol Immunol 23: 196-205.
19. Hajishengallis, G. (2010) Too old to fight? Aging and its toll on innate immunity. Mol Oral Microbiol 25: 25-37.
20. Harriott, M.M., and Noverr, M.C. (2010) Ability of Candida albicans mutants to induce Staphylococcus aureus vancomycin resistance during polymicrobial biofilm formation. Antimicrob Agents Chemother 54: 3746-3755.
21. Hossain, M.S., and Biswas, I. (2011) Mutacins from Streptococcus mutans UA159 are active against multiple streptococcal species. Appl Environ Microbiol 77: 2428-2434.
22. Jenkinson, H.F., and Lamont, R.L. (2005) Oral microbial communities in sickness and in health. Trends Microbiol 13: 589-595.
23. Kaewsrichan, J., Douglas, C.W.I., Nissen-Meyer, J., Fimland, G., and Teanpaisan, R. (2004) Characterization of a bacteriocin produced by Prevotella nigrescens ATCC 25261. Lett Appl Microbiol 39: 451-458.
24. Kanasi, E., Dewhirst, F.E., Chalmers, N.I., Kent, R.J., Moore, A., etal. (2010) Clonal analysis of the microbiota of severe early childhood caries. Caries Res 44: 485-497.
25. Kazor, C.E., Mitchell, P.M., Lee, A.M., Stokes, L.N., Loesche, W.J., Dewhirst, F.E., and Paster, B.J. (2003) Diversity of bacterial populations on the tongue dorsa of patients with halitosis and healthy patients. J Clin Microbiol 41: 558-563.
26. King, S.J. (2010) Pneumococcal modification of host sugars: a major contributor to colonization of the human airway? Mol Oral Microbiol 25: 15-24.
27. Kolenbrander, P.E., Palmer, R.J. Jr, Periasamyu, S., and Jakubovics, N.S. (2010) Oral multispecies biofilm development and the key role of cell-cell distance. Nat Rev Microbiol 8: 471-480.
28. Kreth, J., Zhang, Y., and Herzberg, M.C. (2008) Streptococcal antagonism in oral biofilms: Streptococcus sanguinis and Streptococcus gordonii interference with Streptococcus mutans. J Bacteriol 190: 4632-4640.
29. Li, T., Khah, M.K., Slavnic, S., Johansson, I., and Strömberg, N. (2001) Different type 1 fimbrial genes and tropisms of commensal and potentially pathogenic Actinomyces spp. with different salivary acid proline-rich protein and statherin ligand specificities. Infect Immun 69: 7224-7233.
30. McNab, R., Ford, S.K., El-Sabeny, A., Barbieri, B., Cook, G.S., and Lamont, R.J. (2003) LuxS-based signalling in Streptococcus gordonii: autoinducer 2 controls carbohydrate metabolism and biofilm formation with Porphyromonas gingivalis. J Bacteriol 185: 274-284.
31. Mantzourani, M., Gilbert, S.C., Sulong, H.N., Sheehy, E.C., Tank, S., Fenlon, M., and Beighton, D. (2009) The isolation of bifidobacteria from occlusal carious lesions in children and adults. Caries Res 43: 308-313.
32. Mantzourani, M., Gilbert, S.C., Fenton, M., and Beighton, D. (2010) Non-oral bifidobacteria and the aciduric microbiota of the denture plaque biofilm. Mol Oral Microbiol 25: 190-199.
33. Merritt, J., Kreth, J., Shi, W., and Qi, F. (2005) LuxS controls bacteriocin production in Streptococcus mutans through a novel regulatory component. Mol Microbiol 57: 960-969.
34. Moter, A., Riep, B., Haban, V., Heuner, K., Siebert, G., Berning, M., etal. (2006) Molecular epidemiology of oral treponemes in patients with periodontitis and in periodontitis-resistant subjects. J Clin Microbiol 44: 3078-3085.
35. Nagaoka, S., Hojo, K., Murata, S., Mori, T., Ohshima, T., and Maeda, N. (2008) Interactions between salivary Bifidobacterium adolescentis and other bacteria: in vitro coaggregation and coadhesion assays. FEMS Microbiol Lett 281: 183-189.
36. Nagata, H., Iwasaki, M., Maeda, K., Kuboniwa, M., Hashino, E., Toe, M., etal. (2009) Identification of the binding domain of Streptococcus oralis glyceraldehydre-3-phosphate dehydrogenase for Porphyromonas gingivalis major fimbriae. Infect Immun 77: 5130-5138.
37. Nobbs, A.H., Lamont, R.J., and Jenkinson, H.F. (2009) Streptococcus adherence and colonization. Microbiol Mol Biol Rev 73: 407-450.
38. Nyvad, B., and Kilian, M. (1990) Comparison of the initial streptococcal microflora on dental enamel in caries-active and in caries-inactive individuals. Caries Res 24: 267-272.
39. Okinaga, T., Xie, Z., Niu, G., Qi, F., and Merritt, J. (2010) Examination of the hdrRM regulon yields insight into the competence system of Streptococcus mutans. Mol Oral Microbiol 25: 165-177.
40. Palmer, R.J. Jr, Kazmerzak, K., Hansen, M.C., and Kolenbrander, P.E. (2001) Mutualism versus independence: strategies of mixed-species oral biofilms in vitro using saliva as the sole nutrient source. Infect Immun 69: 5794-5804.
