Identification and Characterization of Human Observational Studies in Nutritional Epidemiology on Gut Microbiomics for Joint Data Analysis

M. Pinart, K. Nimptsch*, S.K. Forslund, K. Schlicht, M. Gueimonde, P. Brigidi, S. Turroni, W. Ahrens, A. Hebestreit, M. Wolters, A. Dotsch, U. Nothlings, K. Oluwagbemigun, R.R.C. Cuadrat, M.B. Schulze, M. Standl, M. Schloter, M. De Angelis, P. Iozzo, M.A. GuzzardiG. Vlaemynck, J. Penders, D.M.A.E. Jonkers, M. Stemmer, G. Chiesa, D. Cavalieri, C. De Filippo, D. Ercolini, F. De Filippis, D. Ribet, N. Achamrah, M.P. Tavolacci, P. Dechelotte, J. Bouwman, M. Laudes, T. Pischon

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review


In any research field, data access and data integration are major challenges that even large, well-established consortia face. Although data sharing initiatives are increasing, joint data analyses on nutrition and microbiomics in health and disease are still scarce. We aimed to identify observational studies with data on nutrition and gut microbiome composition from the Intestinal Microbiomics (INTIMIC) Knowledge Platform following the findable, accessible, interoperable, and reusable (FAIR) principles. An adapted template from the European Nutritional Phenotype Assessment and Data Sharing Initiative (ENPADASI) consortium was used to collect microbiome-specific information and other related factors. In total, 23 studies (17 longitudinal and 6 cross-sectional) were identified from Italy (7), Germany (6), Netherlands (3), Spain (2), Belgium (1), and France (1) or multiple countries (3). Of these, 21 studies collected information on both dietary intake (24 h dietary recall, food frequency questionnaire (FFQ), or Food Records) and gut microbiome. All studies collected stool samples. The most often used sequencing platform was Illumina MiSeq, and the preferred hypervariable regions of the 16S rRNA gene were V3-V4 or V4. The combination of datasets will allow for sufficiently powered investigations to increase the knowledge and understanding of the relationship between food and gut microbiome in health and disease.
Original languageEnglish
Article number3292
Number of pages16
Issue number9
Publication statusPublished - 1 Sept 2021


  • microbiome
  • dietary intake
  • metadata
  • data integration
  • data sharing
  • observational studies
  • metabolome
  • AGE


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