articleJournal of Clinical InvestigationMar 31, 2022GOLD OA

Next-generation sequencing: insights to advance clinical investigations of the microbiome

CRCaroline R. WenselJLJennifer L. PluznickSLSteven L. SalzbergCLCynthia L. Sears

Johns Hopkins University · Johns Hopkins Medicine

PubMed
Indexed incrossrefdoajpubmed

Abstract

Next-generation sequencing (NGS) technology has advanced our understanding of the human microbiome by allowing for the discovery and characterization of unculturable microbes with prediction of their function. Key NGS methods include 16S rRNA gene sequencing, shotgun metagenomic sequencing, and RNA sequencing. The choice of which NGS methodology to pursue for a given purpose is often unclear for clinicians and researchers. In this Review, we describe the fundamentals of NGS, with a focus on 16S rRNA and shotgun metagenomic sequencing. We also discuss pros and cons of each methodology as well as important concepts in data variability, study design, and clinical metadata collection. We further present examples…

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412
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31.62
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100%
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Authors

4
  • CR
    Caroline R. WenselCorresponding
  • JL
    Jennifer L. Pluznick

    Johns Hopkins University, Johns Hopkins Medicine

  • SL
    Steven L. Salzberg

    Johns Hopkins University

  • CL
    Cynthia L. Sears

    Johns Hopkins University, Johns Hopkins Medicine

Topics & keywords

Topics
Keywords
  • Metagenomics
  • Microbiome
  • Human microbiome
  • Human Microbiome Project
  • Shotgun sequencing
  • Human disease
  • Biobank
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