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David Barnett (D.J.M.)

Research profile

https://scholar.google.com/citations?user=CCmKtEsAAAAJ&hl

David Barnett is a research bioinformatician supporting the microbiome research group of Prof. John Penders. David uses advanced computational methods to study how the human microbiome contributes to health and disease, and how it can be affected by diet and medications. He develops bioinformatic workflows to extract information from terabytes of metagenomic sequence data and uses biostatistical techniques to make sense of this information in the context of human cohorts and clinical trials.

Research projects
Recent publications
  • van Kalkeren, C. A. J., van Deuren, T., Coenjaerds, M. M. J., Galazzo, G., Barnett, D. J. M., Penders, J., Hartmann, B., Holst, J. J., Canfora, E. E., & Blaak, E. E. (2026). Effects of a slowly fermentable fiber mixture against the background of a high-protein diet on insulin sensitivity and metabolic health in individuals with overweight: a randomized, placebo-controlled trial. Gut Microbes, 18(1), Article 2606473. https://doi.org/10.1080/19490976.2025.2606473
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  • Vliex, L. M. M., Barnett, D., Monzel, E., Nauta, A., Oudhuis, G. J., Fassarella, M., Holst, J. J., Zoetendal, E. G., Penders, J., & Blaak, E. E. (2025). 2'-Fucosyllactose supplementation results in a transient improvement in gut microbial resilience after vancomycin use in adults with overweight or obesity: a randomized, double-blind, placebo-controlled intervention. Gut Microbes, 17(1), Article 2580693. https://doi.org/10.1080/19490976.2025.2580693
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  • Barnett, D., Thijs, C., Mommers, M., Endika, M., Klostermann, C., Schols, H., Smidt, H., Nauta, A., Arts, I., & Penders, J. (2025). Why do babies cry? Exploring the role of the gut microbiota in infantile colic, constipation, and cramps in the KOALA birth cohort study. Gut Microbes, 17(1), Article 2485326. https://doi.org/10.1080/19490976.2025.2485326
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  • Verbunt, J., Jocken, J., Canfora, E., Barnett, D., Blaak, E., Savelkoul, P., & Stassen, F. (2025). Assessment of the reproducibility of bacterial membrane vesicle isolation and characterization. Extracellular Vesicles and Circulating Nucleic Acids, 6(4), 728-741. https://doi.org/10.20517/evcna.2025.71
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  • Pyuza, J. J., van Dorst, M. M. A. R., Barnett, D., Stam, K., Manurung, M., Wammes, L., Konig, M., Kruize, Y., Andongolile, N., Ngowi, A., Shao, E. R., Kullaya, V. I., Mremi, A., Hogendoorn, P. C. W., Msuya, S. E., Jochems, S. P., Penders, J., Yazdanbakhsh, M., & Piters, W. A. A. D. S. (2025). Tanzanian gut microbiota profiles linked to high but rapidly waning yellow fever antibody titers. npj Biofilms Microbomes, 11(1), Article 110. https://doi.org/10.1038/s41522-025-00687-w
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  • Endika, M. F., Barnett, D. J. M., Olmos, E. M., Ter Braak, C. J. F., Arts, I. C. W., Penders, J., Nauta, A., Leemhuis, H., Venema, K., & Smidt, H. (2025). Assessing the potential for non-digestible carbohydrates toward mitigating adverse effects of antibiotics on microbiota composition and activity in an in vitro colon model of the weaning infant. FEMS microbiology ecology, 101(4), Article fiaf028. https://doi.org/10.1093/femsec/fiaf028
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  • Hillege, L. E., Barnett, D. J. M., Ziemons, J., Aarnoutse, R., de Vos-Geelen, J., van Geel, R., de Boer, M., van Riet, Y. E. A., Vincent, J., Penders, J., & Smidt, M. L. (2025). The gut microbiota during tamoxifen therapy in patients with breast cancer. Scientific Reports, 15(1), Article 7874. https://doi.org/10.1038/s41598-025-91734-1
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  • Endika, M. F., Barnett, D. J. M., Klostermann, C. E., Kok, N., Schols, H. A., Nauta, A., Arts, I. C. W., Penders, J., Venema, K., & Smidt, H. (2024). Seeding and feeding milestones: the role of human milk microbes and oligosaccharides in the temporal development of infant gut microbiota. Gut Microbiome, 5, Article e7. https://doi.org/10.1017/gmb.2024.5
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  • Ziemons, J., Hillege, L. E., Aarnoutse, R., de Vos-Geelen, J., Valkenburg-van Iersel, L., Mastenbroek, J., van Geel, R., Barnett, D. J. M., Rensen, S. S., van Helvoort, A., Dopheide, L. H. J., Roeselers, G., Penders, J., Smidt, M. L., & Venema, K. (2024). Prebiotic fibre mixtures counteract the manifestation of gut microbial dysbiosis induced by the chemotherapeutic 5-Fluorouracil (5-FU) in a validated in vitro model of the colon. BMC Microbiology, 24(1), Article 222. https://doi.org/10.1186/s12866-024-03384-4
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  • Barnett, D. J. M. (2024). Perturbing and protecting the infant gut: exploring the impacts of antibiotics and oligosaccharides on gut microbiota and child health. [Doctoral Thesis, Maastricht University]. Maastricht University. https://doi.org/10.26481/dis.20241205db
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