41. Papaioannou, W., Gizani, S., Haffajee, A.D., Quirynen, M., Mamai-Homata, E., and Papagiannoulis, L. (2009) The microbiota on different oral surfaces in healthy children. Oral Microbiol Immunol 24: 183-189.
42. Paster, B.J., and Dewhirst, F.E. (2009) Molecular microbial diagnosis. Periodontol 2000 51: 38-44.
43. Periasamy, S., and Kolenbrander, P.E. (2009) Mutualistic biofilm communities develop with Porphyromonas gingivalis and initial, early, and late colonizers of enamel. J Bacteriol 191: 6804-6811.
44. Ramsey, M.M., Rumbaugh, K.P., and Whiteley, M. (2011) Metabolite cross-feeding enhances virulence in a model polymicrobial infection. PLoS Pathog 7: e1002012.
45. Ribeiro-Ribas, R.N., de Carvalho, M.A., Vieira, C.A., Apolônio, A.C., Magãlhaes, P.P., etal. (2009) Purification and partial characterization of a bacteriocin produced by an oral Fusobacterium nucleatum isolate. J Appl Microbiol 107: 699-705.
46. Riggio, M.P., Lennon, A., Rolph, H.J., Hosge, P.J., Donaldson, A., etal. (2008) Molecular identification of bacteria on the tongue dorsum of subjects with and without halitosis. Oral Dis 14: 251-258.
47. Roberts, A.P., and Mullany, P. (2006) Genetic basis of horizontal gene transfer among oral bacteria. Periodotol 2000 42: 36-46.
48. Rudney, J.D., Xie, H., Rhodus, N.L., Ondrey, F.G., and Griffin, T.J. (2010) A metaproteomic analysis of the human salivary microbiota by three-dimensional peptide fractionation and tandem mass spectrometry. Mol Oral Microbiol 25: 38-49.
49. Siqueira, J.F. Jr, and Rôças, I.N. (2005) Uncultivated phylotypes and newly named species associated with primary and persistent endodontic infections. J Clin Microbiol 43: 3314-3319.
50. Siqueira, J.F. Jr, and Rôças, I.N. (2009) Diversity of endodontic microbiota revisted. J Dent Res 88: 969-981.
51. Socransky, S.S. (1970) Relationship of bacteria to the etiology of periodontal disease. J Dent Res 49: 203-222.
52. Socransky, S.S., Haffajee, A.D., Cugini, M.A., Smith, C., and Kent, R.L. Jr (1998) Microbial complexes in subgingival plaque. J Clin Periodontol 25: 134-144.
53. Sundqvist, G. (1994) Taxonomy, ecology, and pathogenicity of the root canal flora. Oral Surg Oral Med Oral Pathol 78: 522-530.
54. Takahashi, N., and Nyvad, B. (2011) The role of bacteria in the caries process: ecological perspectives. J Dent Res 90: 294-303.
55. Takahashi, N., Washio, J., and Mayanagi, G. (2010) Metabolomics of supragingival plaque and oral bacteria. J Dent Res 89: 1383-1388.
56. Tanner, A.C.R., Mathney, J.M.J., Kent, R.L. Jr, Chalmers, N.I., Hughes, C.V., Loo, C.Y., etal. (2011) Cultivable anaerobic microbiota of severe early childhood caries. J Clin Microbiol 49: 1464-1474.
57. Turnbaugh, P.J., Hamady, M., Yatsunenko, T., Cantarel, B.L., Duncan, A., Ley, R.E., etal. (2009) A core gut microbiome in obese and lean twins. Nature 457: 480-484.
58. Upton, M., Tagg, J.R., Wescombe, P., and Jenkinson, H.F. (2001) Intra- and interspecies signalling between Streptococcus salivarius and Streptococcus pyogenes mediated by SalA and SalA1 lantibiotic peptides. J Bacteriol 183: 3931-3938.
59. Valm, A.M., Welch, J.L., Rieken, C.W., Hasegawa, Y., Sogin, M.L., Oldenbourg, R., etal. (2011) Systems-level analysis of microbial community organization through combinatorial labelling and spectral imaging. Proc Natl Acad Sci USA 108: 4152-4157.
60. Ventura, M., Turroni, F., Zomer, A., Foroni, E., Giubellini, V., Bottacini, F., etal. (2009) The Bifidobacterium dentium Bd1 genome sequence reflects its genetic adaptation to the human oral cavity. PLoS Genet 5: e1000785.
61. Wescombe, P.A., Upton, M., Renault, P., Wirawan, R.E., Power, D., Burton, J.P., etal. (2011) Salivaricin 9, a new lantibiotic produced by Streptococcus salivarius. Microbiology 157: 1290-1299.
62. Xie, G., Chain, P.S., Lo, C.C., Liu, K.L., Gans, J., Merritt, J., and Qi, F. (2010) Community and gene composition of a human dental plaque microbiota obtained by metagenomic sequencing. Mol Oral Microbiol 25: 391-405.
63. Yang, J., Ritchey, M., Yoshida, Y., Bush, C.A., and Cisar, J.O. (2009) Comparative structural and molecular characterization of ribitol-5-phosphate-containing Streptococcus oralis coaggregation receptor polysaccharides. J Bacteriol 191: 1891-1900.
64. Zaura, E., Keijser, B.J., Huse, S.M., and Crielaard, W. (2009) Defining the healthy 'core microbiome' of oral microbial communities. BMC Micorbiol 9: 259.