Pyrosequencing analysis of the oral microflora of healthy adults
Abstract
A good definition of commensal microflora and an understanding of its relation to health are essential in preventing and combating disease. We hypothesized that the species richness of human oral microflora is underestimated. Saliva and supragingival plaque were sampled from 71 and 98 healthy adults, respectively. Amplicons from the V6 hypervariable region of the small-subunit ribosomal RNA gene were generated by PCR, pooled into saliva and plaque pools, and sequenced by means of the Genome Sequencer 20 system at 454 Life Sciences. Data were evaluated by taxonomic and rarefaction analyses. The 197,600 sequences generated yielded about 29,000 unique sequences, representing 22 taxonomic phyla. Grouping the sequences in operational taxonomic units (6%) yielded 3621 and 6888 species-level phylotypes in saliva and plaque, respectively. This work gives a radically new insight into the diversity of human oral microflora, which, with an estimated number of 19,000 phylotypes, is considerably higher than previously reported.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Reduction in pathogenic periodontal bacteria in biofilms by mechanical instrumentation through nonsurgical periodontal treatment has limited long-term benefits.
“The reduction in pathogenic periodontal bacteria in biofilms by mechanical instrumentation [13] through nonsurgical periodontal treatment has been shown to have limited long-term benefits [14,15].”
From A Cross-Talk between Diet and the Oral Microbiome: Balance of Nutrition on Inflammation and Immune System’s Response during Periodontitis (2022) · cites this paper as [15]
Cites
Pruesse, E., Quast, C., Knittel, K., Fuchs, B. M., Ludwig, W., Peplies, J., & Glöckner, F. O. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm864 · Cited by 6,682 · see citing works
Microbial diversity in the deep sea and the underexplored “rare biosphere”
Sogin, M. L., Morrison, H. G., Huber, J. A., Welch, D. B. M., Huse, S. M., Neal, P. R., Arrieta, J. M., & Herndl, G. J. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0605127103 · Cited by 3,683 · see citing works
Defining the normal bacterial flora of the oral cavity
Aas, J. A., Paster, B. J., Stokes, L. N., Olsen, I., & Dewhirst, F. E. (2005) · Journal of Clinical Microbiology · doi:10.1128/jcm.43.11.5721-5732.2005 · Cited by 3,092 · see citing works
Schloss, P. D., & Handelsman, J. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.3.1501-1506.2005 · Cited by 2,503 · see citing works
Review and re-analysis of domain-specific 16S primers
Baker, G. C., Smith, J. J., & Cowan, D. A. (2003) · Journal of Microbiological Methods · doi:10.1016/j.mimet.2003.08.009 · Cited by 1,867 · see citing works
Pyrosequencing enumerates and contrasts soil microbial diversity
Roesch, L. F. W., Fulthorpe, R. R., Riva, A., Casella, G., Hadwin, A. K. M., Kent, A. D., Daroub, S. H., Camargo, F. A. D. O., Farmerie, W. G., & Triplett, E. W. (2007) · The ISME Journal · doi:10.1038/ismej.2007.53 · Cited by 1,856 · see citing works
A Sequencing Method Based on Real-Time Pyrophosphate
Ronaghi, M., Uhlén, M., & Nyrén, P. (1998) · Science · doi:10.1126/science.281.5375.363 · Cited by 1,630 · see citing works
The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis
Cole, J. R. (2004) · Nucleic Acids Research · doi:10.1093/nar/gki038 · Cited by 1,462 · see citing works
Accuracy and quality of massively parallel DNA pyrosequencing
Huse, S. M., Huber, J. A., Morrison, H. G., Sogin, M. L., & Welch, D. B. M. (2007) · Genome biology · doi:10.1186/gb-2007-8-7-r143 · Cited by 1,285 · see citing works
Bacteria of Dental Caries in Primary and Permanent Teeth in Children and Young Adults
Aas, J. A., Griffen, A. L., Dardis, S. R., Lee, A. M., Olsen, I., Dewhirst, F. E., Leys, E. J., & Paster, B. J. (2008) · Journal of Clinical Microbiology · doi:10.1128/jcm.01410-07 · Cited by 952 · cited 1× · see citing works
“Recent studies where cloning and sequencing approaches of microbial 16S rDNA were applied to the oral microflora have identified still more new species (Aas et al., 2008; Preza et al., 2008; Riggio et al., 2008).”
BackgroundMicrobial Population Structures in the Deep Marine Biosphere
Huber, J. A., Welch, D. B. M., Morrison, H. G., Huse, S. M., Neal, P. R., Butterfield, D. A., & Sogin, M. L. (2007) · Science · doi:10.1126/science.1146689 · Cited by 887 · see citing works
The breadth of bacterial diversity in the human periodontal pocket and other oral sites
Paster, B. J., Olsen, I., Aas, J. A., & Dewhirst, F. E. (2006) · Periodontology 2000 · doi:10.1111/j.1600-0757.2006.00174.x · Cited by 862 · see citing works
Dowd, S. E., Sun, Y., Secor, P. R., Rhoads, D. D., Wolcott, B. M., James, G. A., & Wolcott, R. D. (2008) · BMC Microbiology · doi:10.1186/1471-2180-8-43 · Cited by 783 · see citing works
Marine microbial diversity: can it be determined?
