Publications of Dirk Benndorf

Journal Article (53)

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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
Journal Article
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.
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.
Journal Article
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.
Journal Article
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.
Journal Article
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.
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.
Journal Article
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.
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.
Journal Article
Schütze, A., Benndorf, D., Püttker, S., Kohrs, F., & Bettenbrock, K. (2020)The Impact of ackA, pta, and ackA-pta Mutations on Growth, Gene Expression and Protein Acetylation in Escherichia coli K-12Frontiers in Microbiology, 11, 233doi: 10.3389/fmicb.2020.00233.
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