van Butselaar, T., Silva, S., Lapin, D., Bañales Belaunde, I., Tonn, S., van Schie, C., & Van den Ackerveken, G. (2024). The Role of Salicylic Acid in the Expression of RECEPTOR-LIKE PROTEIN 23 and Other Immunity-Related Genes. Phytopathology, PHYTO10230413KC. Advance online publication.
Duran, K., Kohlstedt, M., van Erven, G., Klostermann, C. E., America, A. H. P., Bakx, E., Baars, J. J. P., Gorissen, A., de Visser, R., de Vries, R. P., Wittmann, C., Comans, R. N. J., Kuyper, T. W., & Kabel, M. A. (2024). From 13C-lignin to 13C-mycelium: Agaricus bisporus uses polymeric lignin as a carbon source. Science advances, 10(16), Article eadl3419.
Xu, L., Li, J., Gonzalez Ramos, V. M., Lyra, C., Wiebenga, A., Grigoriev, I. V., de Vries, R. P., Mäkelä, M. R., & Peng, M. (2024). Genome-wide prediction and transcriptome analysis of sugar transporters in four ascomycete fungi. Bioresource Technology, 391(Pt B), Article 130006.


Ogden, S. C., Nishimura, M. T., & Lapin, D. (2023). Functional diversity of Toll/interleukin-1 receptor domains in flowering plants and its translational potential. Current Opinion in Plant Biology, 76, Article 102481.
Goossens, P., Spooren, J., Baremans, K. C. M., Andel, A., Lapin, D., Echobardo, N., Pieterse, C. M. J., Van den Ackerveken, G., & Berendsen, R. L. (2023). Obligate biotroph downy mildew consistently induces near-identical protective microbiomes in Arabidopsis thaliana. Nature Microbiology, 8(12), 2349-2364.
Li, J. (2023). Fungi use highly diverse approaches for plant biomass conversion as revealed through bioinformatic analysis. [Doctoral thesis 2 (Research NOT UU / Graduation UU), Universiteit Utrecht]. Utrecht University.
Garrigues, S., Peng, M., Kun, R. S., & de Vries, R. P. (2023). Non-homologous end-joining-deficient filamentous fungal strains mitigate the impact of off-target mutations during the application of CRISPR/Cas9. mBio, 14(4), 1-15. Article e0066823.
Li, J., Wiebenga, A., Lipzen, A., Ng, V., Tejomurthula, S., Zhang, Y., Grigoriev, I. V., Peng, M., & de Vries, R. P. (2023). Comparative Genomics and Transcriptomics Analyses Reveal Divergent Plant Biomass-Degrading Strategies in Fungi. Journal of fungi (Basel, Switzerland), 9(8), 1-15. Article 860.
Salazar-Cerezo, S., de Vries, R. P., & Garrigues, S. (2023). Strategies for the Development of Industrial Fungal Producing Strains. Journal of fungi (Basel, Switzerland), 9(8), 1-33. Article 834.
Shokrian Hajibehzad, S., Silva, S. S., Peeters, N., Stouten, E., Buijs, G., Smeekens, S., & Proveniers, M. (2023). Arabidopsis thaliana rosette habit is controlled by combined light and energy signaling converging on transcriptional control of the TALE homeobox gene ATH1. New Phytologist, 239(3), 1051-1067.
Griebel, T., Lapin, D., Locci, F., Kracher, B., Bautor, J., Concia, L., Benhamed, M., & Parker, J. E. (2023). Arabidopsis Topless-related 1 mitigates physiological damage and growth penalties of induced immunity. New Phytologist, 239(4), 1404-1419.
Liu, D., Garrigues, S., & de Vries, R. P. (2023). Heterologous protein production in filamentous fungi. Applied Microbiology and Biotechnology, 107(16), 5019-5033.
Duran, K., Magnin, J., America, A. H. P., Peng, M., Hilgers, R., de Vries, R. P., Baars, J. J. P., van Berkel, W. J. H., Kuyper, T. W., & Kabel, M. A. (2023). The secretome of Agaricus bisporus: Temporal dynamics of plant polysaccharides and lignin degradation. iScience, 26(7), 1-22. Article 107087.
Butselaar, T. V., Silva, S., Lapin, D., Banales, I., Tonn, S., Schie, C. V., & Ackerveken, G. V. D. (2023). Basal expression of immune receptor genes requires low levels of the phytohormone salicylic acid. bioRxiv.
Lapin, D. (2023). Plant immune receptors can sequester and protect host proteins from pathogen-promoted degradation. Molecular Plant, 16(6), 966-967.
Peng, M., Bervoets, S., Chin-A-Woeng, T., Granchi, Z., Hildén, K., Mäkelä, M. R., & de Vries, R. P. (2023). The transcriptomic response of two basidiomycete fungi to plant biomass is modulated by temperature to a different extent. Microbiological Research, 270, 1-8. Article 127333.
