Max Planck Institute for Dynamics of Complex Technical Systems

Publications of Dirk Benndorf

All genres

Journal Article (54)

2023

Journal Article

Küchler, J., Willenbücher, K., Reiß, E., Nuß, L., Conrady, M., Ramm, P., Schimpf, U., Reichl, U., Szewzyk, U., & Benndorf, D. (2023)Degradation Kinetics of Lignocellulolytic Enzymes in a Biogas Reactor Using Quantitative Mass SpectrometryFermentation, 9 (1), 67doi: 10.3390/fermentation9010067.

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2022

Journal Article

Khesali Aghtaei, H., Püttker, S., Maus, I., Heyer, R., Huang, L., Sczyrba, A., Reichl, U., & Benndorf, D. (2022)Adaptation of a microbial community to demand-oriented biological methanationBiotechnology for Biofuels and Bioproducts, 15, 125doi: 10.1186/s13068-022-02207-w.

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Journal Article

Küchler, J., Püttker, S., Lahmann, P., Genzel, Y., Kupke, S. Y., Benndorf, D., & Reichl, U. (2022)Absolute quantification of viral proteins during single-round replication of MDCK suspension cellsJournal of Proteomics, 259, 104544doi: 10.1016/j.jprot.2022.104544.

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Journal Article

Schallert, K., Verschaffelt, P., Mesuere, B., Benndorf, D., Martens, L., & Van Den Bossche, T. (2022)Pout2Prot: An Efficient Tool to Create Protein (Sub)groups from Percolator Output FilesJournal of Proteome Research, 21 (4), 1175–1180doi: 10.1021/acs.jproteome.1c00685.

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Journal Article

Scoma, A., Khor, W., Coma, M., Heyer, R., Props, R., Bouts, T., Benndorf, D., Li, D., Zhang, H., & Rabaey, K. (2022)Lignocellulose Fermentation Products Generated by Giant Panda Gut Microbiomes Depend Ultimately on pH Rather than Portion of Bamboo: A Preliminary StudyMicroorganisms, 10 (5), 978doi: 10.3390/microorganisms10050978.

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Journal Article

Sydor, S., Dandyk, C., Schwerdt, J., Manka, P., Benndorf, D., Lehmann, T., Schallert, K., Wolf, M., Reichl, U., Canbay, A., Bechmann, L. P., & Heyer, R. (2022)Discovering Biomarkers for Non-Alcoholic Steatohepatitis Patients with and without Hepatocellular Carcinoma Using Fecal MetaproteomicsInternational Journal of Molecular Sciences, 23 (16), 8841doi: 10.3390/ijms23168841.

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2021

Journal Article

Bartholomäus, A., Kolte, B., Mustafayeva, A., Goebel, I., Fuchs, S., Benndorf, D., Engelmann, S., & Ignatova, Z. (2021)smORFer: a modular algorithm to detect small ORFs in prokaryotesNucleic Acids Research (London), 49 (15), e89doi: 10.1093/nar/gkab477.

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Journal Article

Bastida, F., Jehmlich, N., Starke, R., Schallert, K., Benndorf, D., López-Mondéjar, R., Plaza, C., Freixino, Z., Ramírez-Ortuño, C., Ruiz-Navarro, A., Díaz-López, M., Vera, A., Moreno, J. L., Eldridge, D. J., García, C., & Delgado-Baquerizo, M. (2021)Structure and function of bacterial metaproteomes across biomesSoil Biology and Biochemistry, 160, 108331doi: 10.1016/j.soilbio.2021.108331.

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Journal Article

Biemann, R., Buß, E., Benndorf, D., Lehmann, T., Schallert, K., Püttker, S., Reichl, U., Isermann, B., Schneider, J. G., Saake, G., & Heyer, R. (2021)Fecal Metaproteomics Reveals Reduced Gut Inflammation and Changed Microbial Metabolism Following Lifestyle-Induced Weight LossBiomolecules, 11 (5), 726doi: 10.3390/biom11050726.

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Journal Article

De Vrieze, J., Heyer, R., Props, R., Van Meulebroek, L., Gille, K., Vanhaecke, L., Benndorf, D., & Boon, N. (2021)Triangulation of microbial fingerprinting in anaerobic digestion reveals consistent fingerprinting profilesWater Research, 202 (1), 117422doi: 10.1016/j.watres.2021.117422.

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Journal Article

Hassa, J., Klang, J., Benndorf, D., Pohl, M., Hülsemann, B., Mächtig, T., Effenberger, M., Pühler, A., Schlüter, A., & Theuerl, S. (2021)Indicative Marker Microbiome Structures Deduced from the Taxonomic Inventory of 67 Full-Scale Anaerobic Digesters of 49 Agricultural Biogas PlantsMicroorganisms, 9 (7), 1457doi: 10.3390/microorganisms9071457.

