Core Facility Analytical Proteomics
© Marc Sylvester
Collage Velos, MS2 und QC
© Marc Sylvester

Publications

Together with you, the Core Facility Analytical Proteomics aims to translate data into knowledge. By doing so we have contributed to the following publications (only journal articles are shown):
  1. Breßer, Mona; Siemens, Kevin D.; Schneider, Linda; Lunnebach, Jonah E.; Leven, Patrick; Glowka, Tim R. et al. (2025): Macrophage-induced enteric neurodegeneration leads to motility impairment during gut inflammation. In: EMBO molecular medicine 17 (2), S. 301–335. DOI: 10.1038/s44321-024-00189-w .
  2. Fontana, Ariel; Knuf, Franziska; Monasterio, Romina; Schieber, Andreas (2025): Screening of wine industry by-products as a source of bioactive peptides: Fractionation, in vitro antihypertensive activity and peptidomics analysis. In: Food chemistry 476, S. 143478. DOI: 10.1016/j.foodchem.2025.143478 .
  3. Setiawan, Maria F.; Rudan, Oliver; Schmidt-Wolf, Ingo G. H. (2025): Targeting Cancer With Bifunctional Peptides: Mechanism of Cell Entry and Inciting Cell Death. In: Cancer science. DOI: 10.1111/cas.70065 .
  1. Al Zaidi, M.; Eschweiler, J.; Shakeri, F.; Sylvester, M.; Repges, E.; Nickenig, G. et al. (2024): Activation, regulation, and effects of the mitochondrial unfolded protein response in endothelial cells. In: European Heart Journal 45 (Supplement_1), Artikel ehae666.3842. DOI: 10.1093/eurheartj/ehae666.3842 .
  2. Bremer, Swen; Weitkemper, Eva; Häberlein, Hanns; Franken, Sebastian (2024): St. John's wort extract Ze 117 alters the membrane fluidity of C6 glioma cells by influencing cellular cholesterol metabolism. In: Sci Rep 14 (1), S. 9878. DOI: 10.1038/s41598-024-60562-0 .
  3. Ishorst, Nina; Hölzel, Selina; Greve, Carola; Yilmaz, Öznur; Lindenberg, Tobias; Lambertz, Jessica et al. (2024): Role of ZFHX4 in orofacial clefting based on human genetic data and zebrafish models. In: European journal of human genetics : EJHG. DOI: 10.1038/s41431-024-01775-9 .
  4. Kaade, Edgar; Mausbach, Simone; Erps, Nina; Sylvester, Marc; Shakeri, Farhad; Jachimowicz, Ron D. et al. (2024): Starvation-induced metabolic rewiring affects mTORC1 composition in vivo. In: Sci Rep 14 (1), S. 28296. DOI: 10.1038/s41598-024-78873-7 .
  5. Kim, Hyuntae; Melliti, Nesrine; Breithausen, Eva; Michel, Katrin; Colomer, Sara Ferrando; Poguzhelskaya, Ekaterina et al. (2024): Paroxysmal dystonia results from the loss of RIM4 in Purkinje cells. In: Brain : a journal of neurology 147 (9), S. 3171–3188. DOI: 10.1093/brain/awae081 .
  6. Kirchhoff, Alexander; Herzner, Anna-Maria; Urban, Christian; Piras, Antonio; Düster, Robert; Mahlberg, Julia et al. (2024): RNA-binding proteins hnRNPM and ELAVL1 promote type-I interferon induction downstream of the nucleic acid sensors cGAS and RIG-I. In: The EMBO Journal. DOI: 10.1038/s44318-024-00331-x .
  7. Müller, Philipp; Dietrich, Dirk; Schoch, Susanne; Pitsch, Julika; Becker, Albert J.; Cases-Cunillera, Silvia (2024): Ganglioglioma cells potentiate neuronal network synchronicity and elicit burst discharges via released factors. In: Neurobiology of disease 190, S. 106364. DOI: 10.1016/j.nbd.2023.106364 .
  8. Schult, Philipp; Kümmerer, Beate Mareike; Hafner, Markus; Paeschke, Katrin (2024): Viral hijacking of hnRNPH1 unveils a G-quadruplex-driven mechanism of stress control. In: Cell Host & Microbe 32 (9), 1579-1593.e8. DOI: 10.1016/j.chom.2024.07.006 .
