Publications of Dirk Benndorf

Journal Article (58)

2024
Journal Article
Heyer, R.; Hellwig, P.; Maus, I.; Walke, D.; Schlüter, A.; Hassa, J.; Sczyrba, A.; Tubbesing, T.; Klocke, M.; Mächtig, T. et al.; Schallert, K.; Seick, I.; Reichl, U.; Benndorf, D.: Breakdown of hardly degradable carbohydrates (lignocellulose) in a two-stage anaerobic digestion plant is favored in the main fermenter. Water Research 250, 121020 (2024)
Journal Article
Riedel, R.; Commichau, F. M.; Benndorf, D.; Hertel, R.; Holzer, K.; Hoelzle, L. E.; Mardoukhi, M. S. Y.; Noack, L. E.; Martienssen, M.: Biodegradation of selected aminophosphonates by the bacterial isolate Ochrobactrum sp. BTU1. Microbiological Research 280, 127600 (2024)
2023
Journal Article
Dogra, T.; Pelz, L.; Boehme, J. D.; Küchler, J.; Kershaw, O.; Marichal-Gallardo, P.; Baelkner, M.; Hein, M. D.; Gruber, A. D.; Benndorf, D. et al.; Genzel, Y.; Bruder, D.; Kupke, S. Y.; Reichl, U.: Generation of “OP7 chimera” defective interfering influenza A particle preparations free of infectious virus that show antiviral efficacy in mice. Scientific Reports 13, 20936 (2023)
Journal Article
Hassa, J.; Tubbesing, T. J.; Maus, I.; Heyer, R.; Benndorf, D.; Effenberger, M.; Henke, C.; Osterholz, B.; Beckstette, M.; Pühler, A. et al.; Sczyrba, A.; Schlüter, A.: Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics. Microorganisms 11 (10), 2412 (2023)
Journal Article
Küchler, J.; Willenbücher, K.; Reiß, E.; Nuß, L.; Conrady, M.; Ramm, P.; Schimpf, U.; Reichl, U.; Szewzyk, U.; Benndorf, D.: Degradation Kinetics of Lignocellulolytic Enzymes in a Biogas Reactor Using Quantitative Mass Spectrometry. Fermentation 9 (1), 67 (2023)
2022
Journal Article
Khesali Aghtaei, H.; Püttker, S.; Maus, I.; Heyer, R.; Huang, L.; Sczyrba, A.; Reichl, U.; Benndorf, D.: Adaptation of a microbial community to demand-oriented biological methanation. Biotechnology for Biofuels and Bioproducts 15, 125 (2022)
Journal Article
Küchler, J.; Püttker, S.; Lahmann, P.; Genzel, Y.; Kupke, S. Y.; Benndorf, D.; Reichl, U.: Absolute quantification of viral proteins during single-round replication of MDCK suspension cells. Journal of Proteomics 259, 104544 (2022)
Journal Article
Schallert, K.; Verschaffelt, P.; Mesuere, B.; Benndorf, D.; Martens, L.; Van Den Bossche, T.: Pout2Prot: An Efficient Tool to Create Protein (Sub)groups from Percolator Output Files. Journal of Proteome Research 21 (4), pp. 1175 - 1180 (2022)
Journal Article
Scoma, A.; Khor, W.; Coma, M.; Heyer, R.; Props, R.; Bouts, T.; Benndorf, D.; Li, D.; Zhang, H.; Rabaey, K.: Lignocellulose Fermentation Products Generated by Giant Panda Gut Microbiomes Depend Ultimately on pH Rather than Portion of Bamboo: A Preliminary Study. Microorganisms 10 (5), 978 (2022)
Journal Article
Sydor, S.; Dandyk, C.; Schwerdt, J.; Manka, P.; Benndorf, D.; Lehmann, T.; Schallert, K.; Wolf, M.; Reichl, U.; Canbay, A. et al.; Bechmann, L. P.; Heyer, R.: Discovering Biomarkers for Non-Alcoholic Steatohepatitis Patients with and without Hepatocellular Carcinoma Using Fecal Metaproteomics. International Journal of Molecular Sciences 23 (16), 8841 (2022)
2021
Journal Article
Bartholomäus, A.; Kolte, B.; Mustafayeva, A.; Goebel, I.; Fuchs, S.; Benndorf, D.; Engelmann, S.; Ignatova, Z.: smORFer: a modular algorithm to detect small ORFs in prokaryotes. Nucleic Acids Research (London) 49 (15), e89 (2021)
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. et al.; Díaz-López, M.; Vera, A.; Moreno, J.L.; Eldridge, D.J.; García, C.; Delgado-Baquerizo, M.: Structure and function of bacterial metaproteomes across biomes. Soil Biology and Biochemistry 160, 108331 (2021)
Journal Article
Biemann, R.; Buß, E.; Benndorf, D.; Lehmann, T.; Schallert, K.; Püttker, S.; Reichl, U.; Isermann, B.; Schneider, J. G.; Saake, G. et al.; Heyer, R.: Fecal Metaproteomics Reveals Reduced Gut Inflammation and Changed Microbial Metabolism Following Lifestyle-Induced Weight Loss. Biomolecules 11 (5), 726 (2021)
Journal Article
De Vrieze, J.; Heyer, R.; Props, R.; Van Meulebroek, L.; Gille, K.; Vanhaecke, L.; Benndorf, D.; Boon, N.: Triangulation of microbial fingerprinting in anaerobic digestion reveals consistent fingerprinting profiles. Water Research 202 (1), 117422 (2021)
Journal Article
Hassa, J.; Klang, J.; Benndorf, D.; Pohl, M.; Hülsemann, B.; Mächtig, T.; Effenberger, M.; Pühler, A.; Schlüter, A.; Theuerl, S.: Indicative Marker Microbiome Structures Deduced from the Taxonomic Inventory of 67 Full-Scale Anaerobic Digesters of 49 Agricultural Biogas Plants. Microorganisms 9 (7), 1457 (2021)
Journal Article
Hein, M. D.; Kollmus, H.; Marichal-Gallardo, P.; Püttker, S.; Benndorf, D.; Genzel, Y.; Schughart, K.; Kupke, S. Y.; Reichl, U.: OP7, a novel influenza A virus defective interfering particle: production, purification, and animal experiments demonstrating antiviral potential. Applied Microbiology and Biotechnology 105 (1), pp. 129 - 146 (2021)
Journal Article
Meinusch, N.; Kramer, S.; Körner, O.; Wiese, J.; Seick, I.; Beblek, A.; Berges, R.; Illenberger, B.; Illenberger, M.; Uebbing, J. et al.; Wolf, M.; Saake, G.; Benndorf, D.; Reichl, U.; Heyer, R.: Integrated Cycles for Urban Biomass as a Strategy to Promote a CO2-Neutral Society—A Feasibility Study. Sustainability 13 (17), 9505 (2021)
Journal Article
Starke, R.; Siles, J. A.; Fernandes, M. L. P.; Schallert, K.; Benndorf, D.; Plaza, C.; Jehmlich, N.; Delgado-Baquerizo, M.; Bastida, F.: The structure and function of soil archaea across biomes. Journal of Proteomics 237, 104147 (2021)
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. et al.; Mesuere, B.; Muth, T.; Pope, P. B.; Seifert, J.; Tanca, A.; Uzzau, S.; Wilmes, P.; Hettich, R. L.; Armengaud, J.: The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes. Microbiome 9 (1), 243 (2021)
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. et al.; 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.: Critical Assessment of Metaproteome Investigation (CAMPI): A Multi-Lab Comparison of Established Workflows. Nature Communications 12 (1), 7305 (2021)
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