--- OA_place: publisher _id: '20741' abstract: - lang: eng text: "Life on Earth emerged when biomacromolecules were membrane-enclosed in a confined space where many essential chemical reactions were more likely to happen and thereby accelerate evolution. These kinds of membranes separated internal reactions from the outside chaos while staying flexible so that those primordial cells can move, adopt their shape and, most importantly, propagate. Such membrane plasticity still remains a defining feature of all modern cell types. This remarkable ability to change their shape is most prominently observed during their propagation (i.e., cell division). Throughout division, a cell undergoes drastic change in its shape, usually at the middle of the cell, pulling the two opposite membrane sides inward, closer to each other, and, finally, culminating in pinching off to separate the cell into two daughter cells. To achieve this, a cell needs to employ a protein machinery, usually termed divisome, that can coordinate all necessary intracellular processes with membrane remodelling and synthesis of other extracellular structures that decorate a cell. The focus of this dissertation is a membrane-remodelling FtsZ system that is present across all domains of life. FtsZ forms filaments that further self-organize into ring-like structures at the cell septum and together with other division proteins perform cell envelope synthesis and constriction. However, there are still knowledge gaps in our mechanistic understanding of division in both archaea and bacteria. My work presented in this dissertation centres around a simple yet not well understood question: How is the divisome positioned correctly at the mid-cell? To achieve the proper positioning, the divisome needs to (i) be recruited to the mid-cell and (ii) localized orthogonally to the long cell axis. I tackle these processes in two different systems by applying an in vitro biochemical bottom-up reconstitution approach. I use purified components of Haloferax volcanii and Escherichia coli divisome to explore how divisome is recruited to the mid-cell in archaea and how the Z-ring positions orthogonally to the long cell axis in bacteria, respectively. \r\n\r\nFirstly, I collaborate with archaeal cell and structural biologists to explore the assembly of early division proteins in two FtsZ-containing archaeon H. volcanii, a standard model system for understudied archaeal organisms. I particularly address the hierarchy of interactions that allow a tripartite complex formation (SepF-CdpB1-CdpB2) and how the hierarchy of interactions ultimately leads to the recruitment of FtsZ filaments to the septum. This part of work has been published in (Nußbaum et al., 2024). In collaboration with evolutionary biologists, I shed light on ancient features that archaeal divisome has retained to this day and also speculate on a property that it might have lost during the course of evolution. \r\n\r\nNext, I switch my attention to E. coli divisome. Particularly, I address the FtsZ’s intrinsic biophysical property that drives the Z-ring diameter, and thereby the perpendicular orientation of the Z-ring to the long cell axis based on suggested membrane curvature sensing mechanism (Vanhille-Campos et al., 2024). This property allows formation of different Z-ring diameters that match the variety of cell diameters present in prokaryotes. The results showcase that the distribution of charged amino acids in the intrinsically disordered linker at the C-terminus (CTL) of FtsZ is the major determining factor of Z-ring diameter with inter-CTL interactions as an underlying mechanism. \r\n\r\nFinally, I thoroughly explain the methodology I used to address the abovementioned projects, and I finish with a discussion on how early archaeal divisome assembly and curvature sensing mechanism in bacteria, at first sight unrelated topics, are interconnected and important groundwork for both fundamental and translational research. " acknowledged_ssus: - _id: Bio alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Marko full_name: Kojic, Marko id: 73e7ecd4-dc85-11ea-9058-88a16394b160 last_name: Kojic orcid: 0000-0001-7244-8128 citation: ama: Kojic M. Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria. 2025. doi:10.15479/AT-ISTA-20741 apa: Kojic, M. (2025). Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20741 chicago: Kojic, Marko. “Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20741. ieee: M. Kojic, “Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria,” Institute of Science and Technology Austria, 2025. ista: Kojic M. 2025. Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria. Institute of Science and Technology Austria. mla: Kojic, Marko. Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20741. short: M. Kojic, Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-12-09T13:08:11Z date_published: 2025-12-09T00:00:00Z date_updated: 2026-10-16T10:35:47Z day: '09' ddc: - '572' degree_awarded: PhD department: - _id: GradSch - _id: MaLo doi: 10.15479/AT-ISTA-20741 file: - access_level: closed checksum: a3643d07e93134b2490a566b02a4517d content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: mkojic date_created: 2025-12-10T13:09:58Z date_updated: 2025-12-10T13:09:58Z file_id: '20774' file_name: 2025_marko_kojic_thesis.docx file_size: 142876975 relation: source_file - access_level: open_access checksum: 0a096f0af6ccc3a8329d5bb8797ad533 content_type: application/pdf creator: mkojic date_created: 2025-12-10T13:09:38Z date_updated: 2025-12-10T13:09:38Z file_id: '20775' file_name: 2025_marko_kojic_thesis.pdf file_size: 8597045 relation: main_file success: 1 file_date_updated: 2025-12-10T13:09:58Z fulldoi: https://doi.org/10.15479/AT-ISTA-20741 has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '12' oa: 1 oa_version: Published Version publication_identifier: isbn: - 978-3-99078-073-2 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '15118' relation: part_of_dissertation status: public status: public supervisor: - first_name: Martin full_name: Loose, Martin id: 462D4284-F248-11E8-B48F-1D18A9856A87 last_name: Loose orcid: 0000-0001-7309-9724 title: Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: publisher OA_type: gold _id: '19393' abstract: - lang: eng text: "Rotations constitute one of the fundamental symmetries in physics, characterized by their intricate group structure and infinite dimensional representations. In contrast to classical rotations, quantum mechanics unveils the SO(3) symmetry group structure, manifesting in phenomena without classical counterparts, from angular momentum quantization to non-trivial addition of angular momenta.\r\nWhile most studies of topological physics have focused on two-band systems, the SO(3) symmetry group of quantum rotors offers an inherently more complex platform with unprecedented possibilities for exploring topological phenomena. Despite their ubiquity in nature– from molecules to nanorotors– their potential for hosting topological phases has remained largely unexamined.\r\nIn this thesis, we mainly focus on periodically driven linear molecules as a prototype for studying topological phenomena in quantum rotors. Recent technological advances in coherent control of molecules, particularly through precisely shaped laser pulses, have made it possible to investigate linear rotors in the context of topology. While planar rotors have received some attention in recent years, threedimensional rotors–particularly linear molecules–harbor substantially richer topological phenomena due to their non-abelian nature and their additional angular degrees of freedom. We demonstrate that these systems can host novel edge states and topological features fundamentally impossible in planar systems.\r\nWe begin by establishing a theoretical bridge between periodically kicked rotors and \"crystalline\" lattices in angular momentum space. Using non-interacting linear molecules as our primary example, we show how quantum interference and revival patterns lead to the possibility to simulate band models with arbitrary number of bands N. While our framework applies to various quantum rotors, including nanorotors and kicked Bose-Einstein condensates, linear\r\nmolecules provide an ideal experimental platform due to their abovementioned precise controllability.\r\nThe core of this work examines adiabatic dynamics of 3D quantum rotors, establishing a geometric framework based on the Euler class to characterize its non-abelian topology. The non-Hermitian nature of the system enables novel braiding behaviors and topological transitions impossible in static systems, leading to an anomalous Dirac string phase with edge states in each gap, even though the Berry phases are all zero. These features can be directly observed through\r\nmolecular alignment and rotational level populations.