Publications

Quantifying the varying harvest of fermentation products from the human gut microbiota
Arnoldini, M., Sharma, R., Moresi, C., Chure, G., Chabbey, Slack, E., Cremer, J. (2025).
https://doi.org/10.1016/j.cell.2025.07.005
Designing pathways for bioproducing complex chemicals by combining tools for pathway extraction and ranking
Sveshnikova, A., Oftadeh, O. & Hatzimanikatis, V. (2025).
https://doi.org/10.1038/s41467-025-59827-7
Vaccine-enhanced competition permits rational bacterial strain replacement in the gut
Lentsch, V., Woller, A., Rocker, A., Hardt, W.-D., Loverdo, C., Diard, M., Slack, E., et al. (2025).

DOI: 10.1126/science.adp5011

Open access version: https://europepmc.org/article/PMC/PMC7617753
Seed-borne bacteria drive wheat rhizosphere microbiome assembly via niche partitioning and facilitation
Garrido-Sanz, D., Keel, C. (2025).
https://doi.org/10.1038/s41564-025-01973-1
Sublethal systemic LPS in mice enables gut-luminal pathogens to bloom through oxygen species-mediated microbiota inhibition
Kroon, S., Malcic, D., Weidert, L., Sunagawa, S., Vorholt, J. A., Maier, L., Lacroix, C., Hausmann, A., Hardt, W.-D., et al. (2025).
https://doi.org/10.1038/s41467-025-57979-0
Host specificity of gut microbiota associated with social bees: patterns and processes
Mazel, F., Prasad, A., Engel, P. (2025).
https://doi.org/10.1128/mmbr.00080-23
Metabolic network reconstruction as a resource for analyzing Salmonella Typhimurium SL1344 growth in the mouse intestine
Vayena, E., Fuchs, L., Mohammadi Peyani, H., Lagoda, K., Nguyen, B., Hardt, W.-D., Hatzimanikatis, V. (2025).
https://doi.org/10.1371/journal.pcbi.1012869
Neutrophil recruitment during intestinal inflammation primes Salmonella elimination by commensal E. coli in a context-dependent manner
Cherrak, Y., Abi Younes, A., Perez-Molphe-Montoya, E., Vorholt, J. A., Von Mering, C., Hardt, W.-D., et al. (2025).
https://doi.org/10.1016/j.chom.2025.02.004
Disentangling the feedback loops driving spatial patterning in microbial communities
Henderson, A., Del Panta, A., Schubert, O. T., Mitri, S., van Vliet, S. (2025).
doi.org/10.1038/s41522-025-00666-1
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