MPS MtL Publications

Comprehensive list of publications from the students and faculty of MtL

Here we list articles with contributions of our Matter to Life students. MtL students and faculty name are highlighted in bold.

2024

  • Santini, B.L.; Wendel, S.; Halbwedl, N.; Knipp, A.; Zacharias, M. cPEPmatch Webserver: A comprehensive tool and database to aid rational design of cyclic peptides for drug discovery. 2024. Computational and Structural Biotechnology Journal. Volume 23.  https://doi.org/10.1016/j.csbj.2024.08.008
  • Santini, B.L., Gaardløs, M., Wyrzykowski, D., Rothemund, S., Penk, A., Zacharias, M., and Samsonov, S.A. Rational design of glycosaminoglycan binding cyclic peptides using cPEPmatch. 2024. Computational and Structural Biotechnology Journal, Volume 23. https://doi.org/10.1016/j.csbj.2024.07.016
  • Ishaqat, A.; Hahmann, J.; Lin, C.; Zhang, X.; He, C.; Rath, W. H.; Habib, P.; Sahnoun, S. E. M.; Rahimi, K; Vinokur, R; Mottaghy, F. M.; Göstl, R.; Bartneck, M.; Herrmann, A. In Vivo Polymer Mechanochemistry with Polynucleotides. Adv. Mater. 2024, 36, 2403752. https://doi.org/10.1002/adma.202403752
  • Abdel-Rahman, S.; Santini, B.L.; Calvo-Barreiro, L. Zacharias,M.; Gabr, M. Design of cyclic peptides as novel inhibitors of ICOS/ICOSL interaction. 2024, 129599. https://doi.org/10.1016/j.bmcl.2024.129599
  • Poprawa, S.M.; Stasi, M.; Kriebisch, B.A.K.; Wenisch, M.; Sastre, J.; Boekhoven, J. et al. Active droplets through enzyme-free, dynamic phosphorylation. Nat Commun 15, 4204 (2024). https://doi.org/10.1038/s41467-024-48571-z
  • Kriebisch, C.M.E.; Burger, L.; Zozulia, O.; Stasi, M.; Floroni, A.; Braun D.; Gerland U.; Boekhoven, J. Template-based copying in chemically fuelled dynamic combinatorial libraries. Nat. Chem. 2024. https://doi.org/10.1038/s41557-024-01570-5
  • Simone Giaveri, S.*; Bohra, N.*; Diehl, C.;  Yang, H.Y.; Ballinger, M.; Paczia, N.; Glatter, T.; Erb T.J. Integrated translation and metabolism in a partially self-synthesizing biochemical network. Science, 11 Jul 2024, Vol 385, Issue 6705, pp. 174-178 DOI: 10.1126/science.adn3856. *shared first authorship
  • Häfner, G. and Müller, M. Reaction-Driven Diffusiophoresis of Liquid Condensates: Potential Mechanisms for Intracellular Organization. ACS Nano 2024, 18, 26, 16530–16544. https://doi.org/10.1021/acsnano.3c12842
  • Fink A.; Fazliev, S.; Abele, T.; Spatz, J.P.; Göpfrich, K.; Cavalcanti-Adam, E.A. Membrane localization of actin filaments stabilizes giant unilamellar vesicles against external deforming forces. Eur. J. Cell Biol. Volume 103, Issue 2, June 2024, 151428 https://doi.org/10.1016/j.ejcb.2024.151428
  • Poprawa, S.M.; Stasi, M.; Kriebisch, B.A.K.; Wenisch, M.; Sastre, J.; Boekhoven, J. Active droplets through enzyme-free, dynamic phosphorylation. Nat Commun 15, 4204 (2024). https://doi.org/10.1038/s41467-024-48571-z
  • Drozdowski, O.M. and Schwarz, U.S. Morphological instability at topological defects in a three-dimensional vertex model for spherical epithelia. Phys. Rev. Research 6, L022045. 2024. https://doi.org/10.1103/PhysRevResearch.6.L022045
  • M. Poprawa, S.M.; Stasi, M.; Kriebisch, B.A.K.; Wenisch, M.; Sastre, J.; Boekhoven, J. Active droplets through enzyme-free, dynamic phosphorylation. Nat Commun 15, 4204 (2024). https://doi.org/10.1038/s41467-024-48571-z
  • Zhao, X.; Hartich, D.; Godec, A. Emergence of Memory in Equilibrium versus Nonequilibrium Systems. Phys. Rev. Lett. 132, 147101, 2024. https://doi.org/10.1103/PhysRevLett.132.147101
    Alfken, J.; Neuhaus, C.; Major, A.; Taskina, A.; Hoffmann, C., Ganzella, M., Petrovic, A., Zwicker, D.; Fernández-Busnadiego, R.; Jahn, R.; Milovanovic, D.; Salditt, T. Vesicle condensation induced by synapsin: condensate size, geometry, and vesicle shape deformations. Eur. Phys. J. E 47, 8 (2024). https://doi.org/10.1140/epje/s10189-023-00404-5
  • Hahmann, J.; Ishaqat, A.; Lammers, T.; Herrmann, A. Sonogenetics for Monitoring and Modulating Biomolecular Function by Ultrasound. Angew Chem Int Ed Engl 2024, 63 (13), https://doi.org/10.1002/anie.202317112
  • Kohyama, S.; Frohn, B.P.; Babl L.; Schwille, P.  Nature Communications 2024. https://www.nature.com/articles/s41467-024-46203-0
  • Stasi, M.; Soria-Carrera H.; Boekhoven J. Synthesis Goes Uphill. Nature Synthesis 2024. https://www.nature.com/articles/s44160-024-00515-7
  • Ivanova, J.R.;  Benk, A.S.; Schaefer, JV.; Dreier B; Hermann, L.O.; Plückthun, A; Missirlis, D.*; and Spatz, JP*. Designed Ankyrin Repeat Proteins as Actin Labels of Distinct Cytoskeletal Structures in Living Cells. ACS Nano. 2024 https://pubs.acs.org/doi/full/10.1021/acsnano.3c12265
  • Macher, M.; Obermeier, A.; Fabritz, S.; Kube, M.; Kempf, H.; Dietz, H.; Platzman, I.; Spatz, J.P.  An Efficient Method for the Production of High-Purity Bioinspired Large Unilamellar Vesicles. ACS Synth. Biol. 2024. https://pubs.acs.org/doi/10.1021/acssynbio.3c00540?ref=PDF

