Methods in microbiome research: Past, present, and future

Emily C. Gotschlich, Robert A. Colbert, Tejpal Gill

Research output: Contribution to journalReview articlepeer-review

10 Scopus citations


The human microbiome is impressively immense and participates in many aspects of our health and wellness, particularly involving the development and maintenance of a healthy immune system. Not only do our microbes teach the immune system to fight infection, they also teach immune tolerance and help maintain homeostasis. From this knowledge, we have learned that the loss of tolerance to microbiota in both innate and adaptive processes plays an important role in immune-mediated and autoimmune disease. In this chapter, we will be discussing about methods used to study the microbiome, both old and new methods, fundamental concepts that have taken hold within the field, and how these principles relate to rheumatology, including thoughts on how microbiome research may be focused in the next decade.

Original languageEnglish (US)
Article number101498
JournalBest Practice and Research: Clinical Rheumatology
Issue number6
StatePublished - Dec 2019


  • 16S rRNA gene sequencing
  • Dysbiosis
  • Ecological model
  • Metabolomics
  • Metagenomics
  • Microbiome
  • Mucosal immunity
  • Tolerance

ASJC Scopus subject areas

  • Rheumatology


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