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The supragingival biofilm in early childhood caries : clinical and laboratory protocols and bioinformatics pipelines supporting metagenomics, metatranscriptomics, and metabolomics studies of the oral microbiome

Divaris, Kimon (author)
Department of Pediatric Dentistry, UNC School of Dentistry, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States; Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Shungin, Dmitry (author)
Umeå universitet,Institutionen för odontologi,Broad Institute of the Massachusetts Institute of Technology and Harvard University, MA, Cambridge, United States
Rodríguez-Cortés, Adaris (author)
Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States; Biospecimen Core Processing Facility, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
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Basta, Patricia V. (author)
Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States; Biospecimen Core Processing Facility, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Roach, Jeff (author)
Research Computing, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Cho, Hunyong (author)
Department of Biostatistics, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Wu, Di (author)
Department of Biostatistics, Gillings School of Global Public Health, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States; Department of Periodontology, UNC School of Dentistry, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Ferreira Zandoná, Andrea G. (author)
Department of Comprehensive Dentistry, Tufts University School of Dental Medicine, Tufts University, MA, Boston, United States
Ginnis, Jeannie (author)
Department of Pediatric Dentistry, UNC School of Dentistry, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Ramamoorthy, Sivapriya (author)
Metabolon, Inc., NC, Durham, United States
Kinchen, Jason M. (author)
Metabolon, Inc., NC, Durham, United States
Kwintkiewicz, Jakub (author)
Division of Gastroenterology and Hepatology, Department of Medicine, Microbiome Core Facility, Center for Gastrointestinal Biology and Disease, School of Medicine, University of North Carolina, NC, Chapel Hill, United States
Butz, Natasha (author)
Microbiome Core Facility, Department of Cell Biology and Physiology, School of Medicine, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States; Division of Gastroenterology and Hepatology, School of Medicine, Department of Medicine, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Ribeiro, Apoena A. (author)
Department of Diagnostic Sciences, UNC School of Dentistry, University of North Carolina-Chapel Hill, NC, Chapel Hill, United States
Azcarate-Peril, M. Andrea (author)
Center for Gastrointestinal Biology and Disease, Division of Gastroenterology and Hepatology, and UNC Microbiome Core, Department of Medicine, School of Medicine, University of North Carolina, NC, Chapel Hill, United States
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 (creator_code:org_t)
2019-03-06
2019
English.
In: Odontogenesis. - New York, NY : Humana Press. - 9781493990115 - 9781493990122 ; , s. 525-548
Related links:
https://europepmc.or...
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https://urn.kb.se/re...
https://doi.org/10.1...
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  • Book chapter (peer-reviewed)
Abstract Subject headings
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  • 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.

Subject headings

MEDICIN OCH HÄLSOVETENSKAP  -- Klinisk medicin -- Odontologi (hsv//swe)
MEDICAL AND HEALTH SCIENCES  -- Clinical Medicine -- Dentistry (hsv//eng)

Keyword

Children
Dental caries
Metabolome
Microbiome
Protocol
Transcriptome

Publication and Content Type

ref (subject category)
kap (subject category)

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