  9. van Baarle, Lies; Simone, Veronica de; Schneider, Linda; Santhosh, Sneha; Abdurahiman, Saeed; Biscu, Francesca et al. (2024): IL-1R signaling drives enteric glia-macrophage interactions in colorectal cancer. In: Nat Commun 15 (1), S. 6079. DOI: 10.1038/s41467-024-50438-2 .
  1. Lemster, Anna-Lena; Weingart, Anika; Bottner, Justus; Perner, Sven; Sailer, Verena; Offermann, Anne; Kirfel, Jutta (2023): Elevated PSPC1 and KDM5C expression indicates poor prognosis in prostate cancer. In: Human pathology 138, S. 1–11. DOI: 10.1016/j.humpath.2023.05.007 .
  2. Merges, Gina E.; Arévalo, Lena; Kovacevic, Andjela; Lohanadan, Keerthika; Rooij, Dirk G. de; Simon, Carla et al. (2023): Actl7b deficiency leads to mislocalization of LC8 type dynein light chains and disruption of murine spermatogenesis. In: Development (Cambridge, England) 150 (21). DOI: 10.1242/dev.201593 .
  3. Schneider, Simon; Kovacevic, Andjela; Mayer, Michelle; Dicke, Ann-Kristin; Arévalo, Lena; Koser, Sophie A. et al. (2023): Cylicins are a structural component of the sperm calyx being indispensable for male fertility in mice and human. In: eLife 12. DOI: 10.7554/eLife.86100 .
  4. Shukla, Rhythm; Peoples, Aaron J.; Ludwig, Kevin C.; Maity, Sourav; Derks, Maik G. N.; Benedetti, Stefania de et al. (2023): An antibiotic from an uncultured bacterium binds to an immutable target. In: Cell 186 (19), 4059-4073.e27. DOI: 10.1016/j.cell.2023.07.038 .
  5. Yaghootfam, Claudia; Sylvester, Marc; Turk, Boris; Gieselmann, Volkmar; Matzner, Ulrich (2023): Engineered arylsulfatase A with increased activity, stability and brain delivery for therapy of metachromatic leukodystrophy. In: Molecular therapy : the journal of the American Society of Gene Therapy 31 (10), S. 2962–2974. DOI: 10.1016/j.ymthe.2023.08.019 .
  1. Arévalo, Lena; Merges, Gina Esther; Schneider, Simon; Oben, Franka Enow; Neumann, Isabelle Sophie; Schorle, Hubert (2022): Loss of the cleaved-protamine 2 domain leads to incomplete histone-to-protamine exchange and infertility in mice. In: PLoS Genet 18 (6), e1010272. DOI: 10.1371/journal.pgen.1010272.
  2. Boni, Laura de; Watson, Aurelia Hays; Zaccagnini, Ludovica; Wallis, Amber; Zhelcheska, Kristina; Kim, Nora et al. (2022): Brain region-specific susceptibility of Lewy body pathology in synucleinopathies is governed by α-synuclein conformations. In: Acta neuropathologica 143 (4), S. 453–469. DOI: 10.1007/s00401-022-02406-7.
  3. Esser, Laura Kristin; Branchi, Vittorio; Shakeri, Farhad; Simon, Adrian Georg; Stephan, Carsten; Kristiansen, Glen et al. (2022): Overexpression of Parkin in clear cell renal cell carcinoma decreases tumor aggressiveness by regulating CKS2 levels. In: International journal of oncology 60 (2). DOI: 10.3892/ijo.2022.5310.
  4. Ferreira, Rafaela Furioso; Blees, Thomas; Shakeri, Farhad; Buness, Andreas; Sylvester, Marc; Savoini, Giovanni et al. (2022): Effects of different ratios of omega-6:omega-3 fatty acids in the diet of sows on the proteome of milk-derived extracellular vesicles. In: Journal of proteomics 264, S. 104632. DOI: 10.1016/j.jprot.2022.104632.
  5. Gellner, Anne-Kathrin; Sitter, Aileen; Rackiewicz, Michal; Sylvester, Marc; Philipsen, Alexandra; Zimmer, Andreas; Stein, Valentin (2022): Stress vulnerability shapes disruption of motor cortical neuroplasticity. In: Translational Psychiatry 12 (1), S. 91. DOI: 10.1038/s41398-022-01855-8.
