Publications BPE group

2023

Journal Article

Burock, R.; Cajic, S.; Hennig, R.; Buettner, F. F. R.; Reichl, U.; Rapp, E.: Reliable N-Glycan Analysis–Removal of Frequently Occurring Oligosaccharide Impurities by Enzymatic Degradation. Molecules 28 (4), 1843 (2023)

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Göbel, S.; Jaén, K. E.; Dorn, M.; Neumeyer, V.; Jordan, I.; Sandig, V.; Reichl, U.; Altomonte, J.; Genzel, Y.: Process intensification strategies toward cell culture‐based high‐yield production of a fusogenic oncolytic virus. Biotechnology and Bioengineering (2023)

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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)

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Offersgaard, A.; Duarte Hernandez, C. R.; Feng, S.; Marichal-Gallardo, P.; Holmbeck, K.; Pihl, A. F.; Fernandez-Antunez, C.; Peña Alzua, G.; Top Hartmann, K.; Pham, L. V. et al.; Zhou, Y.; Anbro Gammeltoft, K.; Fahnøe, U.; Schneider, U. V.; Pedersen, G. K.; Jensen, H. E.; Pravsgaard Christensen, J.; Ramirez, S.; Bukh, J.; Gottwein, J. M.: An inactivated SARS-CoV-2 vaccine induced cross-neutralizing persisting antibodies and protected against challenge in small animals. iScience 26 (2), 105949 (2023)

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Trbojević-Akmačić, I.; Vučković, F.; Pribić, T.; Vilaj, M.; Černigoj, U.; Vidič, J.; Šimunović, J.; Kępka, A.; Kolčić, I.; Klarić, L. et al.; Novokmet, M.; Pučić-Baković, M.; Rapp, E.; Štrancar, A.; Polašek, O.; Wilson, J. F.; Lauc, G.: Comparative analysis of transferrin and IgG N-glycosylation in two human populations. Communications Biology 6, 312 (2023)

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van Heuvel, Y.; Schatz, S.; Hein, M.; Dogra, T.; Kazenmaier, D.; Tschorn, N.; Genzel, Y.; Stitz, J.: Novel suspension retroviral packaging cells generated by transposition using transposase encoding mRNA advance vector yields and enable production in bioreactors. Frontiers in Bioengineering and Biotechnology 11, 1076524 (2023)

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2022

Journal Article

Beimdiek, J.; Hennig, R.; Burock, R.; Puk, O.; Biskup, S.; Rapp, E.; Lesinski-Schiedat, A.; Buettner, F. F. R.; Das, A. M.: Serum N-glycomics of a novel CDG-IIb patient reveals aberrant IgG glycosylation. Glycobiology 32 (5), pp. 380 - 390 (2022)

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Göbel, S.; Kortum, F.; Chavez, K. J.; Jordan, I.; Sandig, V.; Reichl, U.; Altomonte, J.; Genzel, Y.: Cell-line screening and process development for a fusogenic oncolytic virus in small-scale suspension cultures. Applied Microbiology and Biotechnology 106, pp. 4945 - 4961 (2022)

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Hinterholzer, A.; Moises, J.; Regl, C.; Schwap, S.; Rapp, E.; Huber, C. G.; Schubert, M.: Unambiguous identification of α-Gal epitopes in intact monoclonal antibodies by NMR spectroscopy. mAbs 14 (1), 2132977 (2022)

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Hütte, H. J.; Tiemann, B.; Shcherbakova, A.; Grote, V.; Hoffmann, M.; Povolo, L.; Lommel, M.; Strahl, S.; Vakhrushev, S. Y.; Rapp, E. et al.; Buettner, F. F. R.; Halim, A.; Imberty, A.; Bakker, H.: A Bacterial Mannose Binding Lectin as a Tool for the Enrichment of C- and O-Mannosylated Peptides. Analytical Chemistry 94 (20), pp. 7329 - 7338 (2022)

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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)

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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)

