The Integrative Human Microbiome Project

Nature. 2019 May;569(7758):641-648. doi: 10.1038/s41586-019-1238-8. Epub 2019 May 29.


The NIH Human Microbiome Project (HMP) has been carried out over ten years and two phases to provide resources, methods, and discoveries that link interactions between humans and their microbiomes to health-related outcomes. The recently completed second phase, the Integrative Human Microbiome Project, comprised studies of dynamic changes in the microbiome and host under three conditions: pregnancy and preterm birth; inflammatory bowel diseases; and stressors that affect individuals with prediabetes. The associated research begins to elucidate mechanisms of host-microbiome interactions under these conditions, provides unique data resources (at the HMP Data Coordination Center), and represents a paradigm for future multi-omic studies of the human microbiome.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Diet
  • Female
  • Gastrointestinal Microbiome / physiology
  • Host Microbial Interactions / physiology
  • Humans
  • Infant, Newborn
  • Infant, Premature*
  • Infections / complications
  • Infections / microbiology
  • Inflammatory Bowel Diseases / microbiology*
  • Microbiota* / physiology
  • National Institutes of Health (U.S.) / organization & administration*
  • Prediabetic State / complications
  • Prediabetic State / microbiology*
  • Pregnancy
  • Research / organization & administration*
  • Time Factors
  • United States
  • Vagina / microbiology