  6. Jaworek, Witold; Sylvester, Marc; Cenini, Giovanna; Voos, Wolfgang (2022): Elucidation of the interaction proteome of mitochondrial chaperone Hsp78 highlights its role in protein aggregation during heat stress. In: The Journal of biological chemistry 298 (10), S. 102494. DOI: 10.1016/j.jbc.2022.102494.
  7. Merges, Gina Esther; Meier, Julia; Schneider, Simon; Kruse, Alexander; Fröbius, Andreas Christian; Kirfel, Gregor et al. (2022): Loss of Prm1 leads to defective chromatin protamination, impaired PRM2 processing, reduced sperm motility and subfertility in male mice. In: Development (Cambridge, England) 149 (12). DOI: 10.1242/dev.200330.
  8. Müller, Johannes Alexander; Betzin, Julia; Santos-Tejedor, Jorge; Mayer, Annika; Oprişoreanu, Ana-Maria; Engholm-Keller, Kasper et al. (2022): A presynaptic phosphosignaling hub for lasting homeostatic plasticity. In: Cell Reports 39 (3), S. 110696. DOI: 10.1016/j.celrep.2022.110696.
  9. Rodriguez-Ruiz, Alfonso; Braun, Doreen; Pflug, Simon; Brol, Alexander; Sylvester, Marc; Steegborn, Clemens; Schweizer, Ulrich (2022): Insights into the Mechanism of Human Deiodinase 1. In: International Journal of Molecular Sciences 23 (10). DOI: 10.3390/ijms23105361.
  10. Umer, Naila; Phadke, Sharang; Shakeri, Farhad; Arévalo, Lena; Lohanadan, Keerthika; Kirfel, Gregor et al. (2022): PFN4 is required for manchette development and acrosome biogenesis during mouse spermiogenesis. In: Development (Cambridge, England) 149 (16). DOI: 10.1242/dev.200499.
  11. Wang-Eckhardt, Lihua; Sylvester, Marc; Becker, Ivonne; Allam, Jean-Pierre; Eckhardt, Matthias (2022): Citrylglutamate synthase deficient male mice are subfertile with impaired histone and transition protein 2 removal in late spermatids. In: The Biochemical journal 479 (9), S. 953–972. DOI: 10.1042/BCJ20210844.
  1. Ferreira, Rafaela Furioso; Blees, Thomas; Shakeri, Farhad; Buness, Andreas; Sylvester, Marc; Savoini, Giovanni et al. (2021): Comparative proteome profiling in exosomes derived from porcine colostrum versus mature milk reveals distinct functional proteomes. In: Journal of proteomics 249, S. 104338. DOI: 10.1016/j.jprot.2021.104338.
  2. Khundadze, Mukhran; Ribaudo, Federico; Hussain, Adeela; Stahlberg, Henry; Brocke-Ahmadinejad, Nahal; Franzka, Patricia et al. (2021): Mouse models for hereditary spastic paraplegia uncover a role of PI4K2A in autophagic lysosome reformation. In: Autophagy 17 (11), S. 3690–3706. DOI: 10.1080/15548627.2021.1891848.
  3. Martínez-Fresneda, Lucía; Sylvester, Marc; Shakeri, Farhad; Bunes, Andreas; Del Pozo, Juan C.; García-Vázquez, Francisco A. et al. (2021): Differential proteome between ejaculate and epididymal sperm represents a key factor for sperm freezability in wild small ruminants. In: Cryobiology 99, S. 64–77. DOI: 10.1016/j.cryobiol.2021.01.012.
  4. Pollecker, Karen; Sylvester, Marc; Voos, Wolfgang (2021): Proteomic analysis demonstrates the role of the quality control protease LONP1 in mitochondrial protein aggregation. In: The Journal of biological chemistry 297 (4), S. 101134. DOI: 10.1016/j.jbc.2021.101134.
  5. Tuermer, Andreas; Mausbach, Simone; Kaade, Edgar; Damme, Markus; Sylvester, Marc; Gieselmann, Volkmar; Thelen, Melanie (2021): CLN6 deficiency causes selective changes in the lysosomal protein composition. In: Proteomics 21 (19), e2100043. DOI: 10.1002/pmic.202100043.
