1887

Abstract

Human immunodeficiency virus (HIV) infection is associated with a range of oral conditions, and increased numbers of disease-associated microbial species have previously been found in HIV-positive subjects. The aim of this study was to use next-generation sequencing to compare the composition of the oral microbiome in HIV-positive and -negative individuals. Plaque and saliva were collected from 37 HIV-positive individuals and 37 HIV-negative individuals, and their bacterial composition determined by pyrosequencing of partial 16S rRNA genes. A total of 855 222 sequences were analysed. The number of species-level operational taxonomic units (OTUs) detected was significantly lower in the saliva of HIV-positive individuals (mean = 303.3) than in that of HIV-negative individuals (mean = 365.5) ( < 0.0003). Principal coordinates analysis (PCoA) based on community membership (Jaccard index) and structure (Yue and Clayton measure of dissimilarity) showed significant separation of plaque and saliva samples [analysis of molecular variance (AMOVA),  < 0.001]. PCoA plots did not show any clear separation based on HIV status. However, AMOVA indicated that there was a significant difference in the community membership of saliva between HIV-positive and -negative groups ( = 0.001). Linear discriminant analysis effect size revealed an OTU identified as to be significantly associated with HIV-positive individuals, whilst /HOT473 was most significantly associated with HIV-negative individuals. In conclusion, this study has confirmed that the microbial composition of saliva and plaque is different. The oral microbiomes of HIV-positive and -negative individuals were found to be similar overall, although there were minor but significant differences in the composition of the salivary microbiota of the two groups.

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2015-09-01
2021-10-16
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References