Pedrós‐Alió, C. (2006) · Trends in Microbiology · doi:10.1016/j.tim.2006.04.007 · Cited by 734 · see citing works
Short pyrosequencing reads suffice for accurate microbial community analysis
Liu, Z., Lozupone, C., Hamady, M., Bushman, F. D., & Knight, R. D. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm541 · Cited by 692 · see citing works
Diversity of the human gastrointestinal tract microbiota revisited
Rajilić‐Stojanović, M., Smidt, H., & De Vos, W. M. (2007) · Environmental Microbiology · doi:10.1111/j.1462-2920.2007.01369.x · Cited by 559 · see citing works
Fine-scale phylogenetic architecture of a complex bacterial community
Acinas, S. G., Klepac‐Ceraj, V., Hunt, D. E., Pharino, C., Ceraj, I., Distel, D. L., & Polz, M. F. (2004) · Nature · doi:10.1038/nature02649 · Cited by 514 · see citing works
Molecular Analysis of the Microflora Associated with Dental Caries
Munson, M. A., Banerjee, A., Watson, T. F., & Wade, W. G. (2004) · Journal of Clinical Microbiology · doi:10.1128/jcm.42.7.3023-3029.2004 · Cited by 401 · see citing works
Molecular and Cultural Analysis of the Microflora Associated with Endodontic Infections
Munson, M. A., Ford, T. P., Bs, C., Weightman, A. J., & Wade, W. G. (2002) · Journal of Dental Research · doi:10.1177/154405910208101108 · Cited by 266 · see citing works
Molecular and Cultural Analysis of the Microflora Associated with Endodontic Infections
Munson, M. A., Ford, T. P., Chong, B., Weightman, A. J., & Wade, W. G. (2002) · Journal of Dental Research · doi:10.1177/0810761 · Cited by 264 · see citing works
Bacterial flora-typing with targeted, chip-based Pyrosequencing
Sundquist, A., Bigdeli, S., Jalili, R., Druzin, M. L., Waller, S. A., Pullen, K. M., El-Sayed, Y. Y., Taslimi, M. M., Batzoglou, S., & Ronaghi, M. (2007) · BMC Microbiology · doi:10.1186/1471-2180-7-108 · Cited by 231 · see citing works
Bacterial Profiles of Root Caries in Elderly Patients
Preza, D., Olsen, I., Aas, J. A., Willumsen, T., Grinde, B., & Paster, B. J. (2008) · Journal of Clinical Microbiology · doi:10.1128/jcm.02411-07 · Cited by 229 · see citing works
Next-Generation Sequencing: The Race Is On
von Bubnoff, A. (2008) · Cell · doi:10.1016/j.cell.2008.02.028 · Cited by 168 · see citing works
Boutaga, K., Savelkoul, P. H. M., Winkel, E. G., & Winkelhoff, A. J. V. (2007) · Journal of Periodontology · doi:10.1902/jop.2007.060078 · Cited by 137 · see citing works
Analysis of Temporal Gene Expression duringBacillus subtilisSpore Germination and Outgrowth
Keijser, B. J. F., Beek, A. T., Rauwerda, H., Schuren, F. H. J., Montijn, R. C., van der Spek, H., & Brul, S. (2007) · Journal of Bacteriology · doi:10.1128/jb.01736-06 · Cited by 135 · see citing works
Horz, H., Vianna, M. E., Gomes, B. P. F. D. A., & Conrads, G. (2005) · Journal of Clinical Microbiology · doi:10.1128/jcm.43.10.5332-5337.2005 · Cited by 132 · see citing works
Molecular identification of bacteria on the tongue dorsum of subjects with and without halitosis
Riggio, M. P., Lennon, A., Rolph, H., Hodge, P., Donaldson, A., Maxwell, A., & Bagg, J. (2007) · Oral Diseases · doi:10.1111/j.1601-0825.2007.01371.x · Cited by 97 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Occlusal Caries: Biological Approach for Its Diagnosis and Management
Carvalho, J. C., Dige, I., Mačhiulskienė, V., Qvist, V., Bakhshandeh, A., Parolo, C. C. F., & Maltz, M. (2016) · Caries Research · doi:10.1159/000448662 · Cited by 2,159 · see citing works
The oral microbiome in health and disease
Wade, W. G. (2013) · Pharmacological Research · doi:10.1016/j.phrs.2012.11.006 · Cited by 1,347 · see citing works
Environmental and Gut Bacteroidetes: The Food Connection
Thomas, F., Hehemann, J., Rebuffet, E., Czjzek, M., & Michel, G. (2011) · Frontiers in Microbiology · doi:10.3389/fmicb.2011.00093 · Cited by 1,328 · see citing works
“Bacteroidetes have also been found in the normal microbiota of the oral cavity, either in the saliva or dental plaque (Keijser et al., 2008; Nasidze et al., 2009a,b).”
BackgroundDefining the healthy “core microbiome” of oral microbial communities
Zaura, E., Keijser, B. J., Huse, S. M., & Crielaard, W. (2009) · BMC Microbiology · doi:10.1186/1471-2180-9-259 · Cited by 1,323 · see citing works
“Since saliva is easily and noninvasively accessible it is a popular sample in oral epidemiology and microbiome diversity [4,16] studies.”
InfluentialSelf-citationSegata, N., Haake, S. K., Mannon, P., Lemon, K. P., Waldron, L., Gevers, D., Huttenhower, C., & Izard, J. (2012) · Genome Biology · doi:10.1186/gb-2012-13-6-r42 · Cited by 1,076 · see citing works
“The oral microbiome as revealed in this investigation was generally consistent with earlier studies [11,13,14,22,66,67].”
ResultGriffen, A. L., Beall, C. J., Campbell, J. H., Firestone, N. D., Kumar, P., Yang, Z. K., Podar, M., & Leys, E. J. (2011) · The ISME Journal · doi:10.1038/ismej.2011.191 · Cited by 1,006 · see citing works
“Some recent sequencing efforts have estimated much higher numbers of species and a higher fraction of uncharacterized species (Keijser et al., 2008; Pushalkar et al., 2011).”
BackgroundNext-Generation Sequencing: From Basic Research to Diagnostics
Voelkerding, K. V., Dames, S. A., & Durtschi, J. (2009) · Clinical Chemistry · doi:10.1373/clinchem.2008.112789 · Cited by 846 · see citing works
Salivary Biomarkers: Toward Future Clinical and Diagnostic Utilities
Yoshizawa, J., Schafer, C. A., Schafer, J. J., Farrell, J. J., Paster, B. J., & Wong, D. T. (2013) · Clinical Microbiology Reviews · doi:10.1128/cmr.00021-13 · Cited by 671 · see citing works
“org) reside in the mouth, investigators using next-generation sequencing (NGS) suggest that this number could be as high as 10,000 (43, 44, 45, 46).”
BackgroundBacterial diversity in the oral cavity of 10 healthy individuals
Bik, E. M., Long, C. D., Armitage, G. C., Loomer, P., Emerson, J., Mongodin, E. F., Nelson, K. E., Gill, S. R., Fraser-Liggett, C. M., & Relman, D. A. (2010) · The ISME Journal · doi:10.1038/ismej.2010.30 · Cited by 651 · see citing works
“Two recent 16S rRNA gene-tag pyrosequencing-based studies have suggested that there are B250–300 species-level phylotypes in the mouth of any given individual, and that they segregate based on mucosal versus dental surfaces (Keijser et al., 2008; Zaura et al., 2009).”