2023

  • Häfner, G. and Müller, M. Reaction-driven assembly: controlling changes in membrane topology by reaction cycles. Soft Matter, 2023,19, 7281-7292. https://doi.org/10.1039/D3SM00876B
  • Rennekamp, B.; Karfusehr, C.; Kurth, M.; Ünal, A.; Monego, D.; Riedmiller, K.; Gryn’ova, G.; Hudson, D. M.; Gräter, F. Collagen Breaks at Weak Sacrificial Bonds Taming Its Mechanoradicals. Nat. Commun. 2023, 14 (1), 2075. https://www.nature.com/articles/s41467-023-37726-z
  • Pham, T. L.; Fazliev, S.; Baur, P.; Comba, P.; Thomas, F. An Engineered Β‐Hairpin Peptide Forming Thermostable Complexes with Zn II , Ni II , and Cu II through a His 3 Site. ChemBioChem 2023, 24 (3). https://doi.org/10.1002/cbic.202200588.
  • Nietmann, P.; Kaub, K.; Suchenko, A.; Stenz, S.; Warnecke, C.; Balasubramanian, M. K.; Janshoff, A. Cytosolic actin isoforms form networks with different rheological properties that indicate specific biological function. Nat Commun 2023, 14 (1), 7989. https://www.nature.com/articles/s41467-023-43653-w
  • Mayer, T.; Oesinghaus, L.; Simmel, F. C. Toehold-Mediated Strand Displacement in Random Sequence Pools. J. Am. Chem. Soc. 2023, 145 (1), 634–644. https://doi.org/10.1021/jacs.2c11208.
  • Gürth, C.-M.; do Rego Barros Fernandes Lima, M. A.; Macarrón Palacios, V.; Cereceda Delgado, A. R.; Hubrich, J.; D’Este, E. Neurofilament Levels in Dendritic Spines Associate with Synaptic Status. Cells 2023, 12 (6), 909. https://doi.org/10.3390/cells12060909.
  • Geisler, J.; Yan, V. T.; Grill, S.; Narayanan, A. Mass Balance Imaging: A Phase Portrait Analysis for Characterizing Growth Kinetics of Biomolecular Condensates. In Phase-Separated Biomolecular Condensates; Zhou, H.-X., Spille, J.-H., Banerjee, P. R., Eds.; Methods in Molecular Biology; Springer US: New York, NY, 2023; Vol. 2563, pp 413–424. https://doi.org/10.1007/978-1-0716-2663-4_21.
  • Ehret, T.; Heißenberg, T.; de Buhr, S.; Aponte-Santamaría, C.; Steinem, C.; Gräter, F. FERM Domains Recruit Ample PI(4,5)P2s to Form Extensive Protein-Membrane Attachments. Biophys. J. 2023, 122 (7), 1325–1333. https://doi.org/10.1016/j.bpj.2023.02.027.
  • Chen, X.; Stasi, M.; Rodon-Fores, J.; Großmann, P. F.; Bergmann, A. M.; Dai, K.; Tena-Solsona, M.; Rieger, B.; Boekhoven, J. A Carbodiimide-Fueled Reaction Cycle That Forms Transient 5(4 H )-Oxazolones. J. Am. Chem. Soc. 2023, 145 (12), 6880–6887. https://doi.org/10.1021/jacs.3c00273.
  • Bergmann, A. M.; Bauermann, J.; Bartolucci, G.; Donau, C.; Stasi, M.; Holtmannspötter, A. L.; Jülicher, F.; Weber, C. A.; Boekhoven, J. Liquid spherical shells are a non-equilibrium steady state of active droplets. Nat Commun. 2023, 14 (1), 6552.https://www.nature.com/articles/s41467-023-42344-w
  • Buzas, D.; Bunzel, A. H.; Staufer, O.; Milodowski, E. J.; Edmunds, G. L.; Bufton, J. C.; Vidana Mateo, B. V.; Yadav, S. K. N.; Gupta, K.; Fletcher, C.; et al. In vitro generated antibodies guide thermostable ADDomer nanoparticle design for nasal vaccination and passive immunization against SARS-CoV-2. Antib Ther 2023, 6 (4), 277-297. https://pubmed.ncbi.nlm.nih.gov/38075238/
  • Sachenbacher, K.; Khoshouei, A.; Honemann, M. N.; Engelen, W.; Feigl, E.; Dietz, H. Triple-Stranded DNA As a Structural Element in DNA Origami. ACS Nano. 2023, 17 (10), 9014-9024. DOI: 10.1021/acsnano.2c11402
  • Shi, R.; Reichardt, M.; Fiegle, D. J.; Küpfer, L. K.; Czajka, T.; Sun, Z.; Salditt, T.; Dendorfer, A.; Seidel, T.; Bruegmann, T. Contractility measurements for cardiotoxicity screening with ventricular myocardial slices of pigs. Cardiovasc Res. 2023, 119 (14), 2469-2481. https://pubmed.ncbi.nlm.nih.gov/37934066/
  • Stephan, M. S.; Dunsing, V.; Pramanik, S.; Chiantia, S.; Barbirz, S.; Robinson, T.; Dimova, R. Biomimetic asymmetric bacterial membranes incorporating lipopolysaccharides. Biophys J. 2023, 122 (11), 2147-2161. https://pubmed.ncbi.nlm.nih.gov/36523159/
  • Heidecker, A. A.; Stasi, M.; Spears, A.; Boekhoven, J.; Pöthig, A. Silver and Gold Pillarplex Pseudorotaxanes from α,ω-Dicarboxylic Acids. Chempluschem. 2023, 88 (11), e202300234. https://chemistry-europe.onlinelibrary.wiley.com/doi/full/10.1002/cplu.202300234
  • Hsu, C. P.; Aretz, J.; Hordeichyk, A.; Fässler, R.; Bausch, A. R. Surface-induced phase separation of reconstituted nascent integrin clusters on lipid membranes. Proc Natl Acad Sci USA 2023, 120 (31), e2301881120. https://www.pnas.org/doi/full/10.1073/pnas.2301881120
  • Ivanov, T.; Cao, S.; Bohra, N.; de Souza Melchiors, M.; Caire da Silva, L.; Landfester, K. Polymeric Microreactors with pH-Controlled Spatial Localization of Cascade Reactions. ACS Appl Mater Interfaces 2023, 15 (44), 50755-50764. https://pubs.acs.org/doi/full/10.1021/acsami.3c09196
  • Lipowsky, R.; Pramanik, S.; Benk, A. S.; Tarnawski, M.; Spatz, J. P.; Dimova, R. Elucidating the Morphology of the Endoplasmic Reticulum: Puzzles and Perspectives. ACS Nano. 2023, 17 (13), 11957-11968. https://pubs.acs.org/doi/full/10.1021/acsnano.3c01338
  • Macher, M.; Platzman, I.; Spatz, J. P. Bottom-Up Assembly of Bioinspired, Fully Synthetic Extracellular Vesicles. Methods Mol Biol. 2023, 2654, 263-276. https://experiments.springernature.com/articles/10.1007/978-1-0716-3135-5_17
  • Onnis, A.; Andreano, E.; Cassioli, C.; Finetti, F.; Della Bella, C.; Staufer, O.; Pantano, E.; Abbiento, V.; Marotta, G.; D'Elios, M. M.; et al. SARS-CoV-2 Spike protein suppresses CTL-mediated killing by inhibiting immune synapse assembly. J Exp Med. 2023, 220. https://pubmed.ncbi.nlm.nih.gov/36378226/