\r\nThese findings establish quantum rotors as an alternative platform for studying multi-band topological physics, while suggesting practical implementations for quantum computation where topological protection could offer natural resilience against decoherence. The rich structure of three-dimensional rotation groups, combined with the tunability of topological features through driving parameters, makes this platform particularly valuable for exploring fundamental\r\nphysics and developing quantum technologies." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Volker full_name: Karle, Volker id: D7C012AE-D7ED-11E9-95E8-1EC5E5697425 last_name: Karle orcid: 0000-0002-6963-0129 citation: ama: Karle V. Non-equilibrium topological phases with periodically driven molecules and quantum rotors. 2025. doi:10.15479/AT-ISTA-19393 apa: Karle, V. (2025). Non-equilibrium topological phases with periodically driven molecules and quantum rotors. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-19393 chicago: Karle, Volker. “Non-Equilibrium Topological Phases with Periodically Driven Molecules and Quantum Rotors.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19393. ieee: V. Karle, “Non-equilibrium topological phases with periodically driven molecules and quantum rotors,” Institute of Science and Technology Austria, 2025. ista: Karle V. 2025. Non-equilibrium topological phases with periodically driven molecules and quantum rotors. Institute of Science and Technology Austria. mla: Karle, Volker. Non-Equilibrium Topological Phases with Periodically Driven Molecules and Quantum Rotors. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-19393. short: V. Karle, Non-Equilibrium Topological Phases with Periodically Driven Molecules and Quantum Rotors, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-03-12T13:04:59Z date_published: 2025-03-13T00:00:00Z date_updated: 2026-10-16T12:16:52Z day: '13' ddc: - '530' degree_awarded: PhD department: - _id: GradSch - _id: MiLe doi: 10.15479/AT-ISTA-19393 file: - access_level: open_access checksum: d3ab25782c7ea38ce9910e57d25f6733 content_type: application/pdf creator: vkarle date_created: 2025-03-12T12:56:46Z date_updated: 2025-03-12T12:56:46Z file_id: '19394' file_name: thesis_final.pdf file_size: 10625143 relation: main_file success: 1 - access_level: closed checksum: 3ccfb0aeba4d860d71e18347913034e4 content_type: application/zip creator: vkarle date_created: 2025-03-13T13:15:10Z date_updated: 2025-03-20T08:02:35Z file_id: '19400' file_name: thesis.zip file_size: 23119202 relation: source_file file_date_updated: 2025-03-20T08:02:35Z fulldoi: https://doi.org/10.15479/AT-ISTA-19393 has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-nd/4.0/ month: '03' oa: 1 oa_version: Published Version page: '192' publication_identifier: eissn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '12788' relation: part_of_dissertation status: public - id: '9903' relation: part_of_dissertation status: public - id: '19425' relation: part_of_dissertation status: public - id: '14851' relation: part_of_dissertation status: public - id: '15004' relation: part_of_dissertation status: public status: public supervisor: - first_name: Mikhail full_name: Lemeshko, Mikhail id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 title: Non-equilibrium topological phases with periodically driven molecules and quantum rotors tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '18879' abstract: - lang: eng text: 'Our brain has remarkable computational power, generating sophisticated behaviors, storing memories over an individual’s lifetime, and producing higher cognitive functions. However, little of our neuroscience knowledge covers the human brain. Is this organ truly unique, or is it a scaled version of the extensively studied rodent brain? Combining multicellular patch-clamp recording with expansion-based superresolution microscopy and full-scale modeling, we determined the cellular and microcircuit properties of the human hippocampal CA3 region, a fundamental circuit for memory storage. In contrast to neocortical networks, human hippocampal CA3 displayed sparse connectivity, providing a circuit architecture that maximizes associational power. Human synapses showed unique reliability, high precision, and long integration times, exhibiting both species- and circuit-specific properties. Together with expanded neuronal numbers, these circuit characteristics greatly enhanced the memory storage capacity of CA3. Our results reveal distinct microcircuit properties of the human hippocampus and begin to unravel the inner workings of our most complex organ. ' acknowledged_ssus: - _id: Bio - _id: PreCl - _id: LifeSc - _id: M-Shop - _id: ScienComp acknowledgement: We thank Florian Marr for excellent technical assistance, Christina Altmutter and Julia Flor for technical support, Alois Schlögl for programming, Todor Asenov for development of the transportation box for human brain tissue, Tim Vogels for guidance on simulations, Marcus Huber for mathematical advice, Walter Kaufmann for assistance with handling frozen tissue, and Eleftheria Kralli-Beller for manuscript editing. This research was supported by the Scientific Services Units (SSUs) of ISTA, and we are grateful for assistance from Christoph Sommer and the Imaging and Optics Facility, Preclinical Facility, Lab Support Facility, Miba Machine Shop, and Scientific Computing. We are particularly grateful to the patient donors for their support of this project and also acknowledge the excellent support of the Medical University of Vienna Department of Neurosurgery staff; Romana Hoeftberger and the Division of Neuropathology and Neurochemistry; Gregor Kasprian and the Division of Neuroradiology and Musculoskeletal Radiology; and Christoph Baumgartner, Martha Feucht, and Ekaterina Pataraia for their clinical care of the patients included in this study. We thank Laura Jonkman, the NABCA biobank, and postmortem brain sample donors for their support of this research. The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (advanced grant no. 692692 to P.J. and Marie Skłodowska-Curie Actions Individual Fellowship no. 101026635 to J.F.W.), the Austrian Science Fund (FWF; grant PAT 4178023 to P.J. and grant DK W1232 to M.R.T. and J.G.D.), the Austrian Academy of Sciences (DOC fellowship 26137 to M.R.T.), and a NOMIS-ISTA fellowship (to A.N.-O.). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Jake full_name: Watson, Jake id: 63836096-4690-11EA-BD4E-32803DDC885E last_name: Watson orcid: 0000-0002-8698-3823 - first_name: Victor M full_name: Vargas Barroso, Victor M id: 2F55A9DE-F248-11E8-B48F-1D18A9856A87 last_name: Vargas Barroso - first_name: Rebecca full_name: Morse, Rebecca id: ceb89ae7-dc8d-11ea-abe3-da3301d0eab4 last_name: Morse - first_name: Andrea C full_name: Navas Olivé, Andrea C id: 739d26c9-52e8-11ee-8d72-f14d3893b4ce last_name: Navas Olivé orcid: 0000-0002-9280-8597 - first_name: Mojtaba full_name: Tavakoli, Mojtaba id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87 last_name: Tavakoli orcid: 0000-0002-7667-6854 - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Matthias full_name: Tomschik, Matthias last_name: Tomschik - first_name: Karl full_name: Rössler, Karl last_name: Rössler - first_name: Peter M full_name: Jonas, Peter M id: 353C1B58-F248-11E8-B48F-1D18A9856A87 last_name: Jonas orcid: 0000-0001-5001-4804 citation: ama: Watson J, Vargas Barroso VM, Morse R, et al. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. Cell. 2025;188(2):501-514.e18. doi:10.1016/j.cell.2024.11.022 apa: Watson, J., Vargas Barroso, V. M., Morse, R., Navas Olivé, A. C., Tavakoli, M., Danzl, J. G., … Jonas, P. M. (2025). Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. Cell. Cell Press. https://doi.org/10.1016/j.cell.2024.11.022 chicago: Watson, Jake, Victor M Vargas Barroso, Rebecca Morse, Andrea C Navas Olivé, Mojtaba Tavakoli, Johann G Danzl, Matthias Tomschik, Karl Rössler, and Peter M Jonas. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” Cell. Cell Press, 2025. https://doi.org/10.1016/j.cell.2024.11.022. ieee: J. Watson et al., “Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory,” Cell, vol. 188, no. 2. Cell Press, p. 501–514.e18, 2025. ista: Watson J, Vargas Barroso VM, Morse R, Navas Olivé AC, Tavakoli M, Danzl JG, Tomschik M, Rössler K, Jonas PM. 2025. Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory. Cell. 188(2), 501–514.e18. mla: Watson, Jake, et al. “Human Hippocampal CA3 Uses Specific Functional Connectivity Rules for Efficient Associative Memory.” Cell, vol. 188, no. 2, Cell Press, 2025, p. 501–514.e18, doi:10.1016/j.cell.2024.11.022. short: J. Watson, V.M. Vargas Barroso, R. Morse, A.C. Navas Olivé, M. Tavakoli, J.G. Danzl, M. Tomschik, K. Rössler, P.M. Jonas, Cell 188 (2025) 501–514.e18. corr_author: '1' date_created: 2025-01-26T23:01:49Z date_published: 2025-01-23T00:00:00Z date_updated: 2026-10-20T08:20:04Z day: '23' ddc: - '570' department: - _id: JoDa - _id: PeJo - _id: GradSch doi: 10.1016/j.cell.2024.11.022 ec_funded: 1 external_id: isi: - '001408395600001' pmid: - '39667938' file: - access_level: open_access checksum: d5a818edc32d249cdf75e1bb5b70a4b7 content_type: application/pdf creator: dernst date_created: 2025-01-27T08:46:33Z date_updated: 2025-01-27T08:46:33Z file_id: '18884' file_name: 2025_Cell_Watson.pdf file_size: 14082343 relation: main_file success: 1 file_date_updated: 2025-01-27T08:46:33Z fulldoi: https://doi.org/10.1016/j.cell.2024.11.022 has_accepted_license: '1' intvolume: ' 188' isi: 1 issue: '2' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 501-514.e18 pmid: 1 project: - _id: 25B7EB9E-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '692692' name: Biophysics and circuit function of a giant cortical glutamatergic synapse - _id: fc2be41b-9c52-11eb-aca3-faa90aa144e9 call_identifier: H2020 grant_number: '101026635' name: Synaptic computations of the hippocampal CA3 circuitry - _id: 6285a163-2b32-11ec-9570-8e204ca2dba5 grant_number: '26137' name: Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy - _id: 2548AE96-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: W1232 name: Molecular Drug Targets - _id: 8d9195e9-16d5-11f0-9cad-d075be887a1e grant_number: PAT 4178023 name: Synaptic networks of human brain - _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A name: NOMIS Fellowship Program publication: Cell publication_identifier: eissn: - 1097-4172 issn: - 0092-8674 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: record: - id: '18688' relation: earlier_version status: public scopus_import: '1' status: public title: Human hippocampal CA3 uses specific functional connectivity rules for efficient associative memory tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 188 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19404' abstract: - lang: eng text: Cell migration is a fundamental process during embryonic development. Most studies in vivo have focused on the migration of cells using the extracellular matrix (ECM) as their substrate for migration. In contrast, much less is known about how cells migrate on other cells, as found in early embryos when the ECM has not yet formed. Here, we show that lateral mesendoderm (LME) cells in the early zebrafish gastrula use the ectoderm as their substrate for migration. We show that the lateral ectoderm is permissive for the animal-pole-directed migration of LME cells, while the ectoderm at the animal pole halts it. These differences in permissiveness depend on the lateral ectoderm being more cohesive than the animal ectoderm, a property controlled by bone morphogenetic protein (BMP) signaling within the ectoderm. Collectively, these findings identify ectoderm tissue cohesion as one critical factor in regulating LME migration during zebrafish gastrulation. acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: ScienComp acknowledgement: 'We are grateful to the colleagues who contributed to this work with discussions, technical advice, and feedback on the manuscript: Irene Steccari, David Labrousse Arias and the other members of the Heisenberg lab, Nicole Amberg, Florian Pauler, Nicoletta Petridou, Elena Scarpa, and Edouard Hannezo. We also thank the Imaging and Optics Facility, the Life Science Facility, and the Scientific Computing Unit at ISTA for support. The Next Generation Sequencing Facility at Vienna BioCenter Core Facilities performed the RNA-seq for animal and lateral ectoderm. D.B.B. was supported by the NOMIS Foundation as a NOMIS Fellow and by an EMBO Postdoctoral Fellowship (ALTF 343-2022). S. Tavano was supported by an EMBO Postdoctoral Fellowship (ALTF 1159-2018).' article_number: '115387' article_processing_charge: Yes article_type: original author: - first_name: Ste full_name: Tavano, Ste id: 2F162F0C-F248-11E8-B48F-1D18A9856A87 last_name: Tavano orcid: 0000-0001-9970-7804 - first_name: David full_name: Brückner, David id: e1e86031-6537-11eb-953a-f7ab92be508d last_name: Brückner orcid: 0000-0001-7205-2975 - first_name: Saren full_name: Tasciyan, Saren id: 4323B49C-F248-11E8-B48F-1D18A9856A87 last_name: Tasciyan orcid: 0000-0003-1671-393X - first_name: Xin full_name: Tong, Xin id: 50F65CDC-AA30-11E9-A72B-8A12E6697425 last_name: Tong - first_name: Roland full_name: Kardos, Roland id: 4039350E-F248-11E8-B48F-1D18A9856A87 last_name: Kardos - first_name: Alexandra full_name: Schauer, Alexandra id: 30A536BA-F248-11E8-B48F-1D18A9856A87 last_name: Schauer orcid: 0000-0001-7659-9142 - first_name: Robert full_name: Hauschild, Robert id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87 last_name: Hauschild orcid: 0000-0001-9843-3522 - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 citation: ama: Tavano S, Brückner D, Tasciyan S, et al. BMP-dependent patterning of ectoderm tissue material properties modulates lateral mesendoderm cell migration during early zebrafish gastrulation. Cell Reports. 2025;44(3). doi:10.1016/j.celrep.2025.115387 apa: Tavano, S., Brückner, D., Tasciyan, S., Tong, X., Kardos, R., Schauer, A., … Heisenberg, C.-P. J. (2025). BMP-dependent patterning of ectoderm tissue material properties modulates lateral mesendoderm cell migration during early zebrafish gastrulation. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2025.115387 chicago: Tavano, Ste, David Brückner, Saren Tasciyan, Xin Tong, Roland Kardos, Alexandra Schauer, Robert Hauschild, and Carl-Philipp J Heisenberg. “BMP-Dependent Patterning of Ectoderm Tissue Material Properties Modulates Lateral Mesendoderm Cell Migration during Early Zebrafish Gastrulation.” Cell Reports. Cell Press, 2025. https://doi.org/10.1016/j.celrep.2025.115387. ieee: S. Tavano et al., “BMP-dependent patterning of ectoderm tissue material properties modulates lateral mesendoderm cell migration during early zebrafish gastrulation,” Cell Reports, vol. 44, no. 3. Cell Press, 2025. ista: Tavano S, Brückner D, Tasciyan S, Tong X, Kardos R, Schauer A, Hauschild R, Heisenberg C-PJ. 2025. BMP-dependent patterning of ectoderm tissue material properties modulates lateral mesendoderm cell migration during early zebrafish gastrulation. Cell Reports. 44(3), 115387. mla: Tavano, Ste, et al. “BMP-Dependent Patterning of Ectoderm Tissue Material Properties Modulates Lateral Mesendoderm Cell Migration during Early Zebrafish Gastrulation.” Cell Reports, vol. 44, no. 3, 115387, Cell Press, 2025, doi:10.1016/j.celrep.2025.115387. short: S. Tavano, D. Brückner, S. Tasciyan, X. Tong, R. Kardos, A. Schauer, R. Hauschild, C.-P.J. Heisenberg, Cell Reports 44 (2025). corr_author: '1' date_created: 2025-03-16T23:01:24Z date_published: 2025-03-25T00:00:00Z date_updated: 2026-10-20T08:20:45Z day: '25' ddc: - '570' department: - _id: CaHe - _id: EdHa - _id: MiSi - _id: Bio doi: 10.1016/j.celrep.2025.115387 external_id: isi: - '001443652700001' pmid: - '40057955' file: - access_level: open_access checksum: 57e05dd1598c807af0afdb32cec039d3 content_type: application/pdf creator: dernst date_created: 2025-03-17T10:26:54Z date_updated: 2025-03-17T10:26:54Z file_id: '19413' file_name: 2025_CellReports_Tavano.pdf file_size: 9067797 relation: main_file success: 1 file_date_updated: 2025-03-17T10:26:54Z fulldoi: https://doi.org/10.1016/j.celrep.2025.115387 has_accepted_license: '1' intvolume: ' 44' isi: 1 issue: '3' language: - iso: eng month: '03' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 34e2a5b5-11ca-11ed-8bc3-b2265616ef0b grant_number: ALTF 343-2022 name: A mechano-chemical theory for stem cell fate decisions in organoid development - _id: 269CD5C4-B435-11E9-9278-68D0E5697425 grant_number: ALTF 1159-2018 name: 'Mechanosensation in cell migration: the role of friction forces in cell polarization and directed migration' publication: Cell Reports publication_identifier: eissn: - 2211-1247 issn: - 2639-1856 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: BMP-dependent patterning of ectoderm tissue material properties modulates lateral mesendoderm cell migration during early zebrafish gastrulation tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 44 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '19602' abstract: - lang: eng text: N4-methylcytosine (4mC) is an important DNA modification in prokaryotes, but its relevance and even its presence in eukaryotes have been mysterious. Here we show that spermatogenesis in the liverwort Marchantia polymorpha involves two waves of extensive DNA methylation reprogramming. First, 5-methylcytosine (5mC) expands from transposons to the entire genome. Notably, the second wave installs 4mC throughout genic regions, covering over 50% of CG sites in sperm. 