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Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities

OBJECTIVES: The oral microbiota plays a significant role in oral health. The present study aims to characterize variations in the oral microbiota relative to the collection site, the dynamics of biofilm accumulation, and inherent inter-individual differences. METHODS: Whole stimulated saliva and too...

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Autores principales: Esberg, Anders, Eriksson, Linda, Johansson, Ingegerd
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8921071/
https://www.ncbi.nlm.nih.gov/pubmed/35300180
http://dx.doi.org/10.3389/froh.2022.826996
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author Esberg, Anders
Eriksson, Linda
Johansson, Ingegerd
author_facet Esberg, Anders
Eriksson, Linda
Johansson, Ingegerd
author_sort Esberg, Anders
collection PubMed
description OBJECTIVES: The oral microbiota plays a significant role in oral health. The present study aims to characterize variations in the oral microbiota relative to the collection site, the dynamics of biofilm accumulation, and inherent inter-individual differences. METHODS: Whole stimulated saliva and tooth biofilm samples from the 16 defined tooth regions were collected after 1, 2, or 3 days without oral hygiene (accumulation time) in six healthy adults with no signs of active caries or periodontal disease. The routines and conditions before and between sample collections were carefully standardized. Genomic DNA was extracted, and the V3-V4 regions of the 16S rRNA gene were amplified by PCR and sequenced on an Illumina MiSeq platform. Sequences were quality controlled, amplicon sequence variants (ASVs) were clustered, and taxonomic allocation was performed against the expanded Human Oral Microbiome Database (eHOMD). Microbial community profiles were analyzed by multivariate modeling and a linear discriminant analysis (LDA) effect size (LEfSe) method. RESULTS: The overall species profile in saliva and tooth biofilm differed between participants, as well as sample type, with a significantly higher diversity in tooth biofilm samples than saliva. On average, 45% of the detected species were shared between the two sample types. The microbiota profile changed from the most anterior to the most posterior tooth regions regardless of whether sampling was done after 1, 2, or 3 days without oral hygiene. Increasing accumulation time led to higher numbers of detected species in both the saliva and region-specific tooth biofilm niches. CONCLUSION: The present study confirms that the differences between individuals dominate over sample type and the time abstaining from oral hygiene for oral microbiota shaping. Therefore, a standardized accumulation time may be less important for some research questions aiming at separating individuals. Furthermore, the amount of DNA is sufficient if at least two teeth are sampled for microbiota characterization, which allows a site-specific characterization of, for example, caries or periodontitis.
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spelling pubmed-89210712022-03-16 Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities Esberg, Anders Eriksson, Linda Johansson, Ingegerd Front Oral Health Oral Health OBJECTIVES: The oral microbiota plays a significant role in oral health. The present study aims to characterize variations in the oral microbiota relative to the collection site, the dynamics of biofilm accumulation, and inherent inter-individual differences. METHODS: Whole stimulated saliva and tooth biofilm samples from the 16 defined tooth regions were collected after 1, 2, or 3 days without oral hygiene (accumulation time) in six healthy adults with no signs of active caries or periodontal disease. The routines and conditions before and between sample collections were carefully standardized. Genomic DNA was extracted, and the V3-V4 regions of the 16S rRNA gene were amplified by PCR and sequenced on an Illumina MiSeq platform. Sequences were quality controlled, amplicon sequence variants (ASVs) were clustered, and taxonomic allocation was performed against the expanded Human Oral Microbiome Database (eHOMD). Microbial community profiles were analyzed by multivariate modeling and a linear discriminant analysis (LDA) effect size (LEfSe) method. RESULTS: The overall species profile in saliva and tooth biofilm differed between participants, as well as sample type, with a significantly higher diversity in tooth biofilm samples than saliva. On average, 45% of the detected species were shared between the two sample types. The microbiota profile changed from the most anterior to the most posterior tooth regions regardless of whether sampling was done after 1, 2, or 3 days without oral hygiene. Increasing accumulation time led to higher numbers of detected species in both the saliva and region-specific tooth biofilm niches. CONCLUSION: The present study confirms that the differences between individuals dominate over sample type and the time abstaining from oral hygiene for oral microbiota shaping. Therefore, a standardized accumulation time may be less important for some research questions aiming at separating individuals. Furthermore, the amount of DNA is sufficient if at least two teeth are sampled for microbiota characterization, which allows a site-specific characterization of, for example, caries or periodontitis. Frontiers Media S.A. 2022-03-01 /pmc/articles/PMC8921071/ /pubmed/35300180 http://dx.doi.org/10.3389/froh.2022.826996 Text en Copyright © 2022 Esberg, Eriksson and Johansson. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Oral Health
Esberg, Anders
Eriksson, Linda
Johansson, Ingegerd
Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title_full Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title_fullStr Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title_full_unstemmed Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title_short Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities
title_sort site- and time-dependent compositional shifts in oral microbiota communities
topic Oral Health
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8921071/
https://www.ncbi.nlm.nih.gov/pubmed/35300180
http://dx.doi.org/10.3389/froh.2022.826996
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