BackgroundThe oral microbiome and the immunobiology of periodontal disease and caries
Costalonga, M., & Herzberg, M. C. (2014) · Immunology Letters · doi:10.1016/j.imlet.2014.08.017 · Cited by 645 · see citing works
“The power to comprehensively study bacterial community composition through determination of thousands of sequences per sample was facilitated by the advent of 454 pyrosequencing of V regions of 16S rRNA genes [18,20].”
BackgroundMicrobiota restoration: natural and supplemented recovery of human microbial communities
Reid, G., Younes, J. A., van der Mei, H. C., Gloor, G. B., Knight, R. D., & Busscher, H. J. (2010) · Nature Reviews Microbiology · doi:10.1038/nrmicro2473 · Cited by 585 · see citing works
Human oral microbiota and its modulation for oral health
Zhang, Y., Wang, X., Li, H., Ni, C., Du, Z., & Yan, F. (2018) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2018.01.146 · Cited by 546 · see citing works
Insights into the human oral microbiome
Verma, D., Garg, P. K., & Dubey, A. K. (2018) · Archives of Microbiology · doi:10.1007/s00203-018-1505-3 · Cited by 552 · see citing works
“The microbial diversity of the oral cavity has been extensively studied through traditional Sanger-based sequencing during 2005–2010 (Aas et al. 2005; DeLillo et al. 2006; Sakamoto et al. 2008; Faveri et al. 2008; Ribeiro et al. 2011; Keijser et al. 2008; Bik et al. 2010; Dewhirst et al. 2010).”
BackgroundThe oral metagenome in health and disease
Belda‐Ferre, P., Alcaraz, L. D., Cabrera‐Rubio, R., Romero, H., Simón‐Soro, Á., Pignatelli, M., & Mira, Á. (2011) · The ISME Journal · doi:10.1038/ismej.2011.85 · Cited by 540 · see citing works
“, 2010) and when short pyrosequencing reads of the 16S rRNA gene were used, uncertainties in taxonomic assignment (Keijser et al., 2008; Lazarevic et al., 2009) and inflated diversity due to pyrosequencing errors (Quince et al.”
BackgroundMethodThe role of natural salivary defences in maintaining a healthy oral microbiota
Pedersen, A. M. L., & Belstrøm, D. (2019) · Journal of Dentistry · doi:10.1016/j.jdent.2018.08.010 · Cited by 496 · see citing works
Periodontal disease and the oral microbiota in new‐onset rheumatoid arthritis
Scher, J. U., Úbeda, C., Equinda, M. J., Khanin, R., Buischi, Y. D. P., Viale, A. J., Lipuma, L., Attur, M. G., Pillinger, M. H., Weissmann, G., et al. (2012) · Arthritis & Rheumatism · doi:10.1002/art.34539 · Cited by 465 · see citing works
“As has been previously described by others (23,24), our assessment showed that the periodontal microbiota of healthy control subjects was dominated by 7 phyla, including Bacteroidetes (21.”
ResultDiversity of Endodontic Microbiota Revisited
Siqueira, J. F., Jr., & Rôças, I. N. (2009) · Journal of Dental Research · doi:10.1177/0022034509346549 · Cited by 464 · see citing works
“A recent study with pyrosequencing, a high-throughput molecular approach that allows for extensive sequencing of microbial populations, revealed about 5600 and 10,000 species-level phylotypes representing 22 phyla in saliva and plaque, respectively (Keijser et al., 2008).”
BackgroundFrom Structure to Function: the Ecology of Host-Associated Microbial Communities
Robinson, C. J., Bohannan, B. J. M., & Young, V. B. (2010) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00014-10 · Cited by 454 · see citing works
Dental plaque biofilms: communities, conflict and control
Marsh, P. D., Moter, A., & DeVine, D. (2010) · Periodontology 2000 · doi:10.1111/j.1600-0757.2009.00339.x · Cited by 432 · see citing works
Deep Sequencing of the Oral Microbiome Reveals Signatures of Periodontal Disease
Liu, B., Faller, L. L., Klitgord, N., Mazumdar, V., Ghodsi, M., Sommer, D. D., Gibbons, T. R., Treangen, T. J., Chang, Y.-C., Li, S., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0037919 · Cited by 411 · see citing works
“The total diversity of the global oral microbiome can be estimated to be around 25,000 phylotypes [25].”
BackgroundIllumina-based analysis of microbial community diversity
Degnan, P. H., & Ochman, H. (2011) · The ISME Journal · doi:10.1038/ismej.2011.74 · Cited by 421 · see citing works
“…barcodes): 967F 50-XXX CAACGCGAAGAACCTTACC-30 and 1046R 50-XXX CGACAGCCATGCANCACCT-30 (Short 1 V6 (S1V6); 98 bp in Escherichia coli) (Sogin et al., 2006), and 917F 50-XXX GAATTGACGGGGRCCCGC-30 and 1061R 50-XXX CACGRCACGAGCTGACGAC-30 (Long V6 (LV6); 163 bp in E. coli) (Keijser et al., 2008).”
MethodBacterial biogeography of the human digestive tract
Stearns, J. C., Lynch, M. D. J., Senadheera, D. B., Tenenbaum, H. C., Goldberg, M. B., Cvitkovitch, D. G., Croitoru, K., Moreno‐Hagelsieb, G., & Neufeld, J. D. (2011) · Scientific Reports · doi:10.1038/srep00170 · Cited by 399 · see citing works
Said, H. S., Suda, W., Nakagome, S., Chinen, H., Oshima, K., Kim, S., Kimura, R., Iraha, A., Ishida, H., Fujita, J., et al. (2013) · DNA Research · doi:10.1093/dnares/dst037 · Cited by 394 · see citing works
Gihring, T. M., Green, S. J., & Schadt, C. W. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02550.x · Cited by 382 · see citing works
“This approach – rarefaction with sequence number equalization – has been employed with rRNA gene cloning (see Schloss and Handelsman, 2005) and pyrosequencing (e.g. Keijser et al., 2008; Dickie, 2010; Liggenstoffer et al., 2010) libraries.”
Changes in Abundance of Oral Microbiota Associated with Oral Cancer
Schmidt, B. L., Kuczynski, J., Bhattacharya, A., Huey, B., Corby, P. M. A., Queiroz, E. L. S., Nightingale, K., Kerr, A. R., DeLacure, M. D., Veeramachaneni, R., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0098741 · Cited by 377 · see citing works
“(TIF) Figure S5 Diversity of Firmicutes, Fusobacteria, Bacteroidetes, Proteobacteria and Actinobacteria genera in cancer, pre-cancers and healthy normal samples.”
