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Deciphering Endodontic Microbial Communities by Next-generation Sequencing.

Jae M Shin1, Ting Luo2, Kyu Han Lee2

  • 1Department of Cariology, Restorative Sciences, and Endodontics, University of Michigan School of Dentistry, Ann Arbor, Michigan; Department of Epidemiology, School of Public Health, University of Michigan, Ann Arbor, Michigan.

Journal of Endodontics
|June 5, 2018
PubMed
Summary
This summary is machine-generated.

Root canal biofilms, found in most diseased teeth, were analyzed using next-generation sequencing (NGS). This review highlights common bacterial phyla and genera, emphasizing the need for standardized methods in future microbiome research.

Keywords:
16S ribosomal RNAbiofilmmicrobiomenext-generation sequencingpolymicrobialroot canal

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Area of Science:

  • Microbiology
  • Genomics
  • Endodontics

Background:

  • Bacterial biofilms are prevalent in over 70% of endodontically diseased teeth.
  • Next-generation sequencing (NGS) advances microbiome research, enabling detailed analysis of microbial communities.
  • This review synthesizes findings from studies profiling root canal microbial communities using NGS.

Purpose of the Study:

  • To review and analyze studies employing NGS to characterize microbial communities in root canal biofilms.
  • To identify common bacterial taxa and NGS methodologies used in endodontic microbiome research.

Main Methods:

  • A systematic review of 12 peer-reviewed articles from PubMed.
  • Inclusion criteria focused on NGS platforms, sequenced hypervariable regions, tooth diagnosis, patient information, sample characteristics, collection methods, and microbial signatures.

Main Results:

  • Common NGS platforms included 454 pyrosequencing and Illumina. Hypervariable regions V1-V6 were frequently sequenced.
  • The most abundant phyla were Firmicutes, Actinobacteria, Bacteroidetes, Proteobacteria, and Fusobacteria.
  • Prevotella, Fusobacterium, Porphyromonas, Parvimonas, and Streptococcus were the most frequently detected genera, with significant variability noted across studies.

Conclusions:

  • High-throughput 16S ribosomal RNA NGS effectively deciphers complex root canal bacterial communities.
  • Current research is limited by small sample sizes and variable methodologies.
  • Larger clinical studies with standardized protocols are crucial for understanding the pathogenicity of root canal biofilms.