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Kuil, T.; Yayo, J.; Pechan, J.; Küchler, J.; van Maris, A. J. A.: Ethanol tolerance of Clostridium thermocellum: the role of chaotropicity, temperature and pathway thermodynamics on growth and fermentative capacity. Microbial Cell Factories 21, 273 (2022)

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Lageveen-Kammeijer, G. S. M.; Rapp, E.; Chang, D.; Rudd, P. M.; Kettner, C.; Zaia, J.: The minimum information required for a glycomics experiment (MIRAGE): reporting guidelines for capillary electrophoresis. Glycobiology 32 (7), pp. 580 - 587 (2022)

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Mahour, R.; Lee, J. W.; Grimpe, P.; Boecker, S.; Grote, V.; Klamt, S.; Seidel-Morgenstern, A.; Rexer, T.; Reichl, U.: Cell‐free multi‐enzyme synthesis and purification of uridine diphosphate galactose. ChemBioChem 23 (2), e202100361 (2022)

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Möckel, M.; Baldok, N.; Walles, T.; Hartig, R.; Müller, A. J.; Reichl, U.; Genzel, Y.; Walles, H.; Wiese-Rischke, C.: Human 3D Airway Tissue Models for Real-Time Microscopy: Visualizing Respiratory Virus Spreading. Cells 11 (22), 3634 (2022)

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Offersgaard, A.; Duarte Hernandez, C. R.; Pihl, A. F.; Venkatesan, N. P.; Krarup, H.; Lin, X.; Reichl, U.; Bukh, J.; Genzel, Y.; Gottwein, J. M.: High-Titer Hepatitis C Virus Production in a Scalable Single-Use High Cell Density Bioreactor. Vaccines 10 (2), 249 (2022)

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Rodrigues Correia Ramos, J.; Bissinger, T.; Genzel, Y.; Reichl, U.: Impact of Influenza A Virus Infection on Growth and Metabolism of Suspension MDCK Cells Using a Dynamic Model. Metabolites 12 (3), 239 (2022)

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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)

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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)

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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)

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Tolonen, A. C.; Beauchemin, N.; Bayne, C.; Li, L.; Tan, J.; Lee, J.; Meehan, B. M.; Meisner, J.; Millet, Y.; LeBlanc, G. et al.; Kottler, R.; Rapp, E.; Murphy, C.; Turnbaugh, P. J.; von Maltzahn, G.; Liu, C. M.; van Hylckama Vlieg, J. E. T.: Synthetic glycans control gut microbiome structure and mitigate colitis in mice. Nature Communications 13 (1), 1244 (2022)

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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)

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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)

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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)

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Bissinger, T.; Wu, Y.; Marichal-Gallardo, P.; Riedel, D.; Liu, X.; Genzel, Y.; Tan, W.; Reichl, U.: Towards integrated production of an influenza A vaccine candidate with MDCK suspension cells. Biotechnology and Bioengineering 118 (10), pp. 3996 - 4013 (2021)

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Chuzel, L.; Fossa, S. L.; Boisvert, M. L.; Cajic, S.; Hennig, R.; Ganatra, M. B.; Reichl, U.; Rapp, E.; Taron, C. H.: Combining functional metagenomics and glycoanalytics to identify enzymes that facilitate structural characterization of sulfated N-glycans. Microbial Cell Factories 20 (20), 162 (2021)

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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)

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Di Marco, F.; Berger, T.; Esser-Skala, W.; Rapp, E.; Regl, C.; Huber, C. G.: Simultaneous Monitoring of Monoclonal Antibody Variants by Strong Cation-Exchange Chromatography Hyphenated to Mass Spectrometry to Assess Quality Attributes of Rituximab-Based Biotherapeutics. International Journal of Molecular Sciences 22 (16), 9072 (2021)