BackgroundInfluentialOral Biofilms: Emerging Concepts in Microbial Ecology
Filoche, S. K., Wong, L., & Sissons, C. H. (2009) · Journal of Dental Research · doi:10.1177/0022034509351812 · Cited by 370 · see citing works
Saliva microbiomes distinguish caries-active from healthy human populations
Yang, F., Zeng, X., Ning, K., Liu, K.-L., Lo, C., Wang, W., Chen, J., Wang, D., Huang, R., Chang, X., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2011.71 · Cited by 363 · see citing works
“For example, Proteobacteria were more abundant in our data sets when in silico pooled (healthy Chinese adults), wherever Firmicutes were more abundant at a sample pooled from 91 healthy adult individuals in Amsterdam (Keijser et al., 2008).”
BackgroundResultInfluentialCurrent concepts in the pathogenesis of periodontitis: from symbiosis to dysbiosis
Abdulkareem, A. A., Al-Taweel, F. B. H., Al-Sharqi, A. J. B., Gul, S. S., Sha, A. M., & Chapple, I. (2023) · Journal of Oral Microbiology · doi:10.1080/20002297.2023.2197779 · Cited by 402 · see citing works
“In addition, the increased proportions of Bacteroidetes (mainly the Prevotella genus), and Spirochaetes were detected with increasing age [104], with a significant abundance reported in the adult population [105].”
BackgroundCommunity structures of fecal bacteria in cattle from different animal feeding operations
Shanks, O. C., Kelty, C. A., Archibeque, S., Jenkins, M., Newton, R. J., McLellan, S. L., Huse, S. M., & Sogin, M. L. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.02988-10 · Cited by 359 · see citing works
“quences from previous studies (1, 16, 26, 31, 52, 55, 58), and (iii) the small size”
Lessons learned and unlearned in periodontal microbiology
Teles, R. P., Teles, F., Frias‐Lopez, J., Paster, B. J., & Haffajee, A. D. (2013) · Periodontology 2000 · doi:10.1111/prd.12010 · Cited by 377 · see citing works
“complex ecosystems and was only recently introduced for the study of the oral microbiota (172, 410).”
BackgroundOral cavity contains distinct niches with dynamic microbial communities
Xu, X., He, J., Xue, J., Wang, Y., Li, K., Zhang, K., Guo, Q., Liu, X., Zhou, Y., Cheng, L., et al. (2015) · Environmental Microbiology · doi:10.1111/1462-2920.12502 · Cited by 335 · see citing works
“Several studies have been performed to define the ‘normal’ residents at different oral niches including saliva (Nasidze et al., 2009), supragingival plaque (Keijser et al., 2008), subgingival plaque (Bik et al., 2010) and mucosa (Zaura et al., 2009).”
Kumar, P., Mason, M. R., Brooker, M. R., & O'Brien, K. A. (2012) · Journal Of Clinical Periodontology · doi:10.1111/j.1600-051x.2012.01856.x · Cited by 348 · see citing works
“…coverage allows a more comprehensive examination of taxonomically heterogeneous community than was previously possible and has revealed a significantly greater level of microbial diversity than was previously apparent with Sanger sequencing(Charlson et al., 2010, Keijser et al., 2008, Li et al.).”
Resultd’Enfert, C., Kaune, A.-K., Alaban, L. R., Chakraborty, S., Cole, N. L., Delavy, M., Kosmala, D., Marsaux, B., Fróis-Martins, R., Morelli, M., et al. (2020) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuaa060 · Cited by 351 · see citing works
Oligotyping analysis of the human oral microbiome
Eren, A. M., Borisy, G. G., Huse, S. M., & Mark Welch, J. L. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1409644111 · Cited by 347 · see citing works
Molecular analysis of the diversity of vaginal microbiota associated with bacterial vaginosis
Ling, Z., Kong, J., Liu, F., Zhu, H., Chen, X., Wang, Y., Li, L., Nelson, K. E., Xia, Y., & Xiang, C. (2010) · BMC Genomics · doi:10.1186/1471-2164-11-488 · Cited by 345 · see citing works
“This technique has been successfully used in various ecosystems including deep mines [46], soil [47], fermented seafood [48], skin [49], chronic wounds [50], and oral microbiota [42].”
BackgroundMethodThe Oral Microbiota: Community Composition, Influencing Factors, Pathogenesis, and Interventions
Li, X., Liu, Y., Yang, X., Li, C., & Song, Z. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.895537 · Cited by 344 · see citing works
Fibronectin: a multidomain host adhesin targeted by bacterial fibronectin-binding proteins
Henderson, B. E., Nair, S. P., Pallas, J. A., & Williams, M. A. (2010) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2010.00243.x · Cited by 326 · see citing works
“The development of massively parallel DNA sequencing is revealing the scale of mammalian bacterial colonization (Keijser et al., 2008; McKenna et al., 2008) and suggests that Homo sapiens is colonized by between 103 and 104 bacterial phylotypes.”
BackgroundBacterial biofilm: structure, function, and antimicrobial resistance
Dufour, D., Leung, V., & Levesque, C. M. (2010) · Endodontic Topics · doi:10.1111/j.1601-1546.2012.00277.x · Cited by 330 · see citing works
Crielaard, W., Zaura, E., Schuller, A. A., Huse, S. M., Montijn, R. C., & Keijser, B. J. F. (2011) · BMC Medical Genomics · doi:10.1186/1755-8794-4-22 · Cited by 320 · see citing works
“Recent advances in sequencing technology, such as 454 pyrosequencing, have revealed an unexpectedly high diversity of the human oral microbiome: dental plaque pooled from 98 healthy adults comprised about 10000 microbial phylotypes [1].”
InfluentialChen, H., & Jiang, W. (2014) · Frontiers in Microbiology · doi:10.3389/fmicb.2014.00508 · Cited by 317 · see citing works
“At species level, it had been estimated that the number of species–level phylotypes were between 500 and 10000 (Keijser et al., 2008; Lazarevic et al., 2009), and each oral niches harbored 266 “species-level” phylotypes on average (Zaura et al., 2009).”