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Journal Article

Hein, M. D., Kollmus, H., Marichal-Gallardo, P., Püttker, S., Benndorf, D., Genzel, Y., Schughart, K., Kupke, S. Y., & Reichl, U. (2021)OP7, a novel influenza A virus defective interfering particle: production, purification, and animal experiments demonstrating antiviral potentialApplied Microbiology and Biotechnology, 105 (1), 129–146doi: 10.1007/s00253-020-11029-5.

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Meinusch, N., Kramer, S., Körner, O., Wiese, J., Seick, I., Beblek, A., Berges, R., Illenberger, B., Illenberger, M., Uebbing, J., Wolf, M., Saake, G., Benndorf, D., Reichl, U., & Heyer, R. (2021)Integrated Cycles for Urban Biomass as a Strategy to Promote a CO2-Neutral Society—A Feasibility StudySustainability, 13 (17), 9505doi: 10.3390/su13179505.

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Journal Article

Starke, R., Siles, J. A., Fernandes, M. L. P., Schallert, K., Benndorf, D., Plaza, C., Jehmlich, N., Delgado-Baquerizo, M., & Bastida, F. (2021)The structure and function of soil archaea across biomesJournal of Proteomics, 237, 104147doi: 10.1016/j.jprot.2021.104147.

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Van Den Bossche, T., Arntzen, M. Ø., Becher, D., Benndorf, D., Eijsink, V. G. H., Henry, C., Jagtap, P. D., Jehmlich, N., Juste, C., Kunath, B. J., Mesuere, B., Muth, T., Pope, P. B., Seifert, J., Tanca, A., Uzzau, S., Wilmes, P., Hettich, R. L., & Armengaud, J. (2021)The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomesMicrobiome, 9 (1), 243doi: 10.1186/s40168-021-01176-w.

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Van Den Bossche, T., Kunath, B. J., Schallert, K., Schäpe, S. S., Abraham, P. E., Armengaud, J., Arntzen, M. Ø., Bassignani, A., Benndorf, D., Fuchs, S., Giannone, R. J., Griffin, T. J., Hagen, L. H., Halder, R., Henry, C., Hettich, R. L., Heyer, R., Jagtap, P., Jehmlich, N., Jensen, M., Juste, C., Kleiner, M., Langella, O., Lehmann, T., Leith, E., May, P., Mesuere, B., Miotello, G., Peters, S. L., Pible, O., Reichl, U., Renard, B. Y., Schiebenhoefer, H., Scryba, A., Tanca, A., Trappe, K., Trezzi, J.-P., Uzzau, S., Verschaffelt, P., von Bergen, M., Wilmes, P., Wolf, M., Martens, L., & Muth, T. (2021)Critical Assessment of Metaproteome Investigation (CAMPI): A Multi-Lab Comparison of Established WorkflowsNature Communications, 12 (1), 7305doi: 10.1038/s41467-021-27542-8.

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Walke, D., Schallert, K., Ramesh, P., Benndorf, D., Lange, E., Reichl, U., & Heyer, R. (2021)MPA_Pathway_Tool: User-Friendly, Automatic Assignment of Microbial Community Data on Metabolic PathwaysInternational Journal of Molecular Sciences, 22 (20), 10992doi: 10.3390/ijms222010992.

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2020

Journal Article

Heyer, R., Klang, J., Hellwig, P., Schallert, K., Kress, P., Huelsemann, B., Theuerl, S., Reichl, U., & Benndorf, D. (2020)Impact of feeding and stirring regimes on the internal stratification of microbial communities in the fermenter of anaerobic digestion plantsBioresource Technology, 314, 123679doi: 10.1016/j.biortech.2020.123679.

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Maus, I., Tubbesing, T., Wibberg, D., Heyer, R., Hassa, J., Tomazetto, G., Huang, L., Bunk, B., Spröer, C., Benndorf, D., Zverlov, V., Pühler, A., Klocke, M., Sczyrba, A., & Schlüter, A. (2020)The Role of Petrimonas mucosa ING2-E5AT in Mesophilic Biogas Reactor Systems as Deduced from Multiomics AnalysesMicroorganisms, 8 (12), 2024doi: 10.3390/microorganisms8122024.

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Journal Article

Schiebenhoefer, H., Schallert, K., Renard, B. Y., Trappe, K., Schmid, E., Benndorf, D., Riedel, K., Muth, T., & Fuchs, S. (2020)A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and ProphaneNature Protocols, 15, 3212–3239doi: 10.1038/s41596-020-0368-7.

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