BML Joint Publications
Preprint: Reversible amyloids encode biomolecular memory through hysteresis
Alexander J. Dear, Dorota M. Pfizenmaier, Sophie Rudiger,
Anastasiia Kovalenko, Sung Sik Lee, Paolo Arosio, Matthias Peter, Thomas
C.T. Michaels. Research Square (2025)
Alpha-synuclein interacts with regulators of ATP homeostasis in mitochondria
Tetiana Serdiuk, Yanick Fleischmann, Dhiman Ghosh, Aro Delparente, Viviane Reber, Larissa Frey, David Rhyner, Juan Gerez, Norbert Volkmar, Lucie Kralickova, Guillaume Mas, Christian Dörig, Sebastian Hiller, Roger Schibli, Linjing Mu, Paola Picotti, Roland Riek. Nature Communications (2025) 16, 7651
Preprint: Nuclear mechanostability emerges from satellite DNA condensation into chromocenters
Franziska B. Brändle, Benjamin Frühbauer, Ilaria Ceppi, Logan de Monchaux-Irons, Thor van Heesch, Alessia Sommer, Francesco Rivetti, Sung Sik Lee, Chiara Morelli, Paolo Arosio, Anna Sintsova, Thomas C.T. Michaels, Petr Cejka, Jocelyne Vreede, Madhav Jagannathan
bioRxiv (2025)
Preprint: PKA regulates stress granule maturation to allow timely recovery after prolonged starvation
Sonja Kroschwald, Federico Uliana, Caroline Wilson-Zbinden, Anastasia Timofiiva, Jiangtao Zhou, Sung Sik Lee, Ludovic Gillet, Martina Zanella, Alaa Othman, Raffaele Mezzenga, Matthias Peter. bioRxiv (2025)
A highly sensitive protein-RNA cross-linking mass spectrometry workflow with enhanced structural modeling potential
Chris P. Sarnowski, Anna Knörlein, Tebbe de Vries, Michael Götze, Irene Beusch, Ruedi Aebersold, Frédéric H.-T. Allain, Jonathan Hall, Alexander Leitner. Nucleic Acids Research (2025) 53 (11): gkaf523
Amyloid fibril-templated oleogels
Svitlana Mykolenko, Mattia Usuelli, Andrin Lustgarten, Peter Fischer, Raffaele Mezzenga. Food Hydrocolloids (2025) 168: 111491.
Preprint: A conserved mechanism of membrane fusion in nuclear pore complex assembly
J. S. Fischer, M. Wojtynek, A. Kumar, H. Baird,, K. Radilová, D. Maslennikova, K. Ramachandran, A. N. Becker, A.Agote-Aran, A. Loffreda, A. Kralt, M. Jagannathan, G. Dey, U. Kutay, S. Vanni, K. Weis. bioRxiv (2025)
Cell-guiding microporous hydrogels by photopolymerization-induced phase separation
Monica Z. Müller, Margherita Bernero, Chang Xie, Wanwan Qiu, Esteban Oggianu, Lucie Rabut, Thomas C. T. Michaels, Robert W. Style, Ralph Müller & Xiao-Hua Qin. Nature Communications (2025), 16: 4923
Preprint: Structural defects in amyloid-β fibrils drive secondary nucleation
J. Hu, T. Scheidt, D. Thacker, E. Axell, E. Stemme, U. Lapinska, S. Wennmalm, G. Meisl, S. Curk, M. Andreasen, M. Vendruscolo, P. Arosio, A. Saric, J. D. Schmit, T. P. J. Knowles, E. Sparr, S. Linse, T. C. T. Michaels, A. J. Dear. bioRxiv (2025)
Preprint: Limited proteolysis-coupled mass spectrometry captures proteome-wide protein structural alterations and biomolecular condensation in living cells
F. Elsässer, R. Florea, F. Räsch, K. Weis, N. de Souza, P. Picotti. bioRxiv (2025)
Preprint: Volume buffering in multi-component phase separation
T. Michaels, L. de Monchaux-Irons, N. Han. B. Frühbauer, J. Jiang, F. Allain, M. Jagannathan, L. Emmanouilidis. Research Square (2025)
A nuclear architecture screen in Drosophila identifies Stonewall as a link between chromatin position at the nuclear periphery and germline stem cell fate
Ankita Chavan, Randi Isenhart, Son C. Nguyen, Noor Kotb, Jailynn Harke, Anna Sintsova, Gulay Ulukaya, Federico Uliana, Caroline Ashiono, Ulrike Kutay, Gianluca Pegoraro, Prashanth Rangan, Eric F. Joyce, Madhav Jagannathan. Genes & Development (2024) 38: 1-21
Global profiling of protein complex dynamics with an experimental library of protein interaction markers
Christian Dörig, Cathy Marulli, Thomas Peskett, Norbert Volkmar, Lorenzo Pantolini, Gabriel Studer, Camilla Paleari, Fabian Frommelt, Torsten Schwede, Natalie de Souza, Yves Barral, Paola Picotti. Nature Biotechnology (2024).