BackgroundSiddiqui, H. A., Nederbragt, A. J., Lagesen, K., Jeansson, S. L., & Jakobsen, K. S. (2011) · BMC Microbiology · doi:10.1186/1471-2180-11-244 · Cited by 319 · see citing works
“Our OTU calculations on female urine displayed richness levels that were in the same range as reported for commensal vaginal microbiota (1584 OTUs) [79], but lower than those reported for oral (3011 to 5669 OTUs) [4,92] and fecal samples (up to 5200 OTUs) [90].”
BackgroundMethodInfluentialThe oral microbiome diversity and its relation to human diseases
He, J., Li, Y., Cao, Y., Xue, J., & Zhou, X. (2015) · Folia Microbiologica · doi:10.1007/s12223-014-0342-2 · Cited by 314 · see citing works
Metagenomic study of the oral microbiota by Illumina high-throughput sequencing
Lazarević, V., Whiteson, K., Huse, S. M., Hernández, D., Farinelli, L., Østerås, M., Schrenzel, J., & François, P. (2009) · Journal of Microbiological Methods · doi:10.1016/j.mimet.2009.09.012 · Cited by 313 · see citing works
“Species coverage was within the 91–100% range for all HOMD bacterial phyla except Chloroflexi which is very rare in oral microbiota (Keijser et al., 2008) and has a single representative in the HOMD.”
BackgroundResultInfluentialThe interpersonal and intrapersonal diversity of human-associated microbiota in key body sites
Ursell, L. K., Clemente, J. C., Rideout, J. R., Gevers, D., Caporaso, J. G., & Knight, R. D. (2012) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2012.03.010 · Cited by 310 · see citing works
The Oral Microbiome in Health and Its Implication in Oral and Systemic Diseases
(2016) · Advances in Applied Microbiology · doi:10.1016/bs.aambs.2016.08.002 · Cited by 306 · see citing works
ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequences
Sun, Y., Cai, Y., Liu, L., Yu, F., Farrell, M. L., McKendree, W., & Farmerie, W. G. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp285 · Cited by 303 · see citing works
“(5) were among the first to study oral microbial populations.”
BackgroundMethodArweiler, N. B., & Netuschil, L. (2016) · Advances in experimental medicine and biology · doi:10.1007/978-3-319-31248-4_4 · Cited by 302 · see citing works
Structure of the human gastric bacterial community in relation to Helicobacter pylori status
Maldonado‐Contreras, A., Goldfarb, K. C., Godoy‐Vitorino, F., Karaöz, U., Contreras, M., Blaser, M. J., Brodie, E., & Domínguez-Bello, M. G. (2010) · The ISME Journal · doi:10.1038/ismej.2010.149 · Cited by 301 · see citing works
“…on Hugenholtz taxonomy (as of April 2007) (Hugenholtz, 2002; DeSantis et al., 2006a, b) and we reclassified the detected taxa using RDP to compare with results in other publications (Eckburg et al., 2005; Gill et al., 2006; Andersson et al., 2008; Dethlefsen et al., 2008; Keijser et al., 2008).”
BackgroundMethodResultInfluentialInvestigation of archaeal and bacterial diversity in fermented seafood using barcoded pyrosequencing
Roh, S. W., Kim, K., Nam, Y., Chang, H.-W., Park, E., & Bae, J. (2009) · The ISME Journal · doi:10.1038/ismej.2009.83 · Cited by 294 · see citing works
“, 2008), and human oral microflora (Keijser et al., 2008).”
BackgroundRaman spectroscopy in cell biology and microbiology
Pezzotti, G. (2021) · Journal of Raman Spectroscopy · doi:10.1002/jrs.6204 · Cited by 296 · see citing works
The generation and maintenance of diversity in microbial communities
Fierer, N., & Lennon, J. T. (2011) · American Journal of Botany · doi:10.3732/ajb.1000498 · Cited by 290 · see citing works
Biogeography of the Oral Microbiome: The Site-Specialist Hypothesis
Mark Welch, J. L., Dewhirst, F. E., & Borisy, G. G. (2019) · Annual Review of Microbiology · doi:10.1146/annurev-micro-090817-062503 · Cited by 284 · see citing works
“In a quest for yet greater sequencing depth at lower cost, work shifted to short-read, highthroughput sequencing, using technologies that could generate hundreds of thousands to millions of sequencing reads at a time, where each individual read was only a few hundred nucleotides in length (12, 19, 44, 48, 58, 81, 105).”
BackgroundMicrobial Geography of the Oral Cavity
Simón‐Soro, Á., Tomás, I., Cabrera‐Rubio, R., Catalan, M. D., Nyvad, B., & Mira, Á. (2013) · Journal of Dental Research · doi:10.1177/0022034513488119 · Cited by 278 · see citing works
“A further complication is given by the use of different salivasampling protocols in different laboratories, including paperpoints, mouthrinses, and oral swabs (Keijser et al., 2008; HMP, 2012).”
BackgroundChen, C., Hemme, C. L., Beleno, J., Shi, Z. J., Ning, D., Qin, Y., Tu, Q., Jorgensen, M. G., He, Z., Wu, L., et al. (2018) · The ISME Journal · doi:10.1038/s41396-017-0037-1 · Cited by 273 · see citing works
Analysis of Oral Microbiota in Children with Dental Caries by PCR-DGGE and Barcoded Pyrosequencing
Ling, Z., Kong, J., Jia, P., Wei, C., Wang, Y., Pan, Z., Huang, W., Li, L., Chen, H., & Xiang, C. (2010) · Microbial Ecology · doi:10.1007/s00248-010-9712-8 · Cited by 268 · see citing works
“In this sense, the oral microbiota from saliva and plaque of children in our study were more representative than that from the previous study [30].”
BackgroundResultInfluentialDental Caries from a Molecular Microbiological Perspective
Nyvad, B., Crielaard, W., Mira, Á., Takahashi, N., & Beighton, D. (2012) · Caries Research · doi:10.1159/000345367 · Cited by 262 · see citing works
“Indeed, since the first use of NGS for oral communities in 2008 [Keijser et al., 2008], there has been an avalanche of NGS studies directed towards oral infections.”
BackgroundInfluentialOttesen, A., Peña, A. G., White, J. R., Pettengill, J., Li, C., Allard, S. M., Rideout, S. L., Allard, M. W., Hill, T. A., Evans, P. S., et al. (2013) · BMC Microbiology · doi:10.1186/1471-2180-13-114 · Cited by 258 · see citing works
“The convenience and affordability of next generation sequencing technologies, improved bioinformatic pipelines, and converging reference databases has enabled the description of culture independent microflora associated with numerous environmental and human microbiomes [3-5].”