2022

  • Xue, Y.; Fehn, N.; Brandt, V. K.; Stasi, M.; Boekhoven, J.; Heiz, U.; Kartouzian, A. Tunable Induced Circular Dichroism in Gels. Chirality 2022, 34 (3), 550–558. https://doi.org/10.1002/chir.23409.
  • Werlein, C.; Ackermann, M.; Stark, H.; Shah, H. R.; Tzankov, A.; Haslbauer, J. D.; von Stillfried, S.; Bülow, R. D.; El-Armouche, A.; Kuenzel, S.; Robertus, J. L.; Reichardt, M.; Haverich, A.; Höfer, A.; Neubert, L.; Plucinski, E.; Braubach, P.; Verleden, S.; Salditt, T.; Marx, N.; Welte, T.; Bauersachs, J.; Kreipe, H.-H.; Mentzer, S. J.; Boor, P.; Black, S. M.; Länger, F.; Kuehnel, M.; Jonigk, D. Inflammation and Vascular Remodeling in COVID-19 Hearts. Angiogenesis 2022. https://doi.org/10.1007/s10456-022-09860-7.
  • Treyde, W.; Riedmiller, K.; Gräter, F. Bond Dissociation Energies of X–H Bonds in Proteins. RSC Adv. 2022, 12 (53), 34557–34564. https://doi.org/10.1039/D2RA04002F.
  • Staufer, O.; Hernandez Bücher, J. E.; Fichtler, J.; Schröter, M.; Platzman, I.; Spatz, J. P. Vesicle Induced Receptor Sequestration: Mechanisms behind Extracellular Vesicle‐Based Protein Signaling. Adv. Sci. 2022, 9 (13), 2200201. https://doi.org/10.1002/advs.202200201.
  • Staufer, O.; Gupta, K.; Hernandez Bücher, J. E.; Kohler, F.; Sigl, C.; Singh, G.; Vasileiou, K.; Yagüe Relimpio, A.; Macher, M.; Fabritz, S.; Dietz, H.; Cavalcanti Adam, E. A.; Schaffitzel, C.; Ruggieri, A.; Platzman, I.; Berger, I.; Spatz, J. P. Synthetic Virions Reveal Fatty Acid-Coupled Adaptive Immunogenicity of SARS-CoV-2 Spike Glycoprotein. Nat. Commun. 2022, 13 (1), 868. https://doi.org/10.1038/s41467-022-28446-x. 
  • Stasi, M.; Monferrer i Sureda, A.; Babl, L.; Wunnava, S.; Dirscherl, C.; Braun, D.; Schwille, P.; Dietz, H.; Boekhoven, J. Regulating the Dynamic Folding of a DNA Hairpin at the Expense of a Small, Molecular Fuel; J. Am. Chem. Soc. 2022, 144, 48, 21939–21947. https://pubs.acs.org/doi/10.1021/jacs.2c08463
  • Staufer, O.; Gantner, G.; Platzman, I.; Tanner, K.; Berger, I.; Spatz, J. P. Bottom-up Assembly of Viral Replication Cycles. Nat. Commun. 2022, 13 (1), 6530. https://doi.org/10.1038/s41467-022-33661-7.
  • Stasi, M.; Monferrer, A.; Babl, L.; Wunnava, S.; Dirscherl, C. F.; Braun, D.; Schwille, P.; Dietz, H.; Boekhoven, J. Regulating DNA-Hybridization Using a Chemically Fueled Reaction Cycle. J. Am. Chem. Soc. 2022, 144 (48), 21939–21947. https://doi.org/10.1038/s41467-022-33661-7.
  • Schepers, A. V.; Kraxner, J.; Lorenz, C.; Köster, S. Mechanics of Single Vimentin Intermediate Filaments Under Load. In Optical Tweezers; Gennerich, A., Ed.; Methods in Molecular Biology; Springer US: New York, NY. 2022; Vol. 2478, pp 677–700. https://doi.org/10.1007/978-1-0716-2229-2_24.
  • Pramanik, S.; Steinkühler, J.; Dimova, R.; Spatz, J.; Lipowsky, R. Binding of His-Tagged Fluorophores to Lipid Bilayers of Giant Vesicles. Soft Matter 2022, 18 (34), 6372–6383. https://doi.org/10.1039/D2SM00915C.
  • Morstein, J.; Capecchi, A.; Hinnah, K.; Park, B.; Petit-Jacques, J.; Van Lehn, R. C.; Reymond, J.-L.; Trauner, D. Medium-Chain Lipid Conjugation Facilitates Cell-Permeability and Bioactivity. J. Am. Chem. Soc. 2022, 144 (40), 18532–18544. https://doi.org/10.1021/jacs.2c07833.
  • Mertes, N.; Busch, M.; Huppertz, M.-C.; Hacker, C. N.; Wilhelm, J.; Gürth, C.-M.; Kühn, S.; Hiblot, J.; Koch, B.; Johnsson, K. Fluorescent and Bioluminescent Calcium Indicators with Tuneable Colors and Affinities. J. Am. Chem. Soc. 2022, 144 (15), 6928–6935. https://doi.org/10.1021/jacs.2c01465.
  • Martin, I. M.; Aponte-Santamaría, C.; Schmidt, L.; Hedtfeld, M.; Iusupov, A.; Musacchio, A.; Gräter, F. Phosphorylation Tunes Elongation Propensity and Cohesiveness of INCENP’s Intrinsically Disordered Region. J. Mol. Biol. 2022, 434 (1), 167387. https://doi.org/10.1016/j.jmb.2021.167387.
  • Lorenz, C.; Schepers, A. V.; Köster, S. Quantifying the Interaction Strength Between Biopolymers. In Optical Tweezers; Gennerich, A., Ed.; Methods in Molecular Biology; Springer US: New York, NY, 2022; Vol. 2478, pp 701–723. https://doi.org/10.1007/978-1-0716-2229-2_25.