  6. Yaghootfam, Claudia; Gehrig, Bernd; Sylvester, Marc; Gieselmann, Volkmar; Matzner, Ulrich (2021): Deletion of fatty acid amide hydrolase reduces lyso-sulfatide levels but exacerbates metachromatic leukodystrophy in mice. In: The Journal of biological chemistry 297 (3), S. 101064. DOI: 10.1016/j.jbc.2021.101064.
  1. Bauml, C. A.; Paul George, A. A.; Schmitz, T.; Sommerfeld, P.; Pietsch, M.; Podsiadlowski, L. et al. (2020): Distinct 3-disulfide-bonded isomers of tridegin differentially inhibit coagulation factor XIIIa: The influence of structural stability on bioactivity. In: Eur J Med Chem, 201, 112474. DOI: 10.1016/j.ejmech.2020.112474 .
  2. Moltgen, S.; Piumatti, E.; Massafra, G. M.; Metzger, S.; Jaehde, U.; Kalayda, G. V. (2020): Cisplatin Protein Binding Partners and Their Relevance for Platinum Drug Sensitivity. In: Cells, 9(6). DOI: 10.3390/cells9061322 .
  3. Pitsch, J.; Kamalizade, D.; Braun, A.; Kuehn, J. C.; Gulakova, P. E.; Ruber, T. et al. (2020): Drebrin Autoantibodies in Patients with Seizures and Suspected Encephalitis. In: Ann Neurol, 87(6), 869-884. DOI: 10.1002/ana.25720 .
  4. Schneider, S.; Shakeri, F.; Trotschel, C.; Arevalo, L.; Kruse, A.; Buness, A. et al. (2020): Protamine-2 Deficiency Initiates a Reactive Oxygen Species (ROS)-Mediated Destruction Cascade during Epididymal Sperm Maturation in Mice. In: Cells, 9(8). DOI: 10.3390/cells9081789 .
  5. Zietzer, A.; Hosen, M. R.; Wang, H.; Goody, P. R.; Sylvester, M.; Latz, E. et al. (2020): The RNA-binding protein hnRNPU regulates the sorting of microRNA-30c-5p into large extracellular vesicles. In: J Extracell Vesicles, 9(1), 1786967. DOI: 10.1080/20013078.2020.1786967 .
  1. Wijasa, T. S.; Sylvester, M.; Brocke-Ahmadinejad, N.; Schwartz, S.; Santarelli, F.; Gieselmann, V. et al. (2019): Quantitative proteomics of synaptosome S-nitrosylation in Alzheimer's disease. In: J Neurochem. DOI: 10.1111/jnc.14870.
  2. Simonis, H.; Yaghootfam, C.; Sylvester, M.; Gieselmann, V.; Matzner, U. (2019): Evolutionary redesign of the lysosomal enzyme arylsulfatase A increases efficacy of enzyme replacement therapy for metachromatic leukodystrophy. In: Hum Mol Genet. DOI: 10.1093/hmg/ddz020.
  3. Schwintzer, L.; Aguado Roca, E.; Broemer, M. (2019): TRIAD3/RNF216 E3 ligase specifically synthesises K63-linked ubiquitin chains and is inactivated by mutations associated with Gordon Holmes syndrome. In: Cell Death Discov, 5, 75. DOI: 10.1038/s41420-019-0158-6.
  4. Schmidtke, C.; Tiede, S.; Thelen, M.; Kakela, R.; Jabs, S.; Makrypidi, G. et al. (2019): Lysosomal proteome analysis reveals that CLN3-defective cells have multiple enzyme deficiencies associated with changes in intracellular trafficking. In: J Biol Chem. DOI: 10.1074/jbc.RA119.008852
  5. Rungratanawanich, W.; Cenini, G.; Mastinu, A.; Sylvester, M.; Wilkening, A.; Abate, G. et al. (2019): gamma-Oryzanol Improves Cognitive Function and Modulates Hippocampal Proteome in Mice. In: Nutrients, 11(4). DOI: 10.3390/nu11040753.