BackgroundKumar, P., Brooker, M. R., Dowd, S. E., & Camerlengo, T. (2011) · PLoS ONE · doi:10.1371/journal.pone.0020956 · Cited by 255 · see citing works
“The unprecedented sampling depth provided by this deep-sequencing approach allows the identification of several numerically minor or rare species within a community and has revealed a significantly greater level of microbial diversity than was previously apparent with Sanger sequencing [12,13].”
BackgroundResultBiofilm in endodontics: A review
Jhajharia, K., Parolia, A., Shetty, K., & Mehta, L. K. (2015) · Journal of International Society of Preventive and Community Dentistry · doi:10.4103/2231-0762.151956 · Cited by 262 · see citing works
“More than 1000 different bacterial species have been identified in the oral cavity by culture and independent molecular microbiology, but with advanced massively parallel DNA pyrosequencing techniques, the number may be higher.[61,62]”
BackgroundBacterial and Host Interactions of Oral Streptococci
Kreth, J., Merritt, J. L., & Qi, F. (2009) · DNA and Cell Biology · doi:10.1089/dna.2009.0868 · Cited by 241 · see citing works
“However, a recent report using pyrosequencing analysis estimated the number of phylotypes to be greater than 19,000 (Keijser et al., 2008).”
Study of inter- and intra-individual variations in the salivary microbiota
Lazarević, V., Whiteson, K., Hernández, D., François, P., & Schrenzel, J. (2010) · BMC Genomics · doi:10.1186/1471-2164-11-523 · Cited by 236 · see citing works
“Among them 19 were neither reported in previous studies of oral microbiotas assessed by high-throughput sequencing [6,9,10,17] nor listed in the Human Oral Microbiome Database (HOMD; http:// www.”
BackgroundStearns, J. C., Davidson, C. J., McKeon, S., Whelan, F. J., Fontes, M. E., Schryvers, A. B., Bowdish, D. M. E., Kellner, J. D., & Surette, M. G. (2015) · The ISME Journal · doi:10.1038/ismej.2014.250 · Cited by 234 · see citing works
“The oropharynx is known to contain mainly Prevotella, Veillonella and Streptococcus (Keijser et al., 2008; Lazerevic et al., 2009; Nasidze et al., 2009), with the latter being more prevalent here than previously shown.”
BackgroundResultPark, E., Chun, J., Cha, C., Park, W.-S., Jeon, C. O., & Bae, J. (2011) · Food Microbiology · doi:10.1016/j.fm.2011.10.011 · Cited by 227 · see citing works
“, 2008), human samples such as oral microflora (Keijser et al., 2008), skin (Fierer et al.”
BackgroundBacterial Community Development in Experimental Gingivitis
Kistler, J. O., Booth, V., Bradshaw, D. J., & Wade, W. G. (2013) · PLoS ONE · doi:10.1371/journal.pone.0071227 · Cited by 224 · see citing works
“dentocariosa has previously been identified as a common constituent of the oral microbiome in health, particularly on tooth surfaces [13,15,50] and the genus Rothia has been associated with oral health.”
BackgroundChun, J., Kim, K. Y., Lee, J.-H., & Choi, Y. (2010) · BMC Microbiology · doi:10.1186/1471-2180-10-101 · Cited by 225 · see citing works
“Previously published pyrosequencing data for human saliva and plaque bacterial communities [6] were obtained from the public domain and also processed using the same bioinformatic pipeline based on the JAVA programming language.”
MethodSalivary biomarkers in cancer detection
Wang, X., Kaczor‐Urbanowicz, K. E., & Wong, D. T. (2016) · Medical Oncology · doi:10.1007/s12032-016-0863-4 · Cited by 231 · see citing works
“The recent advances in next generation sequencing allowed the identification of about 19,000 phylotypes in the oral cavity [34].”
BackgroundNon-pathogenic Neisseria: members of an abundant, multi-habitat, diverse genus
Liu, G., Tang, C. M., & Exley, R. M. (2015) · Microbiology · doi:10.1099/mic.0.000086 · Cited by 223 · see citing works
“While most oral microbiome studies have been conducted on Caucasians or Asians (Keijser et al., 2008; Ling et al., 2013; Said et al., 2014; Zaura et al., 2009), an interesting investigation focused on isolated communities, with oral swabs taken from six adult Amerindian participants of Guahibo ethnicity living in an i…”
BackgroundInfluentialComposition and development of oral bacterial communities
Palmer, R. J., Jr. (2013) · Periodontology 2000 · doi:10.1111/j.1600-0757.2012.00453.x · Cited by 222 · see citing works
“the molecular equivalent of a species) were defined at 3% genetic difference (38).”
BackgroundLife at the hyperarid margin: novel bacterial diversity in arid soils of the Atacama Desert, Chile
Neilson, J. W., Quade, J., Ortiz, M., Nelson, W. M., Legatzki, A., Tian, F., LaComb, M., Betancourt, J. L., Wing, R. A., Soderlund, C. A., et al. (2012) · Extremophiles · doi:10.1007/s00792-012-0454-z · Cited by 218 · see citing works
“The 16S rDNA V6 region of DNA community extracts from the three samples was amplified using the following universal primers: a 1:1 mixture of forward primers 909/917F (50-AAACTYAAARRAATTGACGG-30 and 50-GAATTGACGGGGRCCCGCA-30) (Keijser et al. 2008) and reverse primer 1070R (50-AGCTGACGACARCCAT) combined with 454 platfo…”
MethodMicrobial Community Profiling of Human Saliva Using Shotgun Metagenomic Sequencing
Hasan, N. A., Young, B. A., Minard-Smith, A. T., Saeed, K., Li, H., Heizer, E. M., McMillan, N. J., Isom, R., Abdullah, A., Bornman, D. M., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0097699 · Cited by 207 · see citing works
“Overall abundance and distribution of phyla and genera were in agreement with results of studies of human saliva reported by other investigators [34,63,64].”
ResultThe Relationship of the Oral Microbiotia to Periodontal Health and Disease
Curtis, M. A., Zenobia, C., & Darveau, R. P. (2011) · Cell Host & Microbe · doi:10.1016/j.chom.2011.09.008 · Cited by 205 · see citing works
“Of the 197,600 sequences that were analyzed, they were suggested to represent 22 phyla comprising 3621 and 6888 species-level phylotypes in the saliva and plaque, respectively (Keijser et al., 2008).”