  • Lena, A.; Benassi, A.; Stasi, M.; Saint‐Pierre, C.; Freccero, M.; Gasparutto, D.; Bombard, S.; Doria, F.; Verga, D. Photoactivatable V‐Shaped Bifunctional Quinone Methide Precursors as a New Class of Selective G‐quadruplex Alkylating Agents. Chem. – Eur. J. 2022, 28 (35). https://doi.org/10.1002/chem.202200734.
  • Kurjahn, M.; Deka, A.; Girot, A.; Abbaspour, L.; Klumpp, S.; Lorenz, M.; Bäumchen, O.; Karpitschka, S. Self-Buckling of Filamentous Cyanobacteria Reveals Gliding Forces. 2022. https://doi.org/10.48550/ARXIV.2202.13658.
  • Hernandez Bücher, J. E.; Staufer, O.; Ostertag, L.; Mersdorf, U.; Platzman, I.; Spatz, J. P. Bottom-up Assembly of Target-Specific Cytotoxic Synthetic Cells. Biomaterials 2022, 285, 121522. https://doi.org/10.1016/j.biomaterials.2022.121522.
  • Hayakawa, D.; Videbæk, T. E.; Hall, D. M.; Fang, H.; Sigl, C.; Feigl, E.; Dietz, H.; Fraden, S.; Hagan, M. F.; Grason, G. M.; Rogers, W. B. Geometrically Programmed Self-Limited Assembly of Tubules Using DNA Origami Colloids. 2022. https://doi.org/10.48550/ARXIV.2203.01421.
  • Gupta, K.; Toelzer, C.; Williamson, M. K.; Shoemark, D. K.; Oliveira, A. S. F.; Matthews, D. A.; Almuqrin, A.; Staufer, O.; Yadav, S. K. N.; Borucu, U.; Garzoni, F.; Fitzgerald, D.; Spatz, J.; Mulholland, A. J.; Davidson, A. D.; Schaffitzel, C.; Berger, I. Structural Insights in Cell-Type Specific Evolution of Intra-Host Diversity by SARS-CoV-2. Nat. Commun. 2022, 13 (1), 222. https://doi.org/10.1038/s41467-021-27881-6.
  • Friedland, F.; Babu, S.; Springer, R.; Konrad, J.; Herfs, Y.; Gerlach, S.; Gehlen, J.; Krause, H.-J.; De Laporte, L.; Merkel, R.; Noetzel, E. ECM-Transmitted Shear Stress Induces Apoptotic Cell Extrusion in Early Breast Gland Development. Front. Cell Dev. Biol. 2022, 10, 947430. https://doi.org/10.3389/fcell.2022.947430.
  • Engelhardt, J.; Ellerhoff, B.; Gürth, C.; Sahl, S. J.; Hell, S. W. Designing Chromatic Optical Retarder Stacks for Segmented Next‐generation EasySTED Phase Plates. J. Microsc. 2022. https://doi.org/10.1111/jmi.13143.
  • Elonen, A.; Natarajan, A. K.; Kawamata, I.; Oesinghaus, L.; Mohammed, A.; Seitsonen, J.; Suzuki, Y.; Simmel, F. C.; Kuzyk, A.; Orponen, P. Algorithmic Design of 3D Wireframe RNA Polyhedra. ACS Nano 2022, 16 (10), 16608–16616. https://doi.org/10.1021/acsnano.2c06035.
  • Drozdowski, O. M.; Ziebert, F.; Schwarz, U. S. Optogenetic Switching of Migration of Contractile Cells. arXiv June 13, 2022. http://arxiv.org/abs/2206.05915.
  • Dreyer, O.; Ibbeken, G.; Schneider, L.; Blagojevic, N.; Radjabian, M.; Abetz, V.; Müller, M. Simulation of Solvent Evaporation from a Diblock Copolymer Film: Orientation of the Cylindrical Mesophase. Macromolecules 2022, 55 (17), 7564–7582. https://doi.org/10.1021/acs.macromol.2c00612.
  • Dreher, Y.; Fichtler, J.; Karfusehr, C.; Jahnke, K.; Xin, Y.; Keller, A.; Göpfrich, K. Genotype-Phenotype Mapping with Polyominos Made from DNA Origami Tiles. Biophys. J. 2022, S0006349522007342. https://doi.org/10.1016/j.bpj.2022.09.006.
  • Donau, C.; Späth, F.; Stasi, M.; Bergmann, A. M.; Boekhoven, J. Phase Transitions in Chemically Fueled, Multiphase Complex Coacervate Droplets. Angew. Chem. Int. Ed. 2022, 61 (46). https://doi.org/10.1002/anie.202211905.
  • Braunmiller, D. L.; Babu, S.; Gehlen, D. B.; Seuß, M.; Haraszti, T.; Falkenstein, A.; Eigen, J.; De Laporte, L.; Crassous, J. J. Pre‐Programmed Rod‐Shaped Microgels to Create Multi‐Directional Anisogels for 3D Tissue Engineering. Adv. Funct. Mater. 2022, 2202430. https://doi.org/10.1002/adfm.202202430.
  • Bodenschatz, J. F. E.; Ajmail, K.; Skamrahl, M.; Vache, M.; Gottwald, J.; Nehls, S.; Janshoff, A. Epithelial Cells Sacrifice Excess Area to Preserve Fluidity in Response to External Mechanical Stress. Commun. Biol. 2022, 5 (1), 855. https://doi.org/10.1038/s42003-022-03809-8.
