ArticleMethods in molecular biology (Clifton, N.J.)2019
The Supragingival Biofilm in Early Childhood Caries: Clinical and Laboratory Protocols and Bioinformatics Pipelines Supporting Metagenomics, Metatranscriptomics, and Metabolomics Studies of the Oral Microbiome.
Article in Methods in molecular biology (Clifton, N.J.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed, 28 citations in OpenAlex.
- Standardizing oral microbiome sampling for qPCR: methodological and exploratory insights into nutritional status.Scientific reports · 2026Article
- Metabolic modulation and multi-species interaction:Frontiers in cellular and infection microbiology · 2025Article
- Methodological Considerations in Longitudinal Analyses of Microbiome Data: A Comprehensive Review.Genes · 2023Review
- Comprehensive evaluation of methods for differential expression analysis of metatranscriptomics data.Briefings in bioinformatics · 2023Article
- Selenomonas sputigena acts as a pathobiont mediating spatial structure and biofilm virulence in early childhood caries.Nature communications · 2023Article
- BZINB Model-Based Pathway Analysis and Module Identification Facilitates Integration of Microbiome and Metabolome Data.Microorganisms · 2023Article
- Biofilm dysbiosis and caries activity: a surface or an individual issue?Journal of applied oral science : revista FOB · 2023Article
- Phytochemical Profile of Antibacterial Agents from Red Betel Leaf (Molecules (Basel, Switzerland) · 2022Review
- Metabolomics Insights in Early Childhood Caries.Journal of dental research · 2021Article
- Improved Metabolite Prediction Using Microbiome Data-Based Elastic Net Models.Frontiers in cellular and infection microbiology · 2021Article
- Cohort Profile: ZOE 2.0-A Community-Based Genetic Epidemiologic Study of Early Childhood Oral Health.International journal of environmental research and public health · 2020Article
- Comparison of DNA Extracted from Pediatric Saliva, Gingival Crevicular Fluid and Site-Specific Biofilm Samples.Methods and protocols · 2020Article
- The building blocks of precision oral health in early childhood: the ZOE 2.0 study.Journal of public health dentistry · 2020Article
- Measurement of Early Childhood Oral Health for Research Purposes: Dental Caries Experience and Developmental Defects of the Enamel in the Primary Dentition.Methods in molecular biology (Clifton, N.J.) · 2019Article
Corrections and comments
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Authors and funding
15 authors at 4 institutions in 2 countries.
Funding
Abstract
Early childhood caries (ECC) is a biofilm-mediated disease. Social, environmental, and behavioral determinants as well as innate susceptibility are major influences on its incidence; however, from a pathogenetic standpoint, the disease is defined and driven by oral dysbiosis. In other words, the disease occurs when the natural equilibrium between the host and its oral microbiome shifts toward states that promote demineralization at the biofilm-tooth surface interface. Thus, a comprehensive understanding of dental caries as a disease requires the characterization of both the composition and the function or metabolic activity of the supragingival biofilm according to well-defined clinical statuses. However, taxonomic and functional information of the supragingival biofilm is rarely available in clinical cohorts, and its collection presents unique challenges among very young children. This paper presents a protocol and pipelines available for the conduct of supragingival biofilm microbiome studies among children in the primary dentition, that has been designed in the context of a large-scale population-based genetic epidemiologic study of ECC. The protocol is being developed for the collection of two supragingival biofilm samples from the maxillary primary dentition, enabling downstream taxonomic (e.g., metagenomics) and functional (e.g., transcriptomics and metabolomics) analyses. The protocol is being implemented in the assembly of a pediatric precision medicine cohort comprising over 6000 participants to date, contributing social, environmental, behavioral, clinical, and biological data informing ECC and other oral health outcomes.
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Registered trials
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