BackgroundMicrobiology of sugar‐rich environments: diversity, ecology and system constraints
Lievens, B., Hallsworth, J. E., Pozo, M. I., Belgacem, Z. B., Stevenson, A. W., Willems, K., & Jacquemyn, H. (2014) · Environmental Microbiology · doi:10.1111/1462-2920.12570 · Cited by 202 · see citing works
Stahringer, S. S., Clemente, J. C., Corley, R. P., Hewitt, J. K., Knights, D., Walters, W. A., Knight, R. D., & Krauter, K. S. (2012) · Genome Research · doi:10.1101/gr.140608.112 · Cited by 199 · see citing works
“Although no mechanical disruption method was used in the extraction of the DNA from saliva, we readily detected known ‘‘hard to lyse’’ species including Actinomyces and Streptococcus in comparable abundances to previously published studies that used zirconia beads to disrupt bacterial cell walls (Keijser et al. 2008).”
ResultPhylogenetic and metabolic diversity of bacteria associated with cystic fibrosis
Guss, A. M., Roeselers, G., Newton, I. L. G., Young, C. R., Klepac‐Ceraj, V., Lory, S. J., & Cavanaugh, C. M. (2010) · The ISME Journal · doi:10.1038/ismej.2010.88 · Cited by 198 · see citing works
“For example, anaerobic organism phylotypes, including those typically found in the oral cavity (Aas et al., 2005; Keijser et al., 2008), were detected at relatively high frequency (Figure 1 and Supplementary Figure S1).”
BackgroundAggregatibacter (Actinobacillus) actinomycetemcomitans: a triple A* periodontopathogen?
Henderson, B., Ward, J. M., & Ready, D. (2010) · Periodontology 2000 · doi:10.1111/j.1600-0757.2009.00331.x · Cited by 239 · see citing works
Vonaesch, P., Morien, E., Andrianonimiadana, L., Sanke‐Waîgana, H., Mbecko, J., Huus, K. E., Naharimanananirina, T., Gondje, B. P., Nigatoloum, S. N., Vondo, S. S., et al. (2018) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1806573115 · Cited by 192 · see citing works
Human viruses in periodontitis
Slots, J. (2010) · Periodontology 2000 · doi:10.1111/j.1600-0757.2009.00325.x · Cited by 192 · see citing works
Microbiota diversity and gene expression dynamics in human oral biofilms
Benítez‐Páez, A., Belda‐Ferre, P., Simón‐Soro, Á., & Mira, Á. (2014) · BMC Genomics · doi:10.1186/1471-2164-15-311 · Cited by 192 · see citing works
“Although some studies, using NGS methods and 16S rRNA-based analysis, estimate that microbial diversity of the oral cavity is composed by thousands of species [1], more recent data have limited these estimates to a few hundreds [2-4].”
ResultLorenzo, F. D., Castro, C. D., Silipo, A., & Molinaro, A. (2019) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuz002 · Cited by 191 · see citing works
Meurman, J. H. (2010) · Journal of Oral Microbiology · doi:10.3402/jom.v2i0.5195 · Cited by 190 · see citing works
“For example, pyrosequencing of the oral cavity and salivary samples has greatly improved our understanding in the wider perspective of the complex microbiota of the mouth (72).”
BackgroundKoch, C. D., Gladwin, M. T., Freeman, B. A., Lundberg, J. O., Weitzberg, E., & Morris, A. (2017) · Free Radical Biology and Medicine · doi:10.1016/j.freeradbiomed.2016.12.015 · Cited by 186 · see citing works
Antimicrobial peptides of the oral cavity
Gorr, S. (2009) · Periodontology 2000 · doi:10.1111/j.1600-0757.2009.00310.x · Cited by 187 · see citing works
Unterseher, M., Jumpponen, A., Öpik, M., Tedersoo, L., Moora, M., Dormann, C. F., & Schnittler, M. (2010) · Molecular Ecology · doi:10.1111/j.1365-294x.2010.04948.x · Cited by 186 · see citing works
“With respect to exhaustiveness of species inventories, detection of microbes from the environment has greatly benefited from the next generation sequencing (NGS) approach that however also has shed further light on the poverty of applicable taxonomic concepts (Sogin et al. 2006; Keijser et al. 2008; Buée et al. 2009;…”
BackgroundMicrobial signature profiles of periodontally healthy and diseased patients
Lourenço, T. G. B., Heller, D., Silva‐Boghossian, C. M., Cotton, S. L., Paster, B. J., & Colombo, A. P. V. (2014) · Journal of Clinical Periodontology · doi:10.1111/jcpe.12302 · Cited by 185 · see citing works
“…Rothia spp. and Streptococcus spp. were more prevalent in H, corroborating the data reported by other studies (Aas et al. 2005, Kumar et al. 2005, Keijser et al. 2008, Colombo et al. 2009, 2012, Bik et al. 2010, Huang et al. 2011, Griffen et al. 2012, Liu et al.2012, Abusleme et al. 2013, Ge et…”
ResultAntimicrobial peptides and periodontal disease
Gorr, S., & Abdolhosseini, M. (2011) · Journal Of Clinical Periodontology · doi:10.1111/j.1600-051x.2010.01664.x · Cited by 183 · see citing works
Siqueira, J. F., Jr., & Rôças, I. N. (2009) · Oral Surgery Oral Medicine Oral Pathology Oral Radiology and Endodontology · doi:10.1016/j.tripleo.2009.01.044 · Cited by 176 · see citing works
The Oral Microbiome of Children: Development, Disease, and Implications Beyond Oral Health
Gomez, A., & Nelson, K. E. (2017) · Microbial Ecology · doi:10.1007/s00248-016-0854-1 · Cited by 175 · see citing works
“Diversity surveys on healthy oral microbiomes do suggest a core group of phylotypes [8, 9], different from those found under diseased conditions [5, 10].”
BackgroundDiversity of human small intestinal Streptococcus and Veillonella populations
van den Bogert, B., Erkuş, O., Boekhorst, J., de Goffau, M. C., Smid, E. J., Zoetendal, E. G., & Kleerebezem, M. (2013) · FEMS Microbiology Ecology · doi:10.1111/1574-6941.12127 · Cited by 172 · see citing works
“Interestingly, both bacterial populations are abundant not only in the small intestine but also in the microbiota of the stomach (Bik et al., 2006), esophagus (Pei et al., 2004), throat (Andersson et al., 2008), and oral cavity (Keijser et al., 2008).”