4mC requires a methyltransferase (MpDN4MT1a) that is specifically expressed during late spermiogenesis. Deletion of MpDN4MT1a alters the sperm transcriptome, causes sperm swimming and fertility defects, and impairs post-fertilization development. Our results reveal extensive 4mC in a eukaryote, identify a family of eukaryotic methyltransferases, and elucidate the biological functions of 4mC in reproductive development, thereby expanding the repertoire of functional eukaryotic DNA modifications. acknowledged_ssus: - _id: Bio - _id: ScienComp acknowledgement: We thank Sir Richard Roberts (NEB) for the kind gift of anti-4mC antibodies. We are also grateful to the JIC Small Molecule Mass Spectrometry (Lionel Hill) and Chemistry (Martin Rejzek) platforms as well as the High Resolution Metabolomics Laboratory (Manfred Beckmann, Aberystwyth University) for their assistance with LC-MS. Additionally, we acknowledge the assistance of the JIC Bioimaging Facility and ISTA Imaging and Optics Facility for microscopy. Finally, we appreciate the High Performance Computing resources provided by the ISTA Scientific Computing Facility and Norwich BioScience Institute Partnership Computing Infrastructure. This work was funded by a Sainsbury Charitable Foundation studentship (J.W.), a UKRI-BBSRC Doctoral Training Partnerships studentship (BBT0087171 to J.T.), a European Research Council Starting Grant (“SexMeth” 804981 to J.W., S.X., and X.F.), two Biotechnology and Biological Sciences Research Council (BBSRC) grants (BBS0096201 and BBP0135111 to J.Z., M.V., and X.F.), an EMBO Long Term Fellowship (Y.L.), an ISTA Bridge Fellowship (S.X.), and ISTA core funding (Y.Y. and X.F.). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: James full_name: Walker, James last_name: Walker - first_name: Jingyi full_name: Zhang, Jingyi last_name: Zhang - first_name: Yalin full_name: Liu, Yalin last_name: Liu - first_name: Shujuan full_name: Xu, Shujuan id: 9724dd9d-f591-11ee-bd51-e97ed0652286 last_name: Xu - first_name: Yiming full_name: Yu, Yiming id: 318e643b-8b61-11ed-b69e-aafa103ec8dd last_name: Yu orcid: 0000-0002-9919-7282 - first_name: Martin full_name: Vickers, Martin last_name: Vickers - first_name: Weizhi full_name: Ouyang, Weizhi id: fec73395-8b60-11ed-b69e-927fda99c743 last_name: Ouyang - first_name: Judit full_name: Tálas, Judit last_name: Tálas - first_name: Liam full_name: Dolan, Liam last_name: Dolan - first_name: Keiji full_name: Nakajima, Keiji last_name: Nakajima - first_name: Xiaoqi full_name: Feng, Xiaoqi id: e0164712-22ee-11ed-b12a-d80fcdf35958 last_name: Feng orcid: 0000-0002-4008-1234 citation: ama: Walker J, Zhang J, Liu Y, et al. Extensive N4 cytosine methylation is essential for Marchantia sperm function. Cell. 2025;188(11):2890-2906.e14. doi:10.1016/j.cell.2025.03.014 apa: Walker, J., Zhang, J., Liu, Y., Xu, S., Yu, Y., Vickers, M., … Feng, X. (2025). Extensive N4 cytosine methylation is essential for Marchantia sperm function. Cell. Cell Press. https://doi.org/10.1016/j.cell.2025.03.014 chicago: Walker, James, Jingyi Zhang, Yalin Liu, Shujuan Xu, Yiming Yu, Martin Vickers, Weizhi Ouyang, et al. “Extensive N4 Cytosine Methylation Is Essential for Marchantia Sperm Function.” Cell. Cell Press, 2025. https://doi.org/10.1016/j.cell.2025.03.014. ieee: J. Walker et al., “Extensive N4 cytosine methylation is essential for Marchantia sperm function,” Cell, vol. 188, no. 11. Cell Press, p. 2890–2906.e14, 2025. ista: Walker J, Zhang J, Liu Y, Xu S, Yu Y, Vickers M, Ouyang W, Tálas J, Dolan L, Nakajima K, Feng X. 2025. Extensive N4 cytosine methylation is essential for Marchantia sperm function. Cell. 188(11), 2890–2906.e14. mla: Walker, James, et al. “Extensive N4 Cytosine Methylation Is Essential for Marchantia Sperm Function.” Cell, vol. 188, no. 11, Cell Press, 2025, p. 2890–2906.e14, doi:10.1016/j.cell.2025.03.014. short: J. Walker, J. Zhang, Y. Liu, S. Xu, Y. Yu, M. Vickers, W. Ouyang, J. Tálas, L. Dolan, K. Nakajima, X. Feng, Cell 188 (2025) 2890–2906.e14. corr_author: '1' date_created: 2025-04-20T22:01:28Z date_published: 2025-05-29T00:00:00Z date_updated: 2026-10-20T08:22:21Z day: '29' ddc: - '570' department: - _id: XiFe doi: 10.1016/j.cell.2025.03.014 ec_funded: 1 external_id: isi: - '001504744800006' pmid: - '40209706' file: - access_level: open_access checksum: 0dcc2feb368dfe7c4890093366b2dacb content_type: application/pdf creator: dernst date_created: 2025-12-29T13:40:32Z date_updated: 2025-12-29T13:40:32Z file_id: '20871' file_name: 2025_Cell_Walker.pdf file_size: 11622960 relation: main_file success: 1 file_date_updated: 2025-12-29T13:40:32Z fulldoi: https://doi.org/10.1016/j.cell.2025.03.014 has_accepted_license: '1' intvolume: ' 188' isi: 1 issue: '11' language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 2890-2906.e14 pmid: 1 project: - _id: bdb51a6e-d553-11ed-ba76-c2025f3d5725 call_identifier: H2020 grant_number: '804981' name: Establishment, modulation and inheritance of sexual lineage specific DNA methylation in plants publication: Cell publication_identifier: eissn: - 1097-4172 issn: - 0092-8674 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: link: - description: News on ISTA website relation: press_release url: https://ista.ac.at/en/news/from-bacterial-immunity-to-plant-sex/ scopus_import: '1' status: public title: Extensive N4 cytosine methylation is essential for Marchantia sperm function tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 188 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '19703' abstract: - lang: eng text: An enlarged brain underlies the complex central nervous system of vertebrates. The dramatic expansion of the brain that diverges its shape from the spinal cord follows neural tube closure during embryonic development. Here, we show that this differential deformation is encoded by a pre-pattern of tissue material properties in chicken embryos. Using magnetic droplets and atomic force microscopy, we demonstrate that the dorsal hindbrain is more fluid than the dorsal spinal cord, resulting in a thinning versus a resisting response to increasing lumen pressure, respectively. The dorsal hindbrain exhibits reduced apical actin and a disorganized laminin matrix consistent with tissue fluidization. Blocking the activity of neural-crest-associated matrix metalloproteinases inhibits hindbrain expansion. Transplanting dorsal hindbrain cells to the spinal cord can locally create an expanded brain-like morphology in some cases. Our findings raise questions in vertebrate head evolution and suggest a general role of mechanical pre-patterning in sculpting epithelial tubes. acknowledgement: 'We thank A. Dimitracopoulos, K. Kawaguchi, J. Vidigueira, B. Baum, I. McLaren, D. St Johnston, and members of the Buckley, Scarpa, Steventon, Kawaguchi, and Xiong labs for technical assistance and constructive feedback. We thank Ryan Greenhalgh for methods developed to obtain fluidity values from AFM data. We thank Nicola Lawrence, Alex Sossick, and Sargon Gross-Thebing from the Gurdon Institute Imaging Facility for microscopy support. Funding: this work was supported by a Wellcome Trust/Royal Society Sir Henry Dale Fellowship (215439/Z/19/Z) and UKRI-EPSRC Frontier Research Grant (EP/X023761/1, originally selected as an ERC Starting Grant) to F.X.; an ERC Consolidator Grant (772426), ERC Synergy Grant 101118729 UNFOLD, and Alexander von Humboldt Professorship ( Alexander von Humboldt Foundation) to K.F.; and an ERC Starting Grant (851288) to E.H.' article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Susannah B.P. full_name: Mclaren, Susannah B.P. last_name: Mclaren - first_name: Shi-lei full_name: Xue, Shi-lei id: 31D2C804-F248-11E8-B48F-1D18A9856A87 last_name: Xue - first_name: Siyuan full_name: Ding, Siyuan last_name: Ding - first_name: Alexander K. full_name: Winkel, Alexander K. last_name: Winkel - first_name: Oscar full_name: Baldwin, Oscar last_name: Baldwin - first_name: Shreya full_name: Dwarakacherla, Shreya last_name: Dwarakacherla - first_name: Kristian full_name: Franze, Kristian last_name: Franze - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 - first_name: Fengzhu full_name: Xiong, Fengzhu last_name: Xiong citation: ama: Mclaren SBP, Xue S, Ding S, et al. Differential tissue deformability underlies fluid pressure-driven shape divergence of the avian embryonic brain and spinal cord. Developmental Cell. 2025;60(17):2237-2247.e4. doi:10.1016/j.devcel.2025.04.010 apa: Mclaren, S. B. P., Xue, S., Ding, S., Winkel, A. K., Baldwin, O., Dwarakacherla, S., … Xiong, F. (2025). Differential tissue deformability underlies fluid pressure-driven shape divergence of the avian embryonic brain and spinal cord. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2025.04.010 chicago: Mclaren, Susannah B.P., Shi-lei Xue, Siyuan Ding, Alexander K. Winkel, Oscar Baldwin, Shreya Dwarakacherla, Kristian Franze, Edouard B Hannezo, and Fengzhu Xiong. “Differential Tissue Deformability Underlies Fluid Pressure-Driven Shape Divergence of the Avian Embryonic Brain and Spinal Cord.” Developmental Cell. Cell Press, 2025. https://doi.org/10.1016/j.devcel.2025.04.010. ieee: S. B. P. Mclaren et al., “Differential tissue deformability underlies fluid pressure-driven shape divergence of the avian embryonic brain and spinal cord,” Developmental Cell, vol. 60, no. 17. Cell Press, p. 2237–2247.e4, 2025. ista: Mclaren SBP, Xue S, Ding S, Winkel AK, Baldwin O, Dwarakacherla S, Franze K, Hannezo EB, Xiong F. 2025. Differential tissue deformability underlies fluid pressure-driven shape divergence of the avian embryonic brain and spinal cord. Developmental Cell. 60(17), 2237–2247.e4. mla: Mclaren, Susannah B. P., et al. “Differential Tissue Deformability Underlies Fluid Pressure-Driven Shape Divergence of the Avian Embryonic Brain and Spinal Cord.” Developmental Cell, vol. 60, no. 17, Cell Press, 2025, p. 2237–2247.e4, doi:10.1016/j.devcel.2025.04.010. short: S.B.P. Mclaren, S. Xue, S. Ding, A.K. Winkel, O. Baldwin, S. Dwarakacherla, K. Franze, E.B. Hannezo, F. Xiong, Developmental Cell 60 (2025) 2237–2247.e4. date_created: 2025-05-18T22:02:50Z date_published: 2025-09-08T00:00:00Z date_updated: 2026-10-20T08:25:00Z day: '08' ddc: - '570' department: - _id: EdHa doi: 10.1016/j.devcel.2025.04.010 ec_funded: 1 external_id: isi: - '001570502100005' pmid: - '40347948' file: - access_level: open_access checksum: 1ca6f0822c1cbd430686d5e2a4f96401 content_type: application/pdf creator: dernst date_created: 2025-12-29T13:45:05Z date_updated: 2025-12-29T13:45:05Z file_id: '20872' file_name: 2025_DevelopmentalCell_McLaren.pdf file_size: 12564806 relation: main_file success: 1 file_date_updated: 2025-12-29T13:45:05Z fulldoi: https://doi.org/10.1016/j.devcel.2025.04.010 has_accepted_license: '1' intvolume: ' 60' isi: 1 issue: '17' language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: 2237-2247.e4 pmid: 1 project: - _id: 05943252-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '851288' name: Design Principles of Branching Morphogenesis publication: Developmental Cell publication_identifier: eissn: - 1878-1551 issn: - 1534-5807 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Differential tissue deformability underlies fluid pressure-driven shape divergence of the avian embryonic brain and spinal cord tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 60 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20143' abstract: - lang: eng text: Bacteria and archaea deploy diverse antiviral defense systems, many of which remain mechanistically uncharacterized. Here, we characterize Kiwa, a widespread two-component system composed of the transmembrane sensor KwaA and the DNA-binding effector KwaB. Cryogenic electron microscopy (cryo-EM) analysis reveals that KwaA and KwaB assemble into a large, membrane-associated supercomplex. Upon phage binding, KwaA senses infection at the membrane, leading to KwaB binding of ejected phage DNA and inhibition of replication and late transcription, without inducing host cell death. Although KwaB can bind DNA independently, its antiviral activity requires association with KwaA, suggesting spatial or conformational regulation. We show that the phage-encoded DNA-mimic protein Gam directly binds and inhibits KwaB but that co-expression with the Gam-targeted RecBCD system restores protection by Kiwa. Our findings support a model in which Kiwa coordinates membrane-associated detection of phage infection with downstream DNA binding by its effector, forming a spatially coordinated antiviral mechanism. acknowledgement: We thank Rotem Sorek (Weizmann Institute of Science) for the Lambda Gam mutant and Ian Molineux (University of Texas) for T4Δgp2. We thank You Yu (Zhejiang University-University of Edinburgh Institute) and J. De La Cruz (MSK) for assistance with cryo-EM data collection and Lyuqin Zheng (MSK) for discussions on structural analysis. We thank the Imaging and Microscopy Centre (IMC) at the University of Southampton. This work was supported by Royal Society grant RGS\R2\222312 to F.L.N.; Welch Foundation grant F-1938 and National Institutes of Health R35GM138348 to D.W.T.; Wessex Medical Research Innovation grant AE06 to T.A.; and NIH grant GM145888 and Maloris Foundation and Memorial Sloan-Kettering Core grant (P30-CA008748) to D.J.P. In addition to MSKCC cryo-EM resources, some of this work was performed at the National Center for CryoEM Access and Training (NCCAT) and the Simons Electron Microscopy Center located at the New York Structural Biology Center, supported by the NIH Common Fund Transformative High Resolution Cryo-Electron Microscopy program (U24 GM129539) and Simons Foundation (SF349247) and NY State Assembly grants. This research used NSLS-II MX X-ray User Resources (FMX) of the National Synchrotron Light Source II, operated for the DOE Office of Science by Brookhaven National Laboratory under contract no. DE-SC0012704. The Center for BioMolecular Structure (CBMS) is primarily supported by the NIH, the National Institute of General Medical Sciences (NIGMS) through a Center Core P30 Grant (P30GM133893), and by the DOE Office of Biological and Environmental Research (KP1605010). R.K. and E.V.K. are supported by the Intramural Research Program of the NIH (National Library of Medicine). article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Zhiying full_name: Zhang, Zhiying last_name: Zhang - first_name: Thomas C. full_name: Todeschini, Thomas C. last_name: Todeschini - first_name: Yi full_name: Wu, Yi last_name: Wu - first_name: Roman full_name: Kogay, Roman last_name: Kogay - first_name: Ameena full_name: Naji, Ameena last_name: Naji - first_name: Joaquin full_name: Cardenas Rodriguez, Joaquin last_name: Cardenas Rodriguez - first_name: Rupavidhya full_name: Mondi, Rupavidhya last_name: Mondi - first_name: Daniel full_name: Kaganovich, Daniel last_name: Kaganovich - first_name: David W. full_name: Taylor, David W. last_name: Taylor - first_name: Jack Peter Kelly full_name: Bravo, Jack Peter Kelly id: 96aecfa5-8931-11ee-af30-aa6a5d6eee0e last_name: Bravo orcid: 0000-0003-0456-0753 - first_name: Marianna full_name: Teplova, Marianna last_name: Teplova - first_name: Triana full_name: Amen, Triana last_name: Amen - first_name: Eugene full_name: Koonin, Eugene last_name: Koonin - first_name: Dinshaw J. full_name: Patel, Dinshaw J. last_name: Patel - first_name: Franklin L. full_name: Nobrega, Franklin L. last_name: Nobrega citation: ama: Zhang Z, Todeschini TC, Wu Y, et al. Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites. Cell. 2025;188(21):5862-5877.e23. doi:10.1016/j.cell.2025.07.002 apa: Zhang, Z., Todeschini, T. C., Wu, Y., Kogay, R., Naji, A., Cardenas Rodriguez, J., … Nobrega, F. L. (2025). Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites. Cell. Cell Press. https://doi.org/10.1016/j.cell.2025.07.002 chicago: Zhang, Zhiying, Thomas C. Todeschini, Yi Wu, Roman Kogay, Ameena Naji, Joaquin Cardenas Rodriguez, Rupavidhya Mondi, et al. “Kiwa Is a Membrane-Embedded Defense Supercomplex Activated at Phage Attachment Sites.” Cell. Cell Press, 2025. https://doi.org/10.1016/j.cell.2025.07.002. ieee: Z. Zhang et al., “Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites,” Cell, vol. 188, no. 21. Cell Press, p. 5862–5877.e23, 2025. ista: Zhang Z, Todeschini TC, Wu Y, Kogay R, Naji A, Cardenas Rodriguez J, Mondi R, Kaganovich D, Taylor DW, Bravo JPK, Teplova M, Amen T, Koonin E, Patel DJ, Nobrega FL. 2025. Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites. Cell. 188(21), 5862–5877.e23. mla: Zhang, Zhiying, et al. “Kiwa Is a Membrane-Embedded Defense Supercomplex Activated at Phage Attachment Sites.” Cell, vol. 188, no. 21, Cell Press, 2025, p. 5862–5877.e23, doi:10.1016/j.cell.2025.07.002. short: Z. Zhang, T.C. Todeschini, Y. Wu, R. Kogay, A. Naji, J. Cardenas Rodriguez, R. Mondi, D. Kaganovich, D.W. Taylor, J.P.K. Bravo, M. Teplova, T. Amen, E. Koonin, D.J. Patel, F.L. Nobrega, Cell 188 (2025) 5862–5877.e23. date_created: 2025-08-07T05:00:04Z date_published: 2025-10-16T00:00:00Z date_updated: 2026-10-20T08:23:33Z day: '16' ddc: - '570' department: - _id: JaBr doi: 10.1016/j.cell.2025.07.002 external_id: isi: - '001603560700005' pmid: - '40730155' file: - access_level: open_access checksum: b944de5fbd7455f58e1ff338ad352239 content_type: application/pdf creator: dernst date_created: 2025-12-29T14:15:25Z date_updated: 2025-12-29T14:15:25Z file_id: '20875' file_name: 2025_Cell_Zhang.pdf file_size: 32104588 relation: main_file success: 1 file_date_updated: 2025-12-29T14:15:25Z fulldoi: https://doi.org/10.1016/j.cell.2025.07.002 has_accepted_license: '1' intvolume: ' 188' isi: 1 issue: '21' language: - iso: eng month: '10' oa: 1 oa_version: Published Version page: 5862-5877.e23 pmid: 1 publication: Cell