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Eussen, S. R. B. M.; Mank, M.; Kottler, R.; Hoffmann, X.-K.; Behne, A.; Rapp, E.; Stahl, B.; Mearin, M. L.; Koletzko, B.: Presence and Levels of Galactosyllactoses and Other Oligosaccharides in Human Milk and Their Variation during Lactation and According to Maternal Phenotype. Nutrients 13 (7), 2324 (2021)

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Feichtinger, R. G.; Hüllen, A.; Koller, A.; Kotzot, D.; Grote, V.; Rapp, E.; Hofbauer, P.; Brugger, K.; Thiel, C.; Mayr, J. A. et al.; Wortmann, S. B.: A spoonful of L‐fucose—an efficient therapy for GFUS‐CDG, a new glycosylation disorder. Embo Molecular Medicine 13 (9), e14332 (2021)

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Fortuna, A. R.; Taft, F.; Villain, L.; Wolff, M. W.; Reichl, U.: Continuous purification of influenza A virus particles using pseudo-affinity membrane chromatography. Journal of Biotechnology 342, pp. 139 - 148 (2021)

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Gränicher, G.; Babakhani, M.; Göbel, S.; Jordan, I.; Marichal-Gallardo, P.; Genzel, Y.; Reichl, U.: A high cell density perfusion process for Modified Vaccinia virus Ankara production: process integration with inline DNA digestion and cost analysis. Biotechnology and Bioengineering 118 (12), pp. 4720 - 4734 (2021)

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Gränicher, G.; Tapia, F.; Behrendt, I.; Jordan, I.; Genzel, Y.; Reichl, U.: Production of Modified Vaccinia Ankara Virus by Intensified Cell Cultures: A Comparison of Platform Technologies for Viral Vector Production. Biotechnology Journal 16 (1), e2000024 (2021)

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Gücüm, S.; Sakson, R.; Hoffmann, M.; Grote, V.; Becker, C.; Pakari, K.; Beedgen, L.; Thiel, C.; Rapp, E.; Ruppert, T. et al.; Thumberger, T.; Wittbrodt, J.: A patient-based medaka alg2 mutant as a model for hypo-N-glycosylation. Development 148 (11), dev199385 (2021)

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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)

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Hein, M. D.; Arora, P.; Marichal-Gallardo, P.; Winkler, M.; Genzel, Y.; Pöhlmann, S.; Schughart, K.; Kupke, S. Y.; Reichl, U.: Cell culture-based production and in vivo characterization of purely clonal defective interfering influenza virus particles. BMC Biology 19 (1), 91 (2021)

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Hein, M. D.; Chawla, A.; Cattaneo, M.; Kupke, S. Y.; Genzel, Y.; Reichl, U.: Cell culture–based production of defective interfering influenza A virus particles in perfusion mode using an alternating tangential flow filtration system. Applied Microbiology and Biotechnology 105, pp. 7251 - 7264 (2021)

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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)

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Kawahara, R.; Chernykh, A.; Alagesan, K.; Bern, M.; Cao, W.; Chalkley, R. J.; Cheng, K.; Choo, M. S.; Edwards, N.; Goldman, R. et al.; Hoffmann, M.; Hu, Y.; Huang, Y.; Kim, J. Y.; Kletter, D.; Liquet, B.; Liu, M.; Mechref, Y.; Meng, B.; Neelamegham, S.; Nguyen-Khuong, T.; Nilsson, J.; Pap, A.; Park, G. W.; Parker, B. L.; Pegg, C. L.; Penninger, J. M.; Phung, T. K.; Pioch, M.; Rapp, E.; Sakalli, E.; Sanda, M.; Schulz, B. L.; Scott, N. E.; Sofronov, G.; Stadlmann, J.; Vakhrushev, S. Y.; Woo, C. M.; Wu, H.-Y.; Yang, P.; Ying, W.; Zhang, H.; Zhang, Y.; Zhao, J.; Zaia, J.; Haslam, S. M.; Palmisano, G.; Yoo, J. S.; Larson, G.; Khoo, K.-H.; Medzihradszky, K. F.; Kolarich, D.; Packer, N. H.; Thaysen-Andersen, M.: Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis. Nature Methods 18, pp. 1304 - 1316 (2021)

