Abstract
The oral cavity is one of the most important and complicated
habitats in our body and supports diverse microbial communities.
In this study, we aimed to determine the bacterial diversity
and composition of various oral micro-niches. Samples
were collected from supragingival plaque, saliva, and tongue
coating from 10 preschool children (30 samples total). 16S
rRNA gene pyrosequencing dataset generated 314,639 clean
reads with an average of 10,488 ± 2,787 reads per sample. The
phyla Firmicutes, Proteobacteria, Actinobacteria, Bacteroidetes,
and Fusobacteria were predominant, accounting for
more than 90% of the total sequences. We found the highest
α diversity, microbial richness, and evenness in plaque, compared
with saliva and tongue coating. Plaque was also distinguished
from saliva and tongue coating by phylogenetic
distances (weighted UniFrac). Taxa with different relative
abundances were further identified, confirming the existence
of microbial differences across the three niches. Core microbiomes
were defined of each niche; however, only a small proportion
of operational taxonomic units (8.07%) were shared
by the three niches. Coaggregation between Actinomyces spp.
and Streptococcus spp. and other correlations among periodontal
pathogens, such as Prevotella, Fusobacteria, Capnocytophaga,
and Tannerella, were shown by a co-occurrence
network. In summary, our study provides a framework of oral
microbial communities in the population of preschool children
as a baseline for further studies of oral diseases related
to microbes.
Citations
Citations to this article as recorded by

- Salivary microbiota dysbiosis and elevated polyamine levels contribute to the severity of periodontal disease
Md Haroon Rashid, Sandhya Pavan Kumar, Resma Rajan, Anitha Mamillapalli
BMC Oral Health.2025;[Epub] CrossRef - A dynamic microcosm biofilm model for root carious-like lesion development: analysis of demineralization and microbiological characterization
Tamires Timm Maske, Glenda Ávila Marques, Bruna Dalongaro Fritsch, Bruna Moraes Kremer, Maximiliano Sérgio Cenci, Pabulo Henrique Rampelotto, Rodrigo Alex Arthur
Biofouling.2025; 41(5): 536. CrossRef - The tongue microbiome of young patients with chronic kidney disease and their healthy mothers
Karolin C. Hoefer, Lutz T. Weber, Anna Greta Barbe, Isabelle Graf, Stefanie Thom, Angela Nowag, Claus J. Scholz, Hilmar Wisplinghoff, Michael J. Noack, Nathalie Jazmati
Clinical Oral Investigations.2024;[Epub] CrossRef - Species-level characterization of saliva and dental plaque microbiota reveals putative bacterial and functional biomarkers of periodontal diseases in dogs
Giulia Alessandri, Federico Fontana, Leonardo Mancabelli, Chiara Tarracchini, Gabriele Andrea Lugli, Chiara Argentini, Giulia Longhi, Sonia Mirjam Rizzo, Laura Maria Vergna, Rosaria Anzalone, Alice Viappiani, Francesca Turroni, Maria Cristina Ossiprandi,
FEMS Microbiology Ecology.2024;[Epub] CrossRef - Molecular Genetic Analysis of Perioperative Colonization by Infection-Related Microorganisms in Patients Receiving Intraoral Microvascular Grafts
Henriette Louise Moellmann, Katharina Kommer, Nadia Karnatz, Klaus Pfeffer, Birgit Henrich, Majeed Rana
Journal of Clinical Medicine.2024; 13(14): 4103. CrossRef - Advances in the oral microbiota and rapid detection of oral infectious diseases
Xuan Xiao, Shangfeng Liu, Hua Deng, Yuhan Song, Liang Zhang, Zhifeng Song
Frontiers in Microbiology.2023;[Epub] CrossRef - Novel Strategies for Preventing Dysbiosis in the Oral Cavity