  • Betge, J.; Rindtorff, N.; Sauer, J.; Rauscher, B.; Dingert, C.; Gaitantzi, H.; Herweck, F.; Srour-Mhanna, K.; Miersch, T.; Valentini, E.; Boonekamp, K. E.; Hauber, V.; Gutting, T.; Frank, L.; Belle, S.; Gaiser, T.; Buchholz, I.; Jesenofsky, R.; Härtel, N.; Zhan, T.; Fischer, B.; Breitkopf-Heinlein, K.; Burgermeister, E.; Ebert, M. P.; Boutros, M. The Drug-Induced Phenotypic Landscape of Colorectal Cancer Organoids. Nat. Commun. 2022, 13 (1), 3135. https://doi.org/10.1038/s41467-022-30722-9.
  • Baur, P.; Kühl, M.; Comba, P.; Behrendt, L. Possible Functional Roles of Patellamides in the Ascidian-Prochloron Symbiosis. Mar. Drugs 2022, 20 (2), 119. https://doi.org/10.3390/md20020119.
  • Baur, P.; Comba, P.; Velmurugan, G. Efficient Synthesis for a Wide Variety of Patellamide Derivatives and Phosphatase Activity of Copper‐Patellamide Complexes. Chem. – Eur. J. 2022, 28 (23). https://doi.org/10.1002/chem.202200249.
  • Baur, P.; Silva, C. C. da; Baur, P.; Peres, R. da S.; Dario, I. S. N. Vegetative Cycle, Ant Mutualism and Leaf Characteristics of Coccoloba Gigantifolia Trees at a New Site in Central Amazonia. Flora 2022, 288, 152020. https://doi.org/10.1016/j.flora.2022.152020.
  • Bamberg, L. V.; Heigwer, F.; Wandmacher, A. M.; Singh, A.; Betge, J.; Rindtorff, N.; Werner, J.; Josten, J.; Skabkina, O. V.; Hinsenkamp, I.; Erdmann, G.; Röcken, C.; Ebert, M. P.; Burgermeister, E.; Zhan, T.; Boutros, M. Targeting Euchromatic Histone Lysine Methyltransferases Sensitizes Colorectal Cancer to Histone Deacetylase Inhibitors. Int. J. Cancer 2022, 151 (9), 1586–1601. https://doi.org/10.1002/ijc.34155.
  • Babu, S.; Chen, I.; Vedaraman, S.; Gerardo‐Nava, J.; Licht, C.; Kittel, Y.; Haraszti, T.; Di Russo, J.; De Laporte, L. How Do the Local Physical, Biochemical, and Mechanical Properties of an Injectable Synthetic Anisotropic Hydrogel Affect Oriented Nerve Growth? Adv. Funct. Mater. 2022, 2202468. https://doi.org/10.1002/adfm.202202468.
  • Babl, L.; Merino-Salomón, A.; Kanwa, N.; Schwille, P. Membrane Mediated Phase Separation of the Bacterial Nucleoid Occlusion Protein Noc. Sci. Rep. 2022, 12 (1), 17949. https://doi.org/10.1038/s41598-022-22680-5
  • Babl, L.; Giacomelli, G.; Ramm, B.; Gelmroth, A.-K.; Bramkamp, M.; Schwille, P. CTP-Controlled Liquid–Liquid Phase Separation of ParB. J. Mol. Biol. 2022, 434 (2), 167401. https://doi.org/10.1016/j.jmb.2021.167401.
  • Agirrezabala, X.; Samatova, E.; Macher, M.; Liutkute, M.; Maiti, M.; Gil‐Carton, D.; Novacek, J.; Valle, M.; Rodnina, M. V. A Switch from Α‐helical to Β‐strand Conformation during Co‐translational Protein Folding. EMBO J. 2022, 41https://doi.org/10.15252/embj.2021109175 (4).
  • Adir, O.; Albalak, M. R.; Abel, R.; Weiss, L. E.; Chen, G.; Gruber, A.; Staufer, O.; Kurman, Y.; Kaminer, I.; Shklover, J.; Shainsky-Roitman, J.; Platzman, I.; Gepstein, L.; Shechtman, Y.; Horwitz, B. A.; Schroeder, A. Synthetic Cells with Self-Activating Optogenetic Proteins Communicate with Natural Cells. Nat. Commun. 2022, 13 (1), 2328. https://doi.org/10.1038/s41467-022-29871-8.
  • Gao, L.; Meiring, J. C. M.; Varady, A.; Ruider, I. E.; Heise, C.; Wranik, M.; Velasco, C. D.; Taylor, J. A.; Terni, B.; Weinert, T.; et al. In Vivo Photocontrol of Microtubule Dynamics and Integrity, Migration and Mitosis, by the Potent GFP-Imaging-Compatible Photoswitchable Reagents SBTubA4P and SBTub2M. J Am Chem Soc. 2022, 144 (12), 5614-5628. https://pubs.acs.org/doi/full/10.1021/jacs.2c01020
  • Mertes, N.; Busch, M.; Huppertz, M. C.; Hacker, C. N.; Wilhelm, J.; Gürth, C. M.; Kühn, S.; Hiblot, J.; Koch, B.; Johnsson, K. Fluorescent and Bioluminescent Calcium Indicators with Tuneable Colors and Affinities. J Am Chem Soc. 2022, 144 (15), 6928-6935. https://pubs.acs.org/doi/10.1021/jacs.2c01465
  • Staufer, O.; Gupta, K.; Hernandez Bücher, J. E.; Kohler, F.; Sigl, C.; Singh, G.; Vasileiou, K.; Yagüe Relimpio, A.; Macher, M.; Fabritz, S.; et al. Synthetic virions reveal fatty acid-coupled adaptive immunogenicity of SARS-CoV-2 spike glycoprotein. Nat Commun. 2022, 13 (1), 868. https://www.nature.com/articles/s41467-022-28446-x