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Lebede, M.; Di Marco, F.; Esser-Skala, W.; Hennig, R.; Wohlschlager, T.; Huber, C. G.: Exploring the Chemical Space of Protein Glycosylation in Noncovalent Protein Complexes: An Expedition along Different Structural Levels of Human Chorionic Gonadotropin by Employing Mass Spectrometry. Analytical Chemistry 93, pp. 10424 - 10434 (2021)

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Litschko, C.; Budde, I.; Berger, M.; Bethe, A.; Schulze, J.; Alcala Orozco, E. A.; Mahour, R.; Goettig, P.; Führing, J. I.; Rexer, T. et al.; Gerardy-Schahn, R.; Schubert, M.; Fiebig, T.: Mix-and-Match System for the Enzymatic Synthesis of Enantiopure Glycerol-3-Phosphate-Containing Capsule Polymer Backbones from Actinobacillus pleuropneumoniae, Neisseria meningitidis, and Bibersteinia trehalosi. mBio 12 (3), e00897-21 (2021)

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Mahour, R.; Marichal-Gallardo, P.; Rexer, T.; Reichl, U.: Multi-enzyme cascades for the in vitro synthesis of guanosine diphosphate L-fucose. ChemCatChem 13 (8), pp. 1981 - 1989 (2021)

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Marichal-Gallardo, P.; Börner, K.; Pieler, M.; Sonntag-Buck, V.; Obr, M.; Bejarano, D.; Wolff, M. W.; Kräusslich, H.-G.; Reichl, U.; Grimm, D.: Single-use capture purification of adeno-associated viral gene transfer vectors by membrane-based steric exclusion chromatography. Human Gene Therapy 32 (17-18), pp. 959 - 974 (2021)

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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)

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Noor, S. I.; Hoffmann, M.; Rinis, N.; Bartels, M. F.; Winterhalter, P. R.; Hoelscher, C.; Hennig, R.; Himmelreich, N.; Thiel, C.; Ruppert, T. et al.; Rapp, E.; Strahl, S.: Glycosyltransferase POMGNT1 deficiency strengthens N-cadherin-mediated cell-cell adhesion. Journal of Biological Chemistry, 100433 (2021)

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Offersgaard, A.; Duarte Hernandez, C. R.; Pihl, A. F.; Costa, R.; Venkatesan, N. P.; Lin, X.; Van Pham, L.; Feng, S.; Fahnøe, U.; Scheel, T. K. H. et al.; Ramirez, S.; Reichl, U.; Bukh, J.; Genzel, Y.; Gottwein, J. M.: SARS-CoV-2 Production in a Scalable High Cell Density Bioreactor. Vaccines 9 (7), 706 (2021)

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Patenaude, A.; Erhardt, J.; Hennig, R.; Rapp, E.; Lauc, G.; Pezer, M.: N‐glycosylation analysis of mouse immunoglobulin G isolated from dried blood spots. Electrophoresis: Special Issue: Monoliths 2021 42 (24), pp. 2615 - 2618 (2021)

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Pech, S.; Rehberg, M.; Janke, R.; Benndorf, D.; Genzel, Y.; Muth, T.; Sickmann, A.; Rapp, E.; Reichl, U.: Tracking changes in adaptation to suspension growth for MDCK cells: cell growth correlates with levels of metabolites, enzymes and proteins. Applied Microbiology and Biotechnology 105 (5), pp. 1861 - 1874 (2021)

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Pelz, L.; Rüdiger, D.; Dogra, T.; Alnaji, F. G.; Genzel, Y.; Brooke, C. B.; Kupke, S. Y.; Reichl, U.: Semi-continuous propagation of influenza A virus and its defective interfering particles: analyzing the dynamic competition to select candidates for antiviral therapy. Journal of Virology 95 (24), e01174-21 (2021)

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Publications BPE group

Journal Article (321)