  6. Rausch, M.; Deisinger, J. P.; Ulm, H.; Muller, A.; Li, W.; Hardt, P. et al. (2019): Coordination of capsule assembly and cell wall biosynthesis in Staphylococcus aureus. In: Nat Commun, 10(1), 1404. DOI: 10.1038/s41467-019-09356-x.
  7. Massa Lopez, D.; Thelen, M.; Stahl, F.; Thiel, C.; Linhorst, A.; Sylvester, M. et al. (2019): The lysosomal transporter MFSD1 is essential for liver homeostasis and critically depends on its accessory subunit GLMP. In: Elife, 8. DOI: 10.7554/eLife.50025.
  8. Lorscheidt, S.; Shetab Boushehri, M. A.; Klaschik, S.; Lamprecht, A. (2019): Sub-cytotoxic doses of pharmaceutical silica nanoparticles show significant impact on the proteome of HepG2 cells. In: J Control Release, 306, 1-14. DOI: 10.1016/j.jconrel.2019.05.033.
  9. Das, R.; Schwintzer, L.; Vinopal, S.; Aguado Roca, E.; Sylvester, M.; Oprisoreanu, A. M. et al. (2019): New roles for the de-ubiquitylating enzyme OTUD4 in an RNA-protein network and RNA granules. In: J Cell Sci, 132(12). DOI: 10.1242/jcs.229252.
  10. Becker, Y.; Forster, S.; Gielen, G. H.; Loke, I.; Thaysen-Andersen, M.; Laurini, C. et al. (2019): Paucimannosidic glycoepitopes inhibit tumorigenic processes in glioblastoma multiforme. In: Oncotarget, 10(43), 4449-4465. DOI: 10.18632/oncotarget.27056.
  11. Bauml, C. A.; Schmitz, T.; Paul George, A. A.; Sudarsanam, M.; Hardes, K.; Steinmetzer, T. et al. (2019): Coagulation Factor Xiiia-Inhibitor Tridegin: On the Role of Disulfide Bonds for Folding, Stability, and Function. In: Journal of Medicinal Chemistry. DOI: 10.1021/acs.jmedchem.8b01982.
  12. Wilkening, A.; Rub, C.; Sylvester, M.; Voos, W. (2018): Analysis of heat-induced protein aggregation in human mitochondria. In: J Biol Chem. DOI: 10.1074/jbc.RA118.002122.
  13. Schmiesing, J.; Storch, S.; Dorfler, A. C.; Schweizer, M.; Makrypidi-Fraune, G.; Thelen, M. et al. (2018): Disease-Linked Glutarylation Impairs Function and Interactions of Mitochondrial Proteins and Contributes to Mitochondrial Heterogeneity. In: Cell Rep, 24(11), 2946-2956. DOI: 10.1016/j.celrep.2018.08.014.
  14. Koch, T.; Dahl, C. (2018): A novel bacterial sulfur oxidation pathway provides a new link between the cycles of organic and inorganic sulfur compounds. In: ISME J. DOI: 10.1038/s41396-018-0209-7.
  15. Crusemann, M.; Reher, R.; Schamari, I.; Brachmann, A. O.; Ohbayashi, T.; Kuschak, M. et al. (2018): Heterologous Expression, Biosynthetic Studies, and Ecological Function of the Selective Gq-Signaling Inhibitor FR900359. In: Angew Chem Int Ed Engl, 57(3), 836-840. DOI: 10.1002/anie.201707996.
  16. Wijasa, T. S.; Sylvester, M.; Brocke-Ahmadinejad, N.; Kummer, M. P.; Brosseron, F.; Gieselmann, V. et al. (2017): Proteome profiling of s-nitrosylated synaptosomal proteins by isobaric mass tags. In: J Neurosci Methods, 291, 95-100. DOI: 10.1016/j.jneumeth.2017.08.005.
  17. Peng, W.; Grobe, W.; Walgenbach-Brunagel, G.; Flicker, S.; Yu, C.; Sylvester, M. et al. (2017): Distinct Expression and Function of FcepsilonRII in Human B Cells and Monocytes. In: J Immunol, 198(8), 3033-3044. DOI: 10.4049/jimmunol.1601028.