Kun, R. S., Salazar-Cerezo, S., Peng, M., Zhang, Y., Savage, E., Lipzen, A., Ng, V., Grigoriev, I. V., de Vries, R. P., & Garrigues, S. (2023). The Amylolytic Regulator AmyR of Aspergillus niger Is Involved in Sucrose and Inulin Utilization in a Culture-Condition-Dependent Manner. Journal of fungi (Basel, Switzerland), 9(4), 1-14. Article 438.
van Butselaar, T. (2023). The Salicylic Acid-Mediated Growth-Immunity Tradeoff in Arabidopsis. [Doctoral thesis 1 (Research UU / Graduation UU), Universiteit Utrecht]. Universiteit Utrecht.
Goossens, P., Spooren, J., Baremans, K. C. M., Andel, A., Lapin, D., Echobardo, N., Pieterse, C. M. J., Ackerveken, G. V. D., & Berendsen, R. L. (2023). Congruent downy mildew-associated microbiomes reduce plant disease and function as transferable resistobiomes. bioRxiv.
Reddy, S. K., & de Vries, R. (2023). Mycoproteins and yeast proteins in food industry. In Our Future Proteins (pp. 179-187). VU University Press.
Kun, R. S., Garrigues, S., Peng, M., Keymanesh, K., Lipzen, A., Ng, V., Tejomurthula, S., Grigoriev, I. V., & de Vries, R. P. (2023). The transcriptional activator ClrB is crucial for the degradation of soybean hulls and guar gum in Aspergillus niger. Fungal Genetics and Biology, 165, 1-11. Article 103781.
Meng, J., Mäkelä, M. R., & de Vries, R. P. (2023). Identification of an l-Arabitol Transporter from Aspergillus niger. Biomolecules, 13(2), 1-11. Article 188.
Johanndrees, O., Baggs, E. L., Uhlmann, C., Locci, F., Läßle, H. L., Melkonian, K., Käufer, K., Dongus, J. A., Nakagami, H., Krasileva, K. V., Parker, J. E., & Lapin, D. (2023). Variation in plant Toll/Interleukin-1 receptor domain protein dependence on ENHANCED DISEASE SUSCEPTIBILITY 1. Plant Physiology, 191(1), 626-642.


Li, J., Chroumpi, T., Garrigues, S., Kun, R. S., Meng, J., Salazar-Cerezo, S., Aguilar-Pontes, M. V., Zhang, Y., Tejomurthula, S., Lipzen, A., Ng, V., Clendinen, C. S., Tolić, N., Grigoriev, I. V., Tsang, A., Mäkelä, M. R., Snel, B., Peng, M., & de Vries, R. P. (2022). The Sugar Metabolic Model of Aspergillus niger Can Only Be Reliably Transferred to Fungi of Its Phylum. Journal of fungi (Basel, Switzerland), 8(12), Article 1315.
Jochems, P. G. M., Heming, B., Lapin, D., Moonen, N. E. L., Van den Ackerveken, G., & Masereeuw, R. (2022). Bioengineered intestinal tubules as a tool to test intestinal biological efficacy of lettuce species. npj Science of Food, 6(1), 1-8. Article 58.
Schoonbeek, H. J., Yalcin, H. A., Burns, R., Taylor, R. E., Casey, A., Holt, S., Van den Ackerveken, G., Wells, R., & Ridout, C. J. (2022). Necrosis and ethylene-inducing-like peptide patterns from crop pathogens induce differential responses within seven brassicaceous species. Plant Pathology, 71(9), 2004-2016.
Kun, R. S. (2022). Harnessing the CRISPR/Cas9 system to study the regulatory network of plant biomass degradation in Aspergillus niger. [Doctoral thesis 2 (Research NOT UU / Graduation UU), Universiteit Utrecht]. Utrecht University.
Venegas, F. A., Koutaniemi, S., Langeveld, S. M. J., Bellemare, A., Chong, S. L., Dilokpimol, A., Lowden, M. J., Hilden, K. S., Leyva-Illades, J. F., Mäkelä, M. R., My Pham, T. T., Peng, M., Hancock, M. A., Zheng, Y., Tsang, A., Tenkanen, M., Powlowski, J., & de Vries, R. P. (2022). Carbohydrate esterase family 16 contains fungal hemicellulose acetyl esterases (HAEs) with varying specificity. New Biotechnology, 70, 28-38.
Li, X., Kouzounis, D., Kabel, M. A., & de Vries, R. P. (2022). GH10 and GH11 endoxylanases in Penicillium subrubescens: Comparative characterization and synergy with GH51, GH54, GH62 α-L-arabinofuranosidases from the same fungus. New Biotechnology, 70, 84-92.
Marinovíc, M., Di Falco, M., Aguilar Pontes, M. V., Gorzsás, A., Tsang, A., de Vries, R. P., Mäkelä, M. R., & Hildén, K. (2022). Comparative Analysis of Enzyme Production Patterns of Lignocellulose Degradation of Two White Rot Fungi: Obba rivulosa and Gelatoporia subvermispora. Biomolecules, 12(8), Article 1017.
Dilokpimol, A., Verkerk, B., Li, X., Bellemare, A., Lavallee, M., Frommhagen, M., Underlin, E. N., Kabel, M. A., Powlowski, J., Tsang, A., & de Vries, R. P. (2022). Screening of novel fungal Carbohydrate Esterase family 1 enzymes identifies three novel dual feruloyl/acetyl xylan esterases. FEBS Letters, 596(15), 1932-1943.