Saliva microbiomes distinguish caries-active from healthy human populations
Top Cited Papers
- 30 June 2011
- journal article
- Published by Oxford University Press (OUP) in The ISME Journal
- Vol. 6 (1), 1-10
- https://doi.org/10.1038/ismej.2011.71
Abstract
The etiology of dental caries remains elusive because of our limited understanding of the complex oral microbiomes. The current methodologies have been limited by insufficient depth and breadth of microbial sampling, paucity of data for diseased hosts particularly at the population level, inconsistency of sampled sites and the inability to distinguish the underlying microbial factors. By cross-validating 16S rRNA gene amplicon-based and whole-genome-based deep-sequencing technologies, we report the most in-depth, comprehensive and collaborated view to date of the adult saliva microbiomes in pilot populations of 19 caries-active and 26 healthy human hosts. We found that: first, saliva microbiomes in human population were featured by a vast phylogenetic diversity yet a minimal organismal core; second, caries microbiomes were significantly more variable in community structure whereas the healthy ones were relatively conserved; third, abundance changes of certain taxa such as overabundance of Prevotella Genus distinguished caries microbiota from healthy ones, and furthermore, caries-active and normal individuals carried different arrays of Prevotella species; and finally, no ‘caries-specific’ operational taxonomic units (OTUs) were detected, yet 147 OTUs were ‘caries associated’, that is, differentially distributed yet present in both healthy and caries-active populations. These findings underscored the necessity of species- and strain-level resolution for caries prognosis, and were consistent with the ecological hypothesis where the shifts in community structure, instead of the presence or absence of particular groups of microbes, underlie the cariogenesis.This publication has 52 references indexed in Scilit:
- Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regionsNucleic Acids Research, 2010
- Oral microbiota of children in a school-based dental clinicAnaerobe, 2010
- Metagenomic study of the oral microbiota by Illumina high-throughput sequencingJournal of Microbiological Methods, 2009
- The integrated microbial genomes system: an expanding comparative analysis resourceNucleic Acids Research, 2009
- Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip dataThe ISME Journal, 2009
- Global diversity in the human salivary microbiomeGenome Research, 2009
- A core gut microbiome in obese and lean twinsNature, 2008
- The Ribosomal Database Project: improved alignments and new tools for rRNA analysisNucleic Acids Research, 2008
- Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencersNucleic Acids Research, 2008
- Pyrosequencing enumerates and contrasts soil microbial diversityThe ISME Journal, 2007