  18. Papala, A.; Sylvester, M.; Dyballa-Rukes, N.; Metzger, S.; D'Haese, J. (2017): Isolation and characterization of human CapG expressed and post-translationally modified in Pichia pastoris. In: Protein Expr Purif, 134, 25-37. DOI: 10.1016/j.pep.2017.03.017.
  19. Hufendiek, P.; Stolben, S. S. M.; Kehraus, S.; Merten, N.; Harms, H.; Crusemann, M. et al. (2017): Biosynthetic Studies on Acetosellin and Structure Elucidation of a New Acetosellin Derivative. In: Planta Med, 83(12-13), 1044-1052. DOI: 10.1055/s-0042-124493.
  20. Hardt, P.; Engels, I.; Rausch, M.; Gajdiss, M.; Ulm, H.; Sass, P. et al. (2017): The cell wall precursor lipid II acts as a molecular signal for the Ser/Thr kinase PknB of Staphylococcus aureus. In: Int J Med Microbiol, 307(1), 1-10. DOI: 10.1016/j.ijmm.2016.12.001.
  21. Bruderek, M.; Jaworek, W.; Wilkening, A.; Rub, C.; Cenini, G.; Fortsch, A. et al. (2017): IMiQ: a novel protein quality control compartment protecting mitochondrial functional integrity. In: Mol Biol Cell. DOI: 10.1091/mbc.E17-01-0027.
  22. Kaczmarczyk, L.; Labrie-Dion, E.; Sehgal, K.; Sylvester, M.; Skubal, M.; Josten, M. et al. (2016): New Phosphospecific Antibody Reveals Isoform-Specific Phosphorylation of CPEB3 Protein. In: PLoS ONE, 11(2), e0150000. DOI: 10.1371/journal.pone.0150000.
  23. Beckmann, A. M.; Glebov, K.; Walter, J.; Merkel, O.; Mangold, M.; Schmidt, F. et al. (2016): The intact Kunitz domain protects the amyloid precursor protein from being processed by matriptase-2. In: Biol Chem, 397(8), 777-790. DOI: 10.1515/hsz-2015-0263.
  24. Zocher, G.; Vilstrup, J.; Heine, D.; Hallab, A.; Goralski, E.; Hertweck, C. et al. (2015): Structural basis of head to head polyketide fusion by CorB [Article]. In: Chemical Science, 6(11), 6525-6536. DOI: 10.1039/c5sc02488a.
  25. Yassin, A. F.; Sproer, C.; Pukall, R.; Sylvester, M.; Siering, C.; Schumann, P. (2015): Dissection of the genus Actinobaculum: Reclassification of Actinobaculum schaalii Lawson et al. 1997 and Actinobaculum urinale Hall et al. 2003 as Actinotignum schaalii gen. nov., comb. nov. and Actinotignum urinale comb. nov., description of Actinotignum sanguinis sp. nov. and emended descriptions of the genus Actinobaculum and Actinobaculum suis; and re-examination of the culture deposited as Actinobaculum massiliense CCUG 47753T ( = DSM 19118T), revealing that it does not represent a strain of this species. In: Int J Syst Evol Microbiol, 65(Pt 2), 615-624. DOI: 10.1099/ijs.0.069294-0.
  26. Weissgerber, T.; Sylvester, M.; Kroninger, L.; Dahl, C. (2014): A Comparative Quantitative Proteomic Study Identifies New Proteins Relevant for Sulfur Oxidation in the Purple Sulfur Bacterium Allochromatium vinosum. In: Applied and environmental microbiology. DOI: 10.1128/AEM.04182-13.
  27. Dodenhof, T.; Dietz, F.; Franken, S.; Grunwald, I.; Kelm, S. (2014): Splice Variants of Perlucin from Haliotis laevigata Modulate the Crystallisation of CaCO3. In: PLoS ONE, 9(5), e97126. DOI: 10.1371/journal.pone.0097126.
  28. Lohr, F.; Jenniches, I.; Frizler, M.; Meehan, M. J.; Sylvester, M.; Schmitz, A. et al. (2013): alpha,beta -> beta,gamma double bond migration in corallopyronin A biosynthesis. In: Chemical Science, 4(11), 4175-4180. DOI: 10.1039/C3sc51854j.

The Core Facilities thank the German Research Foundation for continuous support.

Durchführung einer Laparoaskopie
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Contributors
Simon Schneider