Mariana B Rebelo, Cláudia S Oliveira, Freni K Tavaria
Frontiers in Bioscience-Elite.2023;[Epub] CrossRef - Lactobacillus paracasei ET-22 Suppresses Dental Caries by Regulating Microbiota of Dental Plaques and Inhibiting Biofilm Formation
Meng Guo, Jianmin Wu, Weilian Hung, Zhe Sun, Wen Zhao, Hanglian Lan, Zhi Zhao, Guna Wuri, Bing Fang, Liang Zhao, Ming Zhang
Nutrients.2023; 15(15): 3316. CrossRef - Exploring Oral Microbiome in Healthy Infants and Children: A Systematic Review
Silvia D’Agostino, Elisabetta Ferrara, Giulia Valentini, Sorana Andreea Stoica, Marco Dolci
International Journal of Environmental Research and Public Health.2022; 19(18): 11403. CrossRef - Sonication versus the conventional method for evaluation of the dental microbiome: a prospective pilot study
Oliver Wagendorf, Peter Menzel, Rolf Schwarzer, Norbert Neckel, Saskia Preissner, Max Heiland, Susanne Nahles
BMC Oral Health.2022;[Epub] CrossRef - The Oral Microbiota: Community Composition, Influencing Factors, Pathogenesis, and Interventions
Xinyi Li, Yanmei Liu, Xingyou Yang, Chengwen Li, Zhangyong Song
Frontiers in Microbiology.2022;[Epub] CrossRef - Predominance of non-Streptococcus mutans bacteria in dental biofilm and its relation to caries progression
Doaa M. AlEraky, Marwa Madi, Maha El Tantawi, Jehan AlHumaid, Sarah Fita, Sayed AbdulAzeez, J. Francis Borgio, Fahad A. Al-Harbi, Adel S. Alagl
Saudi Journal of Biological Sciences.2021; 28(12): 7390. CrossRef - The impact of caries status on supragingival plaque and salivary microbiome in children with mixed dentition: a cross-sectional survey
Xiaoxia Yang, Lidan He, Siqi Yan, Xinyi Chen, Guoying Que
BMC Oral Health.2021;[Epub] CrossRef - Acquisition and establishment of the oral microbiota
A. M. (Marije) Kaan, Dono Kahharova, Egija Zaura, M. Curtis, R. Darveau
Periodontology 2000.2021; 86(1): 123. CrossRef - Microbiome of Saliva and Plaque in Children According to Age and Dental Caries Experience
Eungyung Lee, Suhyun Park, Sunwoo Um, Seunghoon Kim, Jaewoong Lee, Jinho Jang, Hyoung-oh Jeong, Jonghyun Shin, Jihoon Kang, Semin Lee, Taesung Jeong
Diagnostics.2021; 11(8): 1324. CrossRef - Relationship of Salivary Microbiome with the Worsening of the Periodontal Health Status in Young Adults: A 3-Year Cohort Study
Md Monirul Islam, Daisuke Ekuni, Naoki Toyama, Terumasa Kobayashi, Kohei Fujimori, Yoko Uchida, Daiki Fukuhara, Ayano Taniguchi-Tabata, Kota Kataoka, Yoshiaki Iwasaki, Manabu Morita
International Journal of Environmental Research and Public Health.2020; 17(5): 1764. CrossRef - The canine oral microbiome: variation in bacterial populations across different niches
Avika Ruparell, Taichi Inui, Ruth Staunton, Corrin Wallis, Oliver Deusch, Lucy J. Holcombe
BMC Microbiology.2020;[Epub] CrossRef - The oral microbiome and salivary proteins influence caries in children aged 6 to 8 years
Wang Chen, Qian Jiang, Guowei Yan, Deqin Yang
BMC Oral Health.2020;[Epub] CrossRef - MEDICAL AND GENETIC STUDIES OF ORAL MICROBIOMA STATUS IN CHILDREN
S. S. Ostrovska, P. G. Gerasimchuk
Bulletin of Problems Biology and Medicine.2019; 4(1): 43. CrossRef - The Interaction of the Gut Microbiota with the Mucus Barrier in Health and Disease in Human
Anthony P. Corfield
Microorganisms.2018; 6(3): 78. CrossRef - Distinctions and associations between the microbiota of saliva and supragingival plaque of permanent and deciduous teeth
Weihua Shi, Jing Tian, He Xu, Qiong Zhou, Man Qin, Kazuhiro Takemoto
PLOS ONE.2018; 13(7): e0200337. CrossRef