publication_identifier: eissn: - 1097-4172 issn: - 0092-8674 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 188 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19846' abstract: - lang: eng text: The Ca2+-release-activated Ca2+ (CRAC) channel Orai1 is activated by interaction with the Ca2+ sensor Stromal Interaction Molecule 1 (STIM1). Owing to the lack of structurally resolved Orai1/STIM1 complexes, the impact of their coupling on individual Orai1 transmembrane domain (TM) movements is unclear. This study investigates STIM1-independent and STIM1-dependent Orai1-TM dynamics using photocrosslinking unnatural amino acids (UAAs) at each individual TM position. We primarily identify CRAC-channel-like currents directly after UAA incorporation or additional UV-light irradiation at TM3 sites that interface with non-pore-lining TMs. Using UAAs combined with conventional site-directed mutagenesis and molecular dynamics simulations, we discover that pore opening involves a widening of interfaces formed by TM3 with non-pore-lining TMs. Orai1 mutants with a UAA in TM3 exhibit weaker STIM1-induced activation after UV exposure, possibly caused by a restricted widening of non-pore-lining TM interfaces. We demonstrate that photocrosslinking UAAs are excellent tools for improving our understanding of key determinants and ion channel dynamics modulating pore opening. acknowledgement: We thank S. Buchegger for excellent technical assistance. This research was funded by the Austrian Science Fund (FWF) projects https://doi.org/10.55776/P32851, https://doi.org/10.55776/P35900, and https://doi.org/10.55776/P36202 to I.D. and https://doi.org/10.55776/PAT6871323 to A.T. N.M. is funded within the DOC program of the OeAW (Austrian Academy of Science). For open access purposes, the author has applied a CC BY public copyright license to any author-accepted manuscript version arising from this submission. article_number: '102623' article_processing_charge: Yes article_type: original author: - first_name: Hadil full_name: Najjar, Hadil last_name: Najjar - first_name: Sarah full_name: Weiß, Sarah last_name: Weiß - first_name: Ferdinand full_name: Horvath, Ferdinand id: b0dc7f61-21a3-11ef-a9b4-e6ab1aa6f21e last_name: Horvath - first_name: Valentina full_name: Hopl, Valentina last_name: Hopl - first_name: Adéla full_name: Tiffner, Adéla last_name: Tiffner - first_name: Lorenz full_name: Höbarth, Lorenz last_name: Höbarth - first_name: Julia full_name: Söllner, Julia last_name: Söllner - first_name: Maximilian full_name: Fröhlich, Maximilian last_name: Fröhlich - first_name: Magdalena full_name: Prantl, Magdalena last_name: Prantl - first_name: Nora full_name: Müller, Nora last_name: Müller - first_name: Yuliia full_name: Nazarenko, Yuliia last_name: Nazarenko - first_name: Selina full_name: Harant, Selina last_name: Harant - first_name: Lukas full_name: Weissenböck, Lukas last_name: Weissenböck - first_name: Herwig full_name: Grabmayr, Herwig last_name: Grabmayr - first_name: Matthias full_name: Sallinger, Matthias last_name: Sallinger - first_name: Lena full_name: Maltan, Lena last_name: Maltan - first_name: Linda V. full_name: Echefu, Linda V. last_name: Echefu - first_name: Tamara full_name: Radiskovic, Tamara last_name: Radiskovic - first_name: Melanie full_name: Leopold, Melanie last_name: Leopold - first_name: Sonja full_name: Lindinger, Sonja last_name: Lindinger - first_name: Christina full_name: Humer, Christina last_name: Humer - first_name: Carmen full_name: Höglinger, Carmen last_name: Höglinger - first_name: Heinrich full_name: Krobath, Heinrich last_name: Krobath - first_name: Thomas full_name: Renger, Thomas last_name: Renger - first_name: Isabella full_name: Derler, Isabella last_name: Derler citation: ama: Najjar H, Weiß S, Horvath F, et al. STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. Cell Reports Physical Science. 2025;6(6). doi:10.1016/j.xcrp.2025.102623 apa: Najjar, H., Weiß, S., Horvath, F., Hopl, V., Tiffner, A., Höbarth, L., … Derler, I. (2025). STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. Cell Reports Physical Science. Cell Press. https://doi.org/10.1016/j.xcrp.2025.102623 chicago: Najjar, Hadil, Sarah Weiß, Ferdinand Horvath, Valentina Hopl, Adéla Tiffner, Lorenz Höbarth, Julia Söllner, et al. “STIM1-Induced Widening of Non-Pore-Lining TM Interfaces Is Crucial for Orai1 Pore Opening.” Cell Reports Physical Science. Cell Press, 2025. https://doi.org/10.1016/j.xcrp.2025.102623. ieee: H. Najjar et al., “STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening,” Cell Reports Physical Science, vol. 6, no. 6. Cell Press, 2025. ista: Najjar H, Weiß S, Horvath F, Hopl V, Tiffner A, Höbarth L, Söllner J, Fröhlich M, Prantl M, Müller N, Nazarenko Y, Harant S, Weissenböck L, Grabmayr H, Sallinger M, Maltan L, Echefu LV, Radiskovic T, Leopold M, Lindinger S, Humer C, Höglinger C, Krobath H, Renger T, Derler I. 2025. STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. Cell Reports Physical Science. 6(6), 102623. mla: Najjar, Hadil, et al. “STIM1-Induced Widening of Non-Pore-Lining TM Interfaces Is Crucial for Orai1 Pore Opening.” Cell Reports Physical Science, vol. 6, no. 6, 102623, Cell Press, 2025, doi:10.1016/j.xcrp.2025.102623. short: H. Najjar, S. Weiß, F. Horvath, V. Hopl, A. Tiffner, L. Höbarth, J. Söllner, M. Fröhlich, M. Prantl, N. Müller, Y. Nazarenko, S. Harant, L. Weissenböck, H. Grabmayr, M. Sallinger, L. Maltan, L.V. Echefu, T. Radiskovic, M. Leopold, S. Lindinger, C. Humer, C. Höglinger, H. Krobath, T. Renger, I. Derler, Cell Reports Physical Science 6 (2025). date_created: 2025-06-15T22:01:31Z date_published: 2025-06-18T00:00:00Z date_updated: 2026-10-20T08:25:34Z day: '18' ddc: - '570' department: - _id: AnSa doi: 10.1016/j.xcrp.2025.102623 external_id: isi: - '001516570500009' file: - access_level: open_access checksum: 37ff7c396f966d0ec363e4691d63d402 content_type: application/pdf creator: dernst date_created: 2025-06-23T10:20:22Z date_updated: 2025-06-23T10:20:22Z file_id: '19868' file_name: 2025_CellReportsPhysicalScience_Najjar.pdf file_size: 9771117 relation: main_file success: 1 file_date_updated: 2025-06-23T10:20:22Z fulldoi: https://doi.org/10.1016/j.xcrp.2025.102623 has_accepted_license: '1' intvolume: ' 6' isi: 1 issue: '6' language: - iso: eng month: '06' oa: 1 oa_version: Published Version publication: Cell Reports Physical Science publication_identifier: eissn: - 2666-3864 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6 year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '20029' abstract: - lang: eng text: Vacuolar acidification is crucial for the homeostasis of intracellular pH and the recycling of proteins and nutrients in cells, thereby playing important roles in various physiological processes related to vacuolar function. The key factors regulating vacuolar acidification and underlying mechanisms remain unclear. Here, we report that Arabidopsis phospholipase Dζ2 (PLDζ2) promotes the acidification of the vacuolar lumen to stimulate autophagic degradation under phosphorus deficiency. The pldζ2 mutant massively accumulates autophagic structures while exhibiting premature leaf senescence under nutrient starvation. Impaired autophagic flux, lytic vacuole morphology, and lytic degradation in pldζ2 indicate that PLDζ2 regulates autophagy by affecting the vacuolar function. PLDζ2 locates in both tonoplast and cytoplasm. Genetic, structural, and biochemical studies demonstrate that PLDζ2 directly interacts with vacuolar-type ATPase (V-ATPase) subunit D (VATD) to promote vacuolar acidification and autophagy under phosphorus starvation. These findings reveal the importance of V-ATPase and vacuolar pH in autophagic activity and provide clues in elucidating the regulatory mechanism of vacuolar acidification. acknowledgement: The study was supported by National Natural Science Foundation of China (NSFC, 92354301, 32230011, 32200274, and 91954206). The computations were run on the Siyuan-1 cluster supported by the Center for High-Performance Computing at Shanghai Jiao Tong University. article_number: '116024' article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Bin full_name: Guan, Bin id: 56aad729-cca2-11ed-a45a-9b4138991a48 last_name: Guan - first_name: Ke Xuan full_name: Xie, Ke Xuan last_name: Xie - first_name: Xin Qiao full_name: Du, Xin Qiao last_name: Du - first_name: Yu Xuan full_name: Bai, Yu Xuan last_name: Bai - first_name: Peng Chao full_name: Hao, Peng Chao last_name: Hao - first_name: Wen Hui full_name: Lin, Wen Hui last_name: Lin - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Hong Wei full_name: Xue, Hong Wei last_name: Xue citation: ama: Guan B, Xie KX, Du XQ, et al. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. Cell Reports. 2025;44(7). doi:10.1016/j.celrep.2025.116024 apa: Guan, B., Xie, K. X., Du, X. Q., Bai, Y. X., Hao, P. C., Lin, W. H., … Xue, H. W. (2025). Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2025.116024 chicago: Guan, Bin, Ke Xuan Xie, Xin Qiao Du, Yu Xuan Bai, Peng Chao Hao, Wen Hui Lin, Jiří Friml, and Hong Wei Xue. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” Cell Reports. Cell Press, 2025. https://doi.org/10.1016/j.celrep.2025.116024. ieee: B. Guan et al., “Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD,” Cell Reports, vol. 44, no. 7. Cell Press, 2025. ista: Guan B, Xie KX, Du XQ, Bai YX, Hao PC, Lin WH, Friml J, Xue HW. 2025. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. Cell Reports. 44(7), 116024. mla: Guan, Bin, et al. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” Cell Reports, vol. 44, no. 7, 116024, Cell Press, 2025, doi:10.1016/j.celrep.2025.116024. short: B. Guan, K.X. Xie, X.Q. Du, Y.X. Bai, P.C. Hao, W.H. Lin, J. Friml, H.W. Xue, Cell Reports 44 (2025). date_created: 2025-07-20T22:02:01Z date_published: 2025-07-22T00:00:00Z date_updated: 2026-10-20T08:22:53Z day: '22' ddc: - '580' department: - _id: JiFr doi: 10.1016/j.celrep.2025.116024 external_id: isi: - '001533244800001' pmid: - '40668679' file: - access_level: open_access checksum: ee03deee47a084b0295251dc49470ad4 content_type: application/pdf creator: dernst date_created: 2025-07-22T08:52:17Z date_updated: 2025-07-22T08:52:17Z file_id: '20067' file_name: 2025_CellReports_Guan.pdf file_size: 37708120 relation: main_file success: 1 file_date_updated: 2025-07-22T08:52:17Z fulldoi: https://doi.org/10.1016/j.celrep.2025.116024 has_accepted_license: '1' intvolume: ' 44' isi: 1 issue: '7' language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ month: '07' oa: 1 oa_version: Published Version pmid: 1 publication: Cell Reports publication_identifier: eissn: - 2211-1247 issn: - 2639-1856 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 44 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '20116' abstract: - lang: eng text: Auxin regulates various aspects of plant growth and development by modulating the transcription of target genes through the degradation of auxin/indole-3-acetic acid (Aux/IAA) repressors via the 26S proteasome. Proteasome regulator 1 (PTRE1), a positive regulator of proteasome activity, has been implicated in auxin-mediated proteasome suppression; however, the mechanism by which auxin modulates PTRE1 function remains unclear. Here, we demonstrate that auxin promotes the interaction between germin-like protein 1 (GLP1) and PTRE1, facilitating PTRE1 retention at the plasma membrane. The relocation of PTRE1 results in reduced nuclear 26S proteasome activity, and thus the attenuated Aux/IAA degradation and altered Aux/IAA homeostasis, ultimately resulting in suppressed auxin-mediated transcriptional regulation. Our findings uncover a previously uncharacterized regulatory axis in auxin signaling that controls Aux/IAA protein stability, functioning alongside the TIR1- and TRANSMEMBRANE KINASE 1 (TMK1)-mediated pathways, and highlight the coordination of auxin signaling from the cell surface to the nucleus via auxin-induced PTRE1 relocation, which fine-tunes Aux/IAA protein homeostasis and auxin responses. acknowledgement: The study was supported by the National Natural Science Foundation of China (NSFC; 32230011, 91954206, and 31721001). We thank Dr. Deli Lin (Shanghai Jiao Tong University) for kind help with the laser confocal microscope observation and the Arabidopsis Biological Resource Center (ABRC) for providing T-DNA insertional mutants. article_number: '116056' article_processing_charge: Yes article_type: original author: - first_name: Faqing full_name: Xu, Faqing last_name: Xu - first_name: Yongqiang full_name: Yu, Yongqiang last_name: Yu - first_name: Bin full_name: Guan, Bin id: 56aad729-cca2-11ed-a45a-9b4138991a48 last_name: Guan - first_name: Tongda full_name: Xu, Tongda last_name: Xu - first_name: Zhihong full_name: Xu, Zhihong last_name: Xu - first_name: Hongwei full_name: Xue, Hongwei last_name: Xue citation: ama: Xu F, Yu Y, Guan B, Xu T, Xu Z, Xue H. Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. Cell Reports. 2025;44(8). doi:10.1016/j.celrep.2025.116056 apa: Xu, F., Yu, Y., Guan, B., Xu, T., Xu, Z., & Xue, H. (2025). Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2025.116056 chicago: Xu, Faqing, Yongqiang Yu, Bin Guan, Tongda Xu, Zhihong Xu, and Hongwei Xue. “Germin-like Protein 1 Interacts with Proteasome Regulator 1 to Regulate Auxin Signaling by Controlling Aux/IAA Homeostasis.” Cell Reports. Cell Press, 2025. https://doi.org/10.1016/j.celrep.2025.116056. ieee: F. Xu, Y. Yu, B. Guan, T. Xu, Z. Xu, and H. Xue, “Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis,” Cell Reports, vol. 44, no. 8. Cell Press, 2025. ista: Xu F, Yu Y, Guan B, Xu T, Xu Z, Xue H. 2025. Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. Cell Reports. 44(8), 116056. mla: Xu, Faqing, et al. “Germin-like Protein 1 Interacts with Proteasome Regulator 1 to Regulate Auxin Signaling by Controlling Aux/IAA Homeostasis.” Cell Reports, vol. 44, no. 8, 116056, Cell Press, 2025, doi:10.1016/j.celrep.2025.116056. short: F. Xu, Y. Yu, B. Guan, T. Xu, Z. Xu, H. Xue, Cell Reports 44 (2025). date_created: 2025-08-04T13:39:11Z date_published: 2025-07-24T00:00:00Z date_updated: 2026-10-20T08:23:15Z day: '24' ddc: - '580' department: - _id: JiFr doi: 10.1016/j.celrep.2025.116056 external_id: isi: - '001542038500001' pmid: - '40714631' file: - access_level: open_access checksum: 3c43e040a4a7a65ec67ae1d2bb81261a content_type: application/pdf creator: dernst date_created: 2025-08-05T06:15:09Z date_updated: 2025-08-05T06:15:09Z file_id: '20120' file_name: 2025_CellReports_Xu.pdf file_size: 24178018 relation: main_file success: 1 file_date_updated: 2025-08-05T06:15:09Z fulldoi: https://doi.org/10.1016/j.celrep.2025.116056 has_accepted_license: '1' intvolume: ' 44' isi: 1 issue: '8' language: - iso: eng month: '07' oa: 1 oa_version: Published Version pmid: 1 publication: Cell Reports publication_identifier: eissn: - 2211-1247 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 44 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20374' abstract: - lang: eng text: Pioneer transcription factors (TFs) engage chromatinized DNA motifs. However, it is unclear how the resultant TF-nucleosome complexes are decoded by co-factors. In humans, the TF p53 regulates cell-cycle progression, apoptosis, and the DNA damage response, with a large fraction of p53-bound sites residing in nucleosome-harboring inaccessible chromatin. We examined the interaction of chromatin-bound p53 with co-factors belonging to the ubiquitin proteasome system (UPS). At two distinct motif locations on the nucleosome (super-helical location [SHL]−5.7 and SHL+5.9), the E3 ubiquitin ligase E6-E6AP was unable to bind nucleosome-engaged p53. The deubiquitinase USP7, on the other hand, readily engages nucleosome-bound p53 in vitro and in cells. A corresponding cryo-electron microscopy (cryo-EM) structure shows USP7 engaged with p53 and nucleosomes. Our work illustrates how chromatin imposes a co-factor-selective barrier for p53 interactors, whereby flexibly tethered interaction domains of co-factors and TFs govern compatibility between co-factors, TFs, and chromatin. acknowledgement: We thank M. Schütz for laboratory management, organization, and assistance with manuscript editing. We are grateful to all Thomä and Schübeler lab members. We thank Ulrich Hassiepen from Novartis for his support and insightful discussions on the kinetic analysis. This work was supported by funding from the European Research Council (ERC), under the European Union’s H2020 research program (NucEM, grant no. 884331); the Swiss National Science Foundation (SNF, grant no. 310030_301206 and 310030_214852); Krebsforschung (KFS, grant no. KFS-5933-08-2023); Novartis Research Foundation (to N.H.T.); the Novartis Freenovation (grant no. FN23-0000000514 to C.R.S.); the National Health and Medical Research Council CJ Martin Fellowship (APP1148380); the EU Horizon 2020 Research and Innovation Program under the Marie Sklodowska-Curie grant (grant no. 748760); the South Australian immunoGENomics Cancer Institute grant funding from the Australian Government; and the Sylvia and Charles Viertel Charitable Foundation Senior Medical Research Fellowship (to L.I.). article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Deyasini full_name: Chakraborty, Deyasini last_name: Chakraborty - first_name: Colby R. full_name: Sandate, Colby R. last_name: Sandate - first_name: Luke full_name: Isbel, Luke last_name: Isbel - first_name: Georg full_name: Kempf, Georg last_name: Kempf - first_name: Joscha full_name: Weiss, Joscha last_name: Weiss - first_name: Simone full_name: Cavadini, Simone last_name: Cavadini - first_name: Lukas full_name: Kater, Lukas last_name: Kater - first_name: Jan