2021

  • Abbaspour, L.; Klumpp, S. Enhanced Diffusion of a Tracer Particle in a Lattice Model of a Crowded Active System. Phys. Rev. E 2021, 103 (5), 052601. https://doi.org/10.1103/PhysRevE.103.052601.
  • Oesinghaus, L.; Simmel, F.C.; Controlling Gene Expression in Mammalian Cells Using Multiplexed Conditional Guide RNAs for Cas12a. Angew.Chem.Int.Ed.2021,60,23894–23902. https://doi.org/10.1101/2021.04.16.440136
  • Babu, S.; Albertino, F.; Omidinia Anarkoli, A.; De Laporte, L. Controlling Structure with Injectable Biomaterials to Better Mimic Tissue Heterogeneity and Anisotropy. Adv. Healthc. Mater. 2021, 10 (11), 2002221. https://doi.org/10.1002/adhm.202002221.
  • Reichardt, M.; Moller Jensen, P.; Andersen Dahl, V.; Bjorholm Dahl, A.; Ackermann, M.; Shah, H.; Länger, F.; Werlein, C.; Kuehnel, M. P.; Jonigk, D.; et al. 3D virtual histopathology of cardiac tissue from Covid-19 patients based on phase-contrast X-ray tomography. Elife 2021, 10. https://elifesciences.org/articles/71359
  • Bertosin, E.; Stömmer, P.; Feigl, E.; Wenig, M.; Honemann, M. N.; Dietz, H. Cryo-Electron Microscopy and Mass Analysis of Oligolysine-Coated DNA Nanostructures. ACS Nano 2021, 15 (6), 9391–9403. https://doi.org/10.1021/acsnano.0c10137.
  • Drozdowski, O. M.; Ziebert, F.; Schwarz, U. S. Optogenetic Control of Intracellular Flows and Cell Migration: A Comprehensive Mathematical Analysis with a Minimal Active Gel Model. Phys. Rev. E 2021, 104 (2), 024406. https://doi.org/10.1103/PhysRevE.104.024406.
  • Englbrecht, F.; Ruider, I. E.; Bausch, A. R. Automatic Image Annotation for Fluorescent Cell Nuclei Segmentation. PLOS ONE 2021, 16 (4), e0250093. https://doi.org/10.1371/journal.pone.0250093.
  • Lardon, N.; Wang, L.; Tschanz, A.; Hoess, P.; Tran, M.; D’Este, E.; Ries, J.; Johnsson, K. Systematic Tuning of Rhodamine Spirocyclization for Super-Resolution Microscopy. J. Am. Chem. Soc. 2021, 143 (36), 14592–14600. https://doi.org/10.1021/jacs.1c05004.
  • Lussier, F.; Staufer, O.; Platzman, I.; Spatz, J. P. Can Bottom-Up Synthetic Biology Generate Advanced Drug-Delivery Systems? Trends Biotechnol. 2021, 39 (5), 445–459. https://doi.org/10.1016/j.tibtech.2020.08.002.
  • Merino-Salomón, A.; Babl, L.; Schwille, P. Self-Organized Protein Patterns: The MinCDE and ParABS Systems. Curr. Opin. Cell Biol. 2021, 72, 106–115. https://doi.org/10.1016/j.ceb.2021.07.001.
  • Morstein, J.; Kol, M.; Novak, A. J. E.; Feng, S.; Khayyo, S.; Hinnah, K.; Li-Purcell, N.; Pan, G.; Williams, B. M.; Riezman, H.; Atilla-Gokcumen, G. E.; Holthuis, J. C. M.; Trauner, D. Short Photoswitchable Ceramides Enable Optical Control of Apoptosis. ACS Chem. Biol. 2021, 16 (3), 452–456. https://doi.org/10.1021/acschembio.0c00823.
  • Obarska-Kosinska, A.; Rennekamp, B.; Ünal, A.; Gräter, F. ColBuilder: A Server to Build Collagen Fibril Models. Biophys. J. 2021, 120 (17), 3544–3549. https://doi.org/10.1016/j.bpj.2021.07.009.
  • Peterhoff, D.; Glück, V.; Vogel, M.; Schuster, P.; Schütz, A.; Neubert, P.; Albert, V.; Frisch, S.; Kiessling, M.; Pervan, P.; Werner, M.; Ritter, N.; Babl, L.; Deichner, M.; Hanses, F.; Lubnow, M.; Müller, T.; Lunz, D.; Hitzenbichler, F.; Audebert, F.; Hähnel, V.; Offner, R.; Müller, M.; Schmid, S.; Burkhardt, R.; Glück, T.; Koller, M.; Niller, H. H.; Graf, B.; Salzberger, B.; Wenzel, J. J.; Jantsch, J.; Gessner, A.; Schmidt, B.; Wagner, R. A Highly Specific and Sensitive Serological Assay Detects SARS-CoV-2 Antibody Levels in COVID-19 Patients That Correlate with Neutralization. Infection 2021, 49 (1), 75–82. https://doi.org/10.1007/s15010-020-01503-7.
  • Schaedel, L.; Lorenz, C.; Schepers, A. V.; Klumpp, S.; Köster, S. Vimentin Intermediate Filaments Stabilize Dynamic Microtubules by Direct Interactions. Nat. Commun. 2021, 12 (1), 3799. https://doi.org/10.1038/s41467-021-23523-z.
  • Schepers, A. V.; Lorenz, C.; Nietmann, P.; Janshoff, A.; Klumpp, S.; Köster, S. Multiscale Mechanics and Temporal Evolution of Vimentin Intermediate Filament Networks. Proc. Natl. Acad. Sci. 2021, 118 (27), e2102026118. https://doi.org/10.1073/pnas.2102026118.
  • Selezneva, E. V.; Bakirov, A. V.; Sedush, N. G.; Bystrova, A. V.; Chvalun, S. N.; Demco, D. E.; Möller, M. How Shape Memory Effects Can Contribute to Improved Self-Healing Properties in Polymer Materials. Macromolecules 2021, 54 (5), 2506–2517. https://doi.org/10.1021/acs.macromol.0c02102.
  • Staufer, O.; Antona, S.; Zhang, D.; Csatári, J.; Schröter, M.; Janiesch, J.-W.; Fabritz, S.; Berger, I.; Platzman, I.; Spatz, J. P. Microfluidic Production and Characterization of Biofunctionalized Giant Unilamellar Vesicles for Targeted Intracellular Cargo Delivery. Biomaterials 2021, 264, 120203. https://doi.org/10.1016/j.biomaterials.2020.120203.
  • Staufer, O.; De Lora, J. A.; Bailoni, E.; Bazrafshan, A.; Benk, A. S.; Jahnke, K.; Manzer, Z. A.; Otrin, L.; Díez Pérez, T.; Sharon, J.; Steinkühler, J.; Adamala, K. P.; Jacobson, B.; Dogterom, M.; Göpfrich, K.; Stefanovic, D.; Atlas, S. R.; Grunze, M.; Lakin, M. R.; Shreve, A. P.; Spatz, J. P.; López, G. P. Building a Community to Engineer Synthetic Cells and Organelles from the Bottom-Up. eLife 2021, 10, e73556. https://doi.org/10.7554/eLife.73556.
  • Staufer, O.; Dietrich, F.; Rimal, R.; Schröter, M.; Fabritz, S.; Boehm, H.; Singh, S.; Möller, M.; Platzman, I.; Spatz, J. P. Bottom-up Assembly of Biomedical Relevant Fully Synthetic Extracellular Vesicles. Sci. Adv. 2021, 7 (36), eabg6666. https://doi.org/10.1126/sciadv.abg6666.
  • Teiwes, N. K.; Mey, I.; Baumann, P. C.; Strieker, L.; Unkelbach, U.; Steinem, C. Pore-Spanning Plasma Membranes Derived from Giant Plasma Membrane Vesicles. ACS Appl. Mater. Interfaces 2021, 13 (22), 25805–25812. https://doi.org/10.1021/acsami.1c06404.
  • Wilhelm, J.; Kühn, S.; Tarnawski, M.; Gotthard, G.; Tünnermann, J.; Tänzer, T.; Karpenko, J.; Mertes, N.; Xue, L.; Uhrig, U.; Reinstein, J.; Hiblot, J.; Johnsson, K. Kinetic and Structural Characterization of the Self-Labeling Protein Tags HaloTag7, SNAP-Tag, and CLIP-Tag. Biochemistry 2021, 60 (33), 2560–2575. https://doi.org/10.1021/acs.biochem.1c00258.
  • Willems, S.; Morstein, J.; Hinnah, K.; Trauner, D.; Merk, D. A Photohormone for Light-Dependent Control of PPARα in Live Cells. J. Med. Chem. 2021, 64 (14), 10393–10402. https://doi.org/10.1021/acs.jmedchem.1c00810.