BackgroundSun, Y., Cai, Y., Huse, S. M., Knight, R. D., Farmerie, W. G., Wang, X., & Mai, V. (2011) · Briefings in Bioinformatics · doi:10.1093/bib/bbr009 · Cited by 172 · see citing works
“It has been reported that microbial communities are much more diverse than expected [19, 20], which suggests that the underlying assumption of MSA might not be valid because parts of the sequence are not homologous due to insertions and deletions, or because so much change has occurred that bases that are the same are…”
BackgroundMethodWarinner, C., Speller, C., Collins, M. J., & Lewis, C. M. (2015) · Journal of Human Evolution · doi:10.1016/j.jhevol.2014.10.016 · Cited by 171 · see citing works
“Despite shorter read lengths and a shift of focus to individual 16S rRNA gene hypervariable regions rather than the entire gene, the increased sequencing depth has revealed a great diversity of low abundance taxa within the human microbiome, expanding the known taxonomic complexity of the oral microbiome alone by more…”
Bacterial Profile of Dentine Caries and the Impact of pH on Bacterial Population Diversity
Kianoush, N., Adler, C. J., Nguyen, K.-A. T., Browne, G. V., Simonian, M. R., & Hunter, N. (2014) · PLoS ONE · doi:10.1371/journal.pone.0092940 · Cited by 169 · see citing works
“The carious lesions we investigated contained between 15% to 50% of the total number of OTUs recorded from pyrosequencing analysis of plaque and saliva samples from healthy sites [60] and healthy mucosal biofilms [58], respectively.”
BackgroundResultAntifungal drug resistance of oral fungi
Niimi, M., Firth, N. A., & Cannon, R. D. (2010) · Odontology · doi:10.1007/s10266-009-0118-3 · Cited by 169 · see citing works
Comparison of ITS1 and ITS2 rDNA in 454 sequencing of hyperdiverse fungal communities
Bazzicalupo, A., Bálint, M., & Schmitt, I. (2012) · Fungal ecology · doi:10.1016/j.funeco.2012.09.003 · Cited by 165 · see citing works
Wade, W. G. (2011) · Journal Of Clinical Periodontology · doi:10.1111/j.1600-051x.2010.01679.x · Cited by 165 · see citing works
Pyrosequencing as a tool for better understanding of human microbiomes
Siqueira, J. F., Jr., FOUAD, A. F., & Rôças, I. N. (2012) · Journal of Oral Microbiology · doi:10.3402/jom.v4i0.10743 · Cited by 165 · see citing works
“Using 454 GS FLX pyrosequencing, an analysis of 71 saliva and 98 supragingival samples revealed a total of 28,978 unique V6 tag sequences from 22 known phyla (91).”
MethodKönönen, E., Fteita, D., Gürsoy, U. K., & Gürsoy, M. (2022) · Journal of Oral Microbiology · doi:10.1080/20002297.2022.2079814 · Cited by 163 · see citing works
“In healthy adults, the detection rates of the genus Prevotella are high in saliva and dental plaque [17,27].”
BackgroundRobinson, C. M., & Pfeiffer, J. K. (2014) · Annual Review of Virology · doi:10.1146/annurev-virology-031413-085550 · Cited by 163 · see citing works
Comparison of the microbiological features of chronic and aggressive periodontitis
Armitage, G. C. (2010) · Periodontology 2000 · doi:10.1111/j.1600-0757.2010.00357.x · Cited by 159 · see citing works
Oral microbiota in human health and disease: A perspective
Santacroce, L., Passarelli, P. C., Azzolino, D., Bottalico, L., Charitos, I. A., Cazzolla, A. P., Colella, M., Topi, S., Godoy, F. G., & D’Addona, A. (2023) · Experimental Biology and Medicine · doi:10.1177/15353702231187645 · Cited by 168 · see citing works
“Most organisms are optionally anaerobic or necessarily anaerobic, 7,44,45 and most oxygen in the oral cavity is dissolved in the saliva and is readily available to microorganisms for their metabolic needs.”
BackgroundCephas, K., Kim, J., Mathai, R. A., Barry, K. A., Dowd, S. E., Meline, B. S., & Swanson, K. S. (2011) · PLoS ONE · doi:10.1371/journal.pone.0023503 · Cited by 156 · see citing works
“The prevalence of the genera Porphyromonas and Prevotella was lower than that reported by other researchers [5,6,14,22].”
Result
- Authors
- Keijser, B. J. F., Zaura, E., Huse, S. M., van der Vossen, J. M. B. M., Schuren, F. H. J., Montijn, R. C., ten Cate, J. M., & Crielaard, W.
- Affiliations
- Marine Biological Laboratory (US)
- TNO Quality of Life, Business Unit Food and Biotechnology Innovations, Microbial Genomics Group, Zeist, The Netherlands;
- Venue
- Journal of Dental Research
- Publisher
- SAGE Publications
- Published
- 2008-11
- Volume
- 87
- Issue
- 11
- Pages
- 1016-1020
- ISSN
- 0022-0345 (ISSN-L)
- 1544-0591
- OpenAlex
- W2103805072
- Cited by
- 669
- References
- 27
- Citations by year
- 2026: 6 · 2025: 14 · 2024: 33 · 2023: 16 · 2022: 39 · 2021: 26 · 2020: 30 · 2019: 24 · 2018: 47 · 2017: 45 · 2016: 41 · 2015: 42 · 2014: 49 · 2013: 50 · 2012: 65
- FWCI
- 53.33
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Journal of Dental Research (publishedVersion)
- PubMed (publishedVersion)
- UvA-DARE (University of Amsterdam) (publishedVersion)
- UvA-DARE (University of Amsterdam) (submittedVersion)
- VU Research Portal (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- Topics
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Keywords
- oral microbiota, species richness, saliva, supragingival plaque, 16S rRNA gene, operational taxonomic units, phylotypes, microbial diversity, healthy adults
- MeSH terms
- Adult, Dental Plaque, DNA, Bacterial, Humans, RNA, Bacterial, RNA, Ribosomal, 16S, Saliva, Bacterial Typing Techniques, Sequence Analysis, DNA
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
