Publications

Artificial selection improves pollutant degradation by bacterial communities
Arias-Sánchez, F. I., Vessmann, B., Haym, A., Alberti, G., Mitri, S. (2024).
https://doi.org/10.1038/s41467-024-52190-z
Fragmented micro-growth habitats present opportunities for alternative competitive outcomes
Batsch, M., Guex, I., Todorov, H., Heiman, C. M., Vacheron, J., Vorholt, J., Keel, C., van der Meer, J. R. (2024).
https://doi.org/10.1038/s41467-024-51944-z
Expanding the Pseudomonas diversity of the wheat rhizosphere: four novel species antagonizing fungal phytopathogens and with plant-beneficial properties
Poli, N., Keel, C., Garrido-Sanz, D. (2024).
https://doi.org/10.3389/fmicb.2024.1440341
Natural plant disease suppressiveness in soils extends to insect pest control
Harmsen, N., Vesga, P., Glauser, G., Klötzli, F., Heiman, C. M., Altenried, A., Vacheron, J., Muller, D., Moënne-Loccoz, Y., Steinger, T., Keel C., Garrido-Sanz, D. (2024).
https://doi.org/10.1186/s40168-024-01841-w
Niche availability and competitive loss by facilitation control proliferation of bacterial strains intended for soil microbiome interventions
Causevic, S., Dubey, M., Morales, M., Salazar, G., Sentchilo, V., Carraro, N., Ruscheweyh, H.-J., Sunagawa, S., van der Meer, J. R. (2024).
https://doi.org/10.1038/s41467-024-46933-1
Assessing microbiome population dynamics using wild-type isogenic standardized hybrid (WISH)-tags
Daniel, B. B. J., Steiger, Y., Sintsova, A., Field, C. M., Nguyen, B. D., Schubert, C., Cherrak, Y., Sunagawa, S., Hardt, W.-D., Vorholt, J. A. (2024).
https://doi.org/10.1038/s41564-024-01634-9
mBARq: a versatile and user-friendly framework for the analysis of DNA barcodes from transposon insertion libraries, knockout mutants, and isogenic strain populations
Sintsova, A., Ruscheweyh, H.-J., Field, C. M., Feer, L., Nguyen, B., Daniel, B., Hardt, W.-D., Vorholt, J. A., Sunagawa, S. (2024).
https://doi.org/10.1093/bioinformatics/btae078
Leaf microbiome dysbiosis triggered by T2SS-dependent enzyme secretion from opportunistic Xanthomonas pathogens
Pfeilmeier, S., Werz, A., Ote, M., Vorholt, J. A., et al. (2024).
https://doi.org/10.1038/s41564-023-01555-z
Identifying microbiota community patterns important for plant protection using synthetic communities and machine learning
Emmenegger, B., Massoni, J., Pestalozzi, C. M., Bortfeld-Miller, M., Maier, B. A., Vorholt, J. A. (2023).
https://doi.org/10.1038/s41467-023-43793-z
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