2020

  • Toelzer, C.; Gupta, K.; Yadav, S. K. N.; Borucu, U.; Davidson, A. D.; Kavanagh Williamson, M.; Shoemark, D. K.; Garzoni, F.; Staufer, O.; Milligan, R.; et al. Free fatty acid binding pocket in the locked structure of SARS-CoV-2 spike protein. Science 2020, 370 (6517), 725-730. https://www.science.org/doi/10.1126/science.abd3255
  • Baalmann, M.; Neises, L.; Bitsch, S.; Schneider, H.; Deweid, L.; Werther, P.; Ilkenhans, N.; Wolfring, M.; Ziegler, M. J.; Wilhelm, J.; Kolmar, H.; Wombacher, R. A Bioorthogonal Click Chemistry Toolbox for Targeted Synthesis of Branched and Well‐Defined Protein–Protein Conjugates. Angew. Chem. 2020, 132 (31), 12985–12993. https://doi.org/10.1002/ange.201915079.
  • Eckermann, M.; Frohn, J.; Reichardt, M.; Osterhoff, M.; Sprung, M.; Westermeier, F.; Tzankov, A.; Werlein, C.; Kühnel, M.; Jonigk, D.; Salditt, T. 3D Virtual Pathohistology of Lung Tissue from Covid-19 Patients Based on Phase Contrast X-Ray Tomography. eLife 2020, 9, e60408. https://doi.org/10.7554/eLife.60408.
  • Guido, I.; Diehl, D.; Olszok, N. A.; Bodenschatz, E. Cellular Velocity, Electrical Persistence and Sensing in Developed and Vegetative Cells during Electrotaxis. PLOS ONE 2020, 15 (9), e0239379. https://doi.org/10.1371/journal.pone.0239379.
  • Hinnah, K.; Willems, S.; Morstein, J.; Heering, J.; Hartrampf, F. W. W.; Broichhagen, J.; Leippe, P.; Merk, D.; Trauner, D. Photohormones Enable Optical Control of the Peroxisome Proliferator-Activated Receptor γ (PPARγ). J. Med. Chem. 2020, 63 (19), 10908–10920. https://doi.org/10.1021/acs.jmedchem.0c00654.
  • Kube, M.; Kohler, F.; Feigl, E.; Nagel-Yüksel, B.; Willner, E. M.; Funke, J. J.; Gerling, T.; Stömmer, P.; Honemann, M. N.; Martin, T. G.; Scheres, S. H. W.; Dietz, H. Revealing the Structures of Megadalton-Scale DNA Complexes with Nucleotide Resolution. Nat. Commun. 2020, 11 (1), 6229. https://doi.org/10.1038/s41467-020-20020-7.
  • Luo, R.; Pashapour, S.; Staufer, O.; Platzman, I.; Spatz, J. P. Polymer‐Based Porous Microcapsules as Bacterial Traps. Adv. Funct. Mater. 2020, 30 (17), 1908855. https://doi.org/10.1002/adfm.201908855.
  • Morstein, J.; Trads, J. B.; Hinnah, K.; Willems, S.; Barber, D. M.; Trauner, M.; Merk, D.; Trauner, D. Optical Control of the Nuclear Bile Acid Receptor FXR with a Photohormone. Chem. Sci. 2020, 11 (2), 429–434. https://doi.org/10.1039/C9SC02911G.
  • Reichardt, M.; Frohn, J.; Khan, A.; Alves, F.; Salditt, T. Multi-Scale X-Ray Phase-Contrast Tomography of Murine Heart Tissue. Biomed. Opt. Express 2020, 11 (5), 2633. https://doi.org/10.1364/BOE.386576.
  • Reichardt, M.; Neuhaus, C.; Nicolas, J.-D.; Bernhardt, M.; Toischer, K.; Salditt, T. X-Ray Structural Analysis of Single Adult Cardiomyocytes: Tomographic Imaging and Microdiffraction. Biophys. J. 2020, 119 (7), 1309–1323. https://doi.org/10.1016/j.bpj.2020.08.019.
  • Reichardt, M.; Töpperwien, M.; Khan, A.; Alves, F.; Salditt, T. Fiber Orientation in a Whole Mouse Heart Reconstructed by Laboratory Phase-Contrast Micro-CT. J. Med. Imaging 2020, 7 (02), 1. https://doi.org/10.1117/1.JMI.7.2.023501.
  • Rennekamp, B.; Kutzki, F.; Obarska-Kosinska, A.; Zapp, C.; Gräter, F. Hybrid Kinetic Monte Carlo/Molecular Dynamics Simulations of Bond Scissions in Proteins. J. Chem. Theory Comput. 2020, 16 (1), 553–563. https://doi.org/10.1021/acs.jctc.9b00786.