The molecular dissection of TRIM25’s RNA-binding mechanism provides key insights into its antiviral activity
Lucía Álvarez, Kevin Haubrich, Louisa Iselin, Laurent Gillioz, Vincenzo Ruscica, Karine Lapouge, Sandra Augsten, Ina Huppertz, Nila Roy Choudhury, Bernd Simon, Pawel Masiewicz, Mathilde Lethier, Stephen Cusack, Katrin Rittinger, Frank Gabel, Alexander Leitner, Gracjan Michlewski, Matthias W. Hentze, Frédéric H. T. Allain, Alfredo Castello, Janosch Hennig. Nature Communications (2024) 15:8485.
A structural rationale for reversible vs irreversible amyloid fibril formation from a single protein
Lukas Frey, Jiangtao Zhou, Gea Cereghetti, Marco E. Weber, David Rhyner, Aditya Pokharna, Luca Wenchel, Harindranath Kadavath, Yiping Cao, Beat H. Meier, Matthias Peter, Jason Greenwald, Roland Riek & Raffaele Mezzenga. Nature Communications (2024) 15: 84448.
On the pH-dependence of α-synuclein amyloid polymorphism and the role of secondary nucleation in seed-based amyloid propagation
Lukas Frey, Dhiman Ghosh, Bilal M Qureshi, David Rhyner, Ricardo Guerrero-Ferreira, Aditya Pokharna, Witek Kwiatkowski, Tetiana Serdiuk, Paola Picotti, Roland Riek, Jason Greenwald. eLife (2024) 12:RP93562.
An evolutionarily conserved mechanism controls reversible amyloids of pyruvate kinase via pH-sensing regions
Gea Cereghetti, Vera M. Kissling, Lisa M. Koch, Alexandra Arm, Claudia C. Schmidt, Yannik Thüringer, Nicola Zamboni, Pavel Afanasyev, Miriam Linsenmeier, Cédric Eichmann, Sonja Kroschwald, Jiangtao Zhou, Yiping Cao, Dorota M. Pfizenmaier, Thomas Wiegand, Riccardo Cadalbert, Govind Gupta, Daniel Boehringer, Tuomas P.J. Knowles, Raffaele Mezzenga, Paolo Arosio, Roland Riek, Matthias Peter. Developmental Cell (2024), 59(14) 1876 - 1891.e7
Systematic identification of structure-specific protein–protein interactions
Aleš Holfeld, Dina Schuster, Fabian Sesterhenn, Patrick Stalder, Walther Haenseler, Inigo Barrio-Hernandez, Dhiman Ghosh, Jane Vowles, Sally A. Cowley, Luise Nagel, Basavraj Khanppnavar, Tetiana Serdiuk, Pedro Beltrao, Volodymyr M. Korkhov, Sean Munro, Roland Riek, Natalie de Souza, Paola Picotti. Molecular System Biology (2024) 20: 651-675.
A solid beta-sheet structure is formed at the surface of FUS droplets during aging
Leonidas Emmanouilidis, Ettore Bartalucci, Yelena Kan, Mahdiye Ijavi, Maria Escura Pérez, Pavel Afanasyev, Daniel Boehringer, Johannes Zehnder, Sapun H. Parekh, Mischa Bonn,Thomas C. T. Michaels, Thomas Wiegand, Frédéric H.-T. Allain. Nature Chemical Biology (2024) 20, 1044–1052.
Specific protein-RNA interactions are mostly preserved in biomolecular condensates
Tebbe de Vries, Mihajlo Novakovic, Yinan Ni, Izabela Smok, Clara Inghelram, Maria Bikaki, Chris P. Sarnowski, Yaning Han, Leonidas Emmanouilidis, Giacomo Padroni, Alexander Leitner, Frédéric H.-T. Allain. Science Advances 10, eadm7435 (2024)
In situ analysis of osmolyte mechanisms of proteome thermal stabilisation
Monika Pepelnjak, Britta Velten, Nicolas Näpflin, Tatjana von Rosen, Umberto Capasso Palmiero, Jeong Hoon Ko, Heather D. Maynard, Paolo Arosio, Eilika Weber-Ban, Natalie de Souza, Wolfgang Huber & Paola Picotti. Nature Chemical Biology (2024) 20, 1053-1065
Regulatory sites of CaM-sensitive adenylyl cyclase AC8 revealed by cryo-EM and structural proteomics
Basavraj Khanppnavar, Dina Schuster, Pia Lavriha, Federico Uliana, Merve Özel, Ved Mehta, Alexander Leitner, Paola Picotti, Volodymyr M Korkhov. EMBO Reports (2024) 25, 1513
The 100-protein NMR spectra dataset: A resource for biomolecular NMR data analysis
Piotr Klukowski, Fred F. Damberger, Frédéric H.-T. Allain, Hideo Iwai, Harindranath Kadavath, Theresa A. Ramelot, Gaetano T. Montelione, Roland Riek, Peter Güntert. Scientific Data (2024) 11: 30.
