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Journal Article (36)

1.
Journal Article
Heyer, R.; Klang, J.; Hellwig, P.; Schallert, K.; Kress, P.; Huelsemann, B.; Theuerl, S.; Reichl, U.; Benndorf, D.: Impact of feeding and stirring regimes on the internal stratification of microbial communities in the fermenter of anaerobic digestion plants. Bioresource Technology 314, 123679 (2020)
2.
Journal Article
Schiebenhoefer, H.; Schallert, K.; Renard, B. Y.; Trappe, K.; Schmid, E.; Benndorf, D.; Riedel, K.; Muth, T.; Fuchs, S.: A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane. Nature Protocols 15, pp. 3212 - 3239 (2020)
3.
Journal Article
Schütze, A.; Benndorf, D.; Püttker, S.; Kohrs, F.; Bettenbrock, K.: The Impact of ackA, pta, and ackA-pta Mutations on Growth, Gene Expression and Protein Acetylation in Escherichia coli K-12. Frontiers in Microbiology 11, 233 (2020)
4.
Journal Article
Scoma, A.; Khor, W. C.; Coma, M.; Heyer, R.; Props, R.; Schoelynk, J.; Bouts, T.; Benndorf, D.; Li, D.; Zhang, H. et al.; Rabaey, K.: Substrate-Dependent Fermentation of Bamboo in Giant Panda Gut Microbiomes: Leaf Primarily to Ethanol and Pith to Lactate. Frontiers in Microbiology 11, 530 (2020)
5.
Journal Article
Van Den Bossche, T.; Verschaffelt, P.; Schallert, K.; Barsnes, H.; Dawyndt, P.; Benndorf, D.; Renard, B. Y.; Mesuere, B.; Martens, L.; Muth, T.: Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for Seamless End-to-End Metaproteomics Data Analysis. Journal of Proteome Research 19 (8), pp. 3562 - 3566 (2020)
6.
Journal Article
Heyer, R.; Schallert, K.; Büdel, A.; Zoun, R.; Dorl, S.; Behne, A.; Kohrs, F.; Püttker, S.; Siewert, C.; Muth, T. et al.; Saake, G.; Reichl, U.; Benndorf, D.: A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer. Frontiers in Microbiology 10, 1883 (2019)
7.
Journal Article
Heyer, R.; Schallert, K.; Siewert, C.; Kohrs, F.; Greve, J.; Maus, I.; Klang, J.; Klocke, M.; Heiermann, M.; Hoffmann, M. et al.; Püttker, S.; Calusinska, M.; Zoun, R.; Saake, G.; Benndorf, D.; Reichl, U.: Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants. Microbiome (7), 69 (2019)
8.
Journal Article
Koch, S.; Kohrs, F.; Lahmann, P.; Bissinger, T.; Wendschuh, S.; Benndorf, D.; Reichl, U.; Klamt, S.: RedCom: A strategy for reduced metabolic modeling of complex microbial communities and its application for analyzing experimental datasets from anaerobic digestion. PLoS Computational Biology 15 (2), e1006759 (2019)
9.
Journal Article
Lehmann, T.; Schallert, K.; Vilchez-Vargas, R.; Benndorf, D.; Püttker, S.; Sydor, S.; Schulz, C. U.; Bechmann, L. P.; Canbay, A. E.; Heidrich, B. et al.; Reichl, U.; Link, A.; heyer, R.: Metaproteomics of fecal samples of Crohn's disease and Ulcerative Colitis. Journal of Proteomics 201, pp. 93 - 103 (2019)
10.
Journal Article
Scoma, A.; Heyer, R.; Rifai, R.; Dandyk, C.; Marshall, I.; Kerckhof, F.-M.; Marietou, A.; Boshker, H. T. S.; Meysman, F. J. R.; Malmos, K. G. et al.; Vosegaard, T.; Vermeir, P.; Banat, I. M.; Benndorf, D.; Boon, N.: Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities. The ISME Journal 13 (4), pp. 1004 - 1018 (2019)
11.
Journal Article
Thorn, C.E.; Bergesch , C.; Joyce, A.; Sambrano, G.; McDonnell, K.; Brennan, F.; Heyer, R.; Benndorf, D.; Abram, F.: A robust, cost-effective method for DNA, RNA and protein co-extraction from soil, other complex microbiomes, and pure cultures. Molecular Ecology Resources 19 (2), pp. 439 - 455 (2019)
12.
Journal Article
Weinrich, S.; Koch, S.; Bonk, F.; Popp, D.; Benndorf, D.; Klamt, S.; Centler, F.: Augmenting Biogas Process Modeling by Resolving Intracellular Metabolic Activity. Frontiers in Microbiology 10, 1095 (2019)
13.
Journal Article
Muth, T.; Kohrs, F.; Heyer, R.; Benndorf, D.; Rapp, E.; Reichl, U.; Martens, L.; Renard, B. Y.: MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go. Analytical Chemistry 90, pp. 685 - 689 (2018)
14.
Journal Article
Vodovnik, M.; Vrabec, K.; Hellwig, P.; Benndorf, D.; Sezun, M.; Gregori, A.; Gottumukkala, L. D.; Anderson, R. C.; Reichl, U.: Valorisation of deinking sludge as a substrate for lignocellulolytic enzymes production by Pleurotus ostreatus. Journal of Cleaner Production 197 (Part 1), pp. 253 - 263 (2018)
15.
Journal Article
Wenzel, L.; Heyer, R.; Schallert, K.; Löser, L.; Wünschiers, R.; Reichl, U.; Benndorf, D.: SDS-PAGE fractionation to increase metaproteomic insight into the taxonomic and functional composition of microbial communities for biogas plant samples. Engineering in Life Sciences 18 (7), pp. 498 - 509 (2018)
16.
Journal Article
Heyer, R.; Schallert, K.; Zoun, R.; Becher, B.; Saake, G.; Benndorf, D.: Challenges and perspectives of metaproteomic data analysis. Journal of Biotechnology 261, pp. 24 - 36 (2017)
17.
Journal Article
Kohrs, F.; Heyer, R.; Bissinger, T.; Kottler, R.; Schallert, K.; Püttker, S.; Behne, A.; Rapp, E.; Benndorf, D.; Reichl, U.: Proteotyping of laboratory-scale biogas plants reveals multiple steady-states in community composition. Anaerobe 46, pp. 56 - 68 (2017)
18.
Journal Article
Ricken, B.; Kolvenbach, B. A.; Bergesch, C.; Benndorf, D.; Kroll, K.; Strnad, H.; Vlcek, C.; Adaixo, R.; Hammes, F.; Shahgaldian, P. et al.; Schäffer, A.; Kohler, H.-P. E.; Corvini , P. F.-X.: FMNH2-dependent monooxygenases initiate catabolism of sulfonamides in Microbacterium sp. strain BR1 subsisting on sulfonamide antibiotics. Scientific Reports 7, 15783 (2017)
19.
Journal Article
Heyer, R.; Benndorf, D.; Kohrs, F.; De Vrieze, J.; Boon, N.; Hoffmann, M.; Rapp, E.; Schlüter, A.; Sczyrba, A.; Reichl, U.: Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type. Biotechnology for Biofuels 9 (9), 155 (2016)
20.
Journal Article
Salerno, C.; Benndorf, D.; Kluge, S.; Palese, L. L.; Reichl, U.; Pollice, A.: Metaproteomics Applied to Activated Sludge for Industrial Wastewater Treatment Revealed a Dominant Methylotrophic Metabolism of Hyphomicrobium zavarzinii. Microbial Ecology 72 (1), pp. 9 - 13 (2016)
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