  • Schepers, A. V.; Lorenz, C.; Köster, S. Tuning Intermediate Filament Mechanics by Variation of PH and Ion Charges. Nanoscale 2020, 12 (28), 15236–15245. https://doi.org/10.1039/D0NR02778B.
  • Staufer, O.; Schröter, M.; Platzman, I.; Spatz, J. P. Bottom‐Up Assembly of Functional Intracellular Synthetic Organelles by Droplet‐Based Microfluidics. Small 2020, 16 (27), 1906424. https://doi.org/10.1002/smll.201906424.
  • Zapp, C.; Obarska-Kosinska, A.; Rennekamp, B.; Kurth, M.; Hudson, D. M.; Mercadante, D.; Barayeu, U.; Dick, T. P.; Denysenkov, V.; Prisner, T.; Bennati, M.; Daday, C.; Kappl, R.; Gräter, F. Mechanoradicals in Tensed Tendon Collagen as a Source of Oxidative Stress. Nat. Commun. 2020, 11 (1), 2315. https://doi.org/10.1038/s41467-020-15567-4.
  • Frohn, J.; Pinkert-Leetsch, D.; Missbach-Güntner, J.; Reichardt, M.; Osterhoff, M.; Alves, F.; Salditt, T. 3D virtual histology of human pancreatic tissue by multiscale phase-contrast X-ray tomography. J Synchrotron Radiat. 2020, 27 (Pt 6), 1707-1719. https://onlinelibrary.wiley.com/iucr/doi/10.1107/S1600577520011327
  • Gürth, C. M.; Dankovich, T. M.; Rizzoli, S. O.; D'Este, E. Synaptic activity and strength are reflected by changes in the post-synaptic secretory pathway. Sci Rep. 2020, 10 (1), 20576. https://www.nature.com/articles/s41598-020-77260-2

2019

  • Zhan, T.; Rindtorff, N.; Betge, J.; Ebert, M. P.; Boutros, M. CRISPR/Cas9 for Cancer Research and Therapy. Semin. Cancer Biol. 2019, 55, 106–119. https://doi.org/10.1016/j.semcancer.2018.04.001.
  • Baalmann, M.; Ziegler, M. J.; Werther, P.; Wilhelm, J.; Wombacher, R. Enzymatic and Site-Specific Ligation of Minimal-Size Tetrazines and Triazines to Proteins for Bioconjugation and Live-Cell Imaging. Bioconjug. Chem. 2019, 30 (5), 1405–1414. https://doi.org/10.1021/acs.bioconjchem.9b00157.
  • Lorenz, C.; Forsting, J.; Schepers, A. V.; Kraxner, J.; Bauch, S.; Witt, H.; Klumpp, S.; Köster, S. Lateral Subunit Coupling Determines Intermediate Filament Mechanics. Phys. Rev. Lett. 2019, 123 (18), 188102. https://doi.org/10.1103/PhysRevLett.123.188102.
  • Staufer, O.; Weber, S.; Bengtson, C. P.; Bading, H.; Rustom, A.; Spatz, J. P. Adhesion Stabilized en Masse Intracellular Electrical Recordings from Multicellular Assemblies. Nano Lett. 2019, 19 (5), 3244-3255. https://pubs.acs.org/doi/10.1021/acs.nanolett.9b00784
  • Zhan, T.; Ambrosi, G.; Wandmacher, A. M.; Rauscher, B.; Betge, J.; Rindtorff, N.; Häussler, R. S.; Hinsenkamp, I.; Bamberg, L.; Hessling, B.; Müller-Decker, K.; Erdmann, G.; Burgermeister, E.; Ebert, M. P.; Boutros, M. MEK Inhibitors Activate Wnt Signalling and Induce Stem Cell Plasticity in Colorectal Cancer. Nat. Commun. 2019, 10 (1), 2197. https://doi.org/10.1038/s41467-019-09898-0.
  • Oesinghaus, L.; Simmel, F. C. Switching the Activity of Cas12a Using Guide RNA Strand Displacement Circuits. Nat. Commun. 2019, 10 (1), 2092. https://doi.org/10.1038/s41467-019-09953-w.
  • Göpfrich, K.; Haller, B.; Staufer, O.; Dreher, Y.; Mersdorf, U.; Platzman, I.; Spatz, J. P. One-Pot Assembly of Complex Giant Unilamellar Vesicle-Based Synthetic Cells. ACS Synth Biol. 2019, 8 (5), 937-947. https://pubs.acs.org/doi/10.1021/acssynbio.9b00034

 

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