  1. Aas J. A., Barbuto S. M., Alpagot T., Olsen I., Dewhirst F. E., Paster B. J. 2007; Subgingival plaque microbiota in HIV positive patients. J Clin Periodontol 34:189–195 [View Article][PubMed]
    [Google Scholar]
  2. Almståhl A., Wikström M. 1999; Oral microflora in subjects with reduced salivary secretion. J Dent Res 78:1410–1416 [View Article][PubMed]
    [Google Scholar]
  3. Dang A. T., Cotton S., Sankaran-Walters S., Li C.-S., Lee C.-Y.M., Dandekar S., Paster B. J., George M. D. 2012; Evidence of an increased pathogenic footprint in the lingual microbiome of untreated HIV infected patients. BMC Microbiol 12:153 [View Article][PubMed]
    [Google Scholar]
  4. Dewhirst F. E., Chen T., Izard J., Paster B. J., Tanner A. C., Yu W. H., Lakshmanan A., Wade W. G. 2010; The human oral microbiome. J Bacteriol 192:5002–5017 [View Article][PubMed]
    [Google Scholar]
  5. Excoffier L., Smouse P. E., Quattro J. M. 1992; Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479–491[PubMed]
    [Google Scholar]
  6. Fierer N., Hamady M., Lauber C. L., Knight R. 2008; The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc Natl Acad Sci U S A 105:17994–17999 [View Article][PubMed]
    [Google Scholar]
  7. Frank J. A., Reich C. I., Sharma S., Weisbaum J. S., Wilson B. A., Olsen G. J. 2008; Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74:2461–2470 [View Article][PubMed]
    [Google Scholar]
  8. Good I. J. 1953; The population frequencies of species and the estimation of population parameters. Biometrika 40:237–264 [View Article]
    [Google Scholar]
  9. Hodgson T. A., Greenspan D., Greenspan J. S. 2006; Oral lesions of HIV disease and HAART in industrialized countries. Adv Dent Res 19:57–62 [View Article][PubMed]
    [Google Scholar]
  10. Janda W. M. 2013; Update on the HACEK group of fastidious gram-negative bacilli, Part I. Clin Microbiol Newsl 35:87–92 [View Article]
    [Google Scholar]
  11. Joint United Nations Programme on HIV/AIDS (UNAIDS) 2014 The Gap Report Geneva: UNAIDS; http://www.unaids.org/en/resources/documents/2014/20140716_UNAIDS_gap_report
    [Google Scholar]
  12. Kistler J. O., Booth V., Bradshaw D. J., Wade W. G. 2013; Bacterial community development in experimental gingivitis. PLoS One 8:e71227 [View Article][PubMed]
    [Google Scholar]
  13. Lane D. J., Pace B., Olsen G. J., Stahl D. A., Sogin M. L., Pace N. R. 1985; Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proc Natl Acad Sci U S A 82:6955–6959 [View Article][PubMed]
    [Google Scholar]
  14. Li Y., Saxena D., Chen Z., Liu G., Abrams W. R., Phelan J. A., Norman R. G., Fisch G. S., Corby P. M., other authors. 2014; HIV infection and microbial diversity in saliva. J Clin Microbiol 52:1400–1411 [View Article][PubMed]
    [Google Scholar]
  15. Mager D. L., Ximenez-Fyvie L. A., Haffajee A. D., Socransky S. S. 2003; Distribution of selected bacterial species on intraoral surfaces. J Clin Periodontol 30:644–654 [View Article][PubMed]
    [Google Scholar]
  16. Mataftsi M., Skoura L., Sakellari D. 2011; HIV infection and periodontal diseases: an overview of the post-HAART era. Oral Dis 17:13–25 [View Article][PubMed]
    [Google Scholar]
  17. Mukherjee P. K., Chandra J., Retuerto M., Sikaroodi M., Brown R. E., Jurevic R., Salata R. A., Lederman M. M., Gillevet P. M., Ghannoum M. A. 2014; Oral mycobiome analysis of HIV-infected patients: identification of Pichia as an antagonist of opportunistic fungi. PLoS Pathog 10:e1003996 [View Article][PubMed]
    [Google Scholar]
  18. Murray P. A., Grassi M., Winkler J. R. 1989; The microbiology of HIV-associated periodontal lesions. J Clin Periodontol 16:636–642 [View Article][PubMed]
    [Google Scholar]
  19. Navazesh M., Mulligan R., Karim R., Mack W. J., Ram S., Seirawan H., Greenspan J., Greenspan D., Phelan J., Alves M., Oral Substudy of the Women's Interagency HIV Study Collaborative Study Group* . 2009; Effect of HAART on salivary gland function in the Women's Interagency HIV Study (WIHS). Oral Dis 15:52–60 [View Article][PubMed]
    [Google Scholar]
  20. Paster B. J., Russell M. K., Alpagot T., Lee A. M., Boches S. K., Galvin J. L., Dewhirst F. E. 2002; Bacterial diversity in necrotizing ulcerative periodontitis in HIV-positive subjects. Ann Periodontol 7:8–16 [View Article][PubMed]
    [Google Scholar]
  21. Ramos M. P., de A ., Ferreira S. M. S., Silva-Boghossian C. M., Souto R., Colombo A. P., Noce C. W., Gonçalves L. S. 2012; Necrotizing periodontal diseases in HIV-infected Brazilian patients: a clinical and microbiologic descriptive study. Quintessence Int 43:71–82
    [Google Scholar]
  22. Rams T. E., Andriolo M. Jr, Feik D., Abel S. N., McGivern T. M., Slots J. 1991; Microbiological study of HIV-related periodontitis. J Periodontol 62:74–81 [View Article][PubMed]
    [Google Scholar]
  23. Reznik D. A. 2005; Oral manifestations of HIV disease. Top HIV Med 13:143–148[PubMed]
    [Google Scholar]
  24. Schloss P. D., Westcott S. L. 2011; Assessing and improving methods used in operational taxonomic unit-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol 77:3219–3226 [View Article][PubMed]
    [Google Scholar]
  25. Schloss P. D., Westcott S. L., Ryabin T., Hall J. R., Hartmann M., Hollister E. B., Lesniewski R. A., Oakley B. B., Parks D. H., other authors. 2009; Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75:7537–7541 [View Article][PubMed]
    [Google Scholar]
  26. Segata N., Izard J., Waldron L., Gevers D., Miropolsky L., Garrett W. S., Huttenhower C. 2011; Metagenomic biomarker discovery and explanation. Genome Biol 12:R60[PubMed] [CrossRef]
    [Google Scholar]
  27. Segata N., Haake S. K., Mannon P., Lemon K. P., Waldron L., Gevers D., Huttenhower C., Izard J. 2012; Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples. Genome Biol 13:R42 [View Article][PubMed]
    [Google Scholar]
  28. Simpson E. H. 1949; Measurement of diversity. Nature 163:688 [View Article]
    [Google Scholar]
  29. Simón-Soro A., Tomás I., Cabrera-Rubio R., Catalan M. D., Nyvad B., Mira A. 2013; Microbial geography of the oral cavity. J Dent Res 92:616–621 [View Article][PubMed]
    [Google Scholar]
  30. World Health Organization 2013 Global Update on HIV Treatment 2013: Results, Impact and Opportunities Geneva: World Health Organization;
    [Google Scholar]
  31. Yue J. C., Clayton M. K. 2005; A similarity measure based on species proportions. Commun Stat Theory Methods 34:2123–2131 [View Article]
    [Google Scholar]
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