Glucose stress causes mRNA retention in nuclear Nab2 condensates
Stepanie Heinrich, Maria Hondele, Désirée Marchand, Carina Patrizia Derrer, Mostafa Zedan, Alexandra Oswald, Liliana Malinovska, Federico Uliana, Sarah Khawaja, Roberta Mancini, David Grunwald, Karsten Weis. Cell Reports 43 (1) 113593 (2024).
Integrative solution structure of PTBP1-IRES complex reveals strong compaction and ordering with residual conformational flexibility
Georg Dorn, Christoph Gmeiner, Tebbe de Vries, Emil Dedic, Mihajlo Novakovic, Fred F. Damberger, Christophe Maris, Esteban Finol, Chris P. Sarnowski, Joachim Kohlbrecher, Timothy J. Welsh, Sreenath Bolisetty, Raffaele Mezzenga, Ruedi Aebersold, Alexander Leitner, Maxim Yulikov, Gunnar Jeschke, Frédéric H.-T. Allain. Nature Communications 14, 6429 (2023).
Surface passivation method for the super-repellence of aqueous macromolecular condensates
Andrea Testa, Hendrik T. Spanke, Etienne Jambon-Puillet, Mohammad Yasir, Yanxia Feng, Andreas M. Küffner, Paolo Arosio, Eric R. Dufresne, Robert W. Style, and Aleksander A. Rebane. Langmuir 39, 14626–14637 (2023).
The interface of condensates of the hnRNPA1 low-complexity domain promotes formation of amyloid fibrils
Miriam Linsenmeier, Lenka Faltova, Chiara Morelli, Umberto Capasso Palmiero, Charlotte Seiffert, Andreas M. Küffner, Dorothea Pinotsi, Jiangtao Zhou, Raffaele Mezzenga & Paolo Arosio. Nature Chemistry 15, 1340–1349 (2023).
Global analysis of aging-related protein structural changes uncovers enzyme polymerization-based control of longevity
Jurgita Paukštytė, Rosa María López Cabezas, Yuehan Feng, Kai Tong, Daniela Schnyder, Ellinoora Elomaa, Pavlina Gregorova, Matteo Doudin, Meeri Särkkä, Jesse Sarameri, Alice Lippi, Helena Vihinen, Juhana Juutila, Anni Nieminen, Petri Törönen, Liisa Holm, Eija Jokitalo, Anita Krisko, Juha Huiskonen, L. Peter Sarin, Ville Hietakangas, Paola Picotti, Yves Barral, Juha Saarikangas. Molecular Cell 83 (18) 3360-3376.e11 (2023).
Super‐resolution microscopy reveals focal organization of ER‐associated Y‐complexes in mitosis
Rojapriyadharshini Gandhimathi, Dorothea Pinotsi, Mario Köhler, Jörg Mansfeld, Caroline Ashiono, Tatjana Kleele, Sumit Pawar, and Ulrike Kutay. EMBO Reports (2023) 24:e56766
Multivalency ensures persistence of a +TIP body at specialized microtubule ends
Sandro M. Meier, Ana-Maria Farcas, Anil Kumar, Mahdiye Ijavi, Robert T. Bill, Jörg Stelling, Eric Dufresne, Michel O. Steinmetz, Yves Barral. Nature Cell Biology (2023) 25, 56-67.
Dynamic arrest and aging of biomolecular condensates are modulated by low-complexity domains, RNA and biochemical activity
Miriam Linsenmeier, Maria Hondele, Fulvio Grigolato, Eleonora Secchi, Karsten Weis, Paolo Arosio. Nature Communications (2022) 13, 3030.
Non-specific adhesive forces between filaments and membraneless organelles
Thomas J. Böddeker, Kathryn A. Rosowski, Doris Berchtold, Leonidas Emmanouilidis, Yaning Han, Frédéric H. T. Allain, Robert W. Style, Lucas Pelkmans, and Eric R. Dufresne. Nature Physics (2022), 18, 571–578.
Whi3 mnemon association with endoplasmic reticulum membranes confines the memory of deceptive courtship to the yeast mother cell
Yasmin Lau, Henry Patrick Oamen, Marcel Grogg, Iuliia Parfenova, Juha Saarikangas, Robin Hannay, Richard Alan Nichols, Donald Hilvert, Yves Barral, Fabrice Caudron. Current Biology (2022), 32, (5), P963-974.E7
Reversible amyloids of pyruvate kinase couple cell metabolism and stress granule disassembly
Gea Cereghetti, Caroline Wilson-Zbinden, Vera M. Kissling, Maren Diether, Alexandra Arm, Haneul Yoo, Ilaria Piazza, Shady Saad, Paola Picotti, D. Allan Drummond, Uwe Sauer, Reinhard Dechant, Matthias Peter. Nature Cell Biology 23, 1085-1094 (2021).
Surface tensiometry of phase separated protein and polymer droplets by the sessile drop method
Mahdiye Ijavi, Robert W. Style, Leonidas Emmanouilidis, Anil Kumar, Sandro M. Meier, Alexandre L. Torzynski, Frédéric H. T. Allain, Yves Barral, Michel O. Steinmetz and Eric R. Dufresne. Soft Matter (2021) 17, 1655-1662