full_name: Seebacher, Jan last_name: Seebacher - first_name: Zuzanna full_name: Kozicka, Zuzanna last_name: Kozicka - first_name: Lisa full_name: Stoos, Lisa last_name: Stoos - first_name: Ralph S. full_name: Grand, Ralph S. last_name: Grand - first_name: Dirk full_name: Schübeler, Dirk last_name: Schübeler - first_name: Alicia full_name: Michael, Alicia id: 6437c950-2a03-11ee-914d-d6476dd7b75c last_name: Michael orcid: 0000-0002-6080-839X - first_name: Nicolas H. full_name: Thomä, Nicolas H. last_name: Thomä citation: ama: Chakraborty D, Sandate CR, Isbel L, et al. Nucleosomes specify co-factor access to p53. Molecular Cell. 2025;85(15):2919-2936.e12. doi:10.1016/j.molcel.2025.06.027 apa: Chakraborty, D., Sandate, C. R., Isbel, L., Kempf, G., Weiss, J., Cavadini, S., … Thomä, N. H. (2025). Nucleosomes specify co-factor access to p53. Molecular Cell. Cell Press. https://doi.org/10.1016/j.molcel.2025.06.027 chicago: Chakraborty, Deyasini, Colby R. Sandate, Luke Isbel, Georg Kempf, Joscha Weiss, Simone Cavadini, Lukas Kater, et al. “Nucleosomes Specify Co-Factor Access to P53.” Molecular Cell. Cell Press, 2025. https://doi.org/10.1016/j.molcel.2025.06.027. ieee: D. Chakraborty et al., “Nucleosomes specify co-factor access to p53,” Molecular Cell, vol. 85, no. 15. Cell Press, p. 2919–2936.e12, 2025. ista: Chakraborty D, Sandate CR, Isbel L, Kempf G, Weiss J, Cavadini S, Kater L, Seebacher J, Kozicka Z, Stoos L, Grand RS, Schübeler D, Michael AK, Thomä NH. 2025. Nucleosomes specify co-factor access to p53. Molecular Cell. 85(15), 2919–2936.e12. mla: Chakraborty, Deyasini, et al. “Nucleosomes Specify Co-Factor Access to P53.” Molecular Cell, vol. 85, no. 15, Cell Press, 2025, p. 2919–2936.e12, doi:10.1016/j.molcel.2025.06.027. short: D. Chakraborty, C.R. Sandate, L. Isbel, G. Kempf, J. Weiss, S. Cavadini, L. Kater, J. Seebacher, Z. Kozicka, L. Stoos, R.S. Grand, D. Schübeler, A.K. Michael, N.H. Thomä, Molecular Cell 85 (2025) 2919–2936.e12. date_created: 2025-09-23T08:56:13Z date_published: 2025-08-07T00:00:00Z date_updated: 2026-10-20T08:50:29Z day: '07' ddc: - '570' department: - _id: AlMi doi: 10.1016/j.molcel.2025.06.027 file: - access_level: open_access checksum: e60390ca629b350af3221d4718ca6534 content_type: application/pdf creator: dernst date_created: 2025-09-24T07:54:03Z date_updated: 2025-09-24T07:54:03Z file_id: '20386' file_name: 2025_MolecularCell_Chakraborty.pdf file_size: 41813494 relation: main_file success: 1 file_date_updated: 2025-09-24T07:54:03Z fulldoi: https://doi.org/10.1016/j.molcel.2025.06.027 has_accepted_license: '1' intvolume: ' 85' issue: '15' language: - iso: eng month: '08' oa: 1 oa_version: Published Version page: 2919-2936.e12 publication: Molecular Cell publication_identifier: issn: - 1097-2765 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Nucleosomes specify co-factor access to p53 tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 85 year: '2025' ... --- OA_type: closed access _id: '19594' abstract: - lang: eng text: In this issue of Developmental Cell, Lee et al. identify a pivotal role for glutathione (GSH) in plant regeneration, a vital biological process enabling plants to regrow tissues and organs after injury. Applying single-cell RNA sequencing (scRNA-seq) and live imaging, the authors demonstrate that GSH, released upon tissue damage, accelerates cell-cycle transitions, particularly shortening the G1 phase, thereby facilitating efficient organ regeneration. article_processing_charge: No article_type: letter_note author: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: 'Benková E. Unlocking plant regeneration: The role for glutathione. Developmental Cell. 2025;60(8):1137-1139. doi:10.1016/j.devcel.2025.03.012' apa: 'Benková, E. (2025). Unlocking plant regeneration: The role for glutathione. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2025.03.012' chicago: 'Benková, Eva. “Unlocking Plant Regeneration: The Role for Glutathione.” Developmental Cell. Cell Press, 2025. https://doi.org/10.1016/j.devcel.2025.03.012.' ieee: 'E. Benková, “Unlocking plant regeneration: The role for glutathione,” Developmental Cell, vol. 60, no. 8. Cell Press, pp. 1137–1139, 2025.' ista: 'Benková E. 2025. Unlocking plant regeneration: The role for glutathione. Developmental Cell. 60(8), 1137–1139.' mla: 'Benková, Eva. “Unlocking Plant Regeneration: The Role for Glutathione.” Developmental Cell, vol. 60, no. 8, Cell Press, 2025, pp. 1137–39, doi:10.1016/j.devcel.2025.03.012.' short: E. Benková, Developmental Cell 60 (2025) 1137–1139. corr_author: '1' date_created: 2025-04-20T22:01:28Z date_published: 2025-04-21T00:00:00Z date_updated: 2026-10-20T08:24:38Z day: '21' department: - _id: EvBe doi: 10.1016/j.devcel.2025.03.012 external_id: isi: - '001477400800001' pmid: - '40262524' fulldoi: https://doi.org/10.1016/j.devcel.2025.03.012 intvolume: ' 60' isi: 1 issue: '8' language: - iso: eng month: '04' oa_version: None page: 1137-1139 pmid: 1 publication: Developmental Cell publication_identifier: eissn: - 1878-1551 issn: - 1534-5807 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: 'Unlocking plant regeneration: The role for glutathione' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 60 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '19795' abstract: - lang: eng text: Super-resolution microscopy often entails long acquisition times of minutes to hours. Since drifts during the acquisition adversely affect data quality, active sample stabilization is commonly used for some of these techniques to reach their full potential. Although drifts in the lateral plane can often be corrected after acquisition, this is not always possible or may come with drawbacks. Therefore, it is appealing to stabilize sample position in three dimensions (3D) during acquisition. Various schemes for active sample stabilization have been demonstrated previously, with some reaching sub-nanometer stability in 3D. Here, we present a scheme for active drift correction that delivers the nanometer-scale 3D stability demanded by state-of-the-art super-resolution techniques and is straightforward to implement compared to previous schemes capable of reaching this level of stabilization precision. Using a refined algorithm that can handle various types of reference structure, without sparse signal peaks being mandatory, we stabilized sample position to ∼1 nm in 3D using objective lenses both with high and low numerical aperture. Our implementation requires only the addition of a simple widefield imaging path and we provide an open-source control software with graphical user interface to facilitate easy adoption of the module. Finally, we demonstrate how this has the potential to enhance data collection for diffraction-limited and super-resolution imaging techniques using single-molecule localization microscopy and cryo-confocal imaging as showcases. acknowledged_ssus: - _id: M-Shop - _id: EM-Fac - _id: LifeSc acknowledgement: 'We acknowledge expert support by ISTA’s scientific service units, including the Miba Machine Shop, the Electron Microscopy Facility, and the Lab Support Facility. This work has been made possible in part by CZI grant DAF2021-234754 and grant DOI: https://doi.org/10.37921/812628ebpcwg from the Chan Zuckerberg Initiative DAF, an advised fund of Silicon Valley Community Foundation (funder DOI: https://doi.org/10.13039/100014989) (F.K.M.S. and J.G.D.). We further gratefully acknowledge funding by the following sources: Austrian Science Fund (FWF) grant DK W1232 (M.R.T. and J.G.D.); Austrian Academy of Sciences DOC fellowship 26137 (M.R.T.); Marie Skłodowska-Curie Actions Fellowship GA no. 665385 under the EU Horizon 2020 program (J.L.); ISTA postdoctoral fellowship IST fellow (A.W.); and Human Frontier Science Program postdoctoral fellowship LT000557/2018 (W.J.).' article_number: '100211' article_processing_charge: Yes article_type: original author: - first_name: Jakob full_name: Vorlaufer, Jakob id: 937696FA-C996-11E9-8C7C-CF13E6697425 last_name: Vorlaufer orcid: 0009-0000-7590-3501 - first_name: Nikolai full_name: Semenov, Nikolai id: e64d39c7-72ef-11ef-b75a-ee3046860d1b last_name: Semenov - first_name: Caroline full_name: Kreuzinger, Caroline id: 382077BA-F248-11E8-B48F-1D18A9856A87 last_name: Kreuzinger - first_name: Manjunath full_name: Javoor, Manjunath id: 305ab18b-dc7d-11ea-9b2f-b58195228ea2 last_name: Javoor orcid: 0000-0003-2311-2112 - first_name: Bettina full_name: Zens, Bettina id: 45FD126C-F248-11E8-B48F-1D18A9856A87 last_name: Zens orcid: 0000-0002-9561-1239 - first_name: Nathalie full_name: Agudelo Duenas, Nathalie id: 40E7F008-F248-11E8-B48F-1D18A9856A87 last_name: Agudelo Duenas - first_name: Mojtaba full_name: Tavakoli, Mojtaba id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87 last_name: Tavakoli orcid: 0000-0002-7667-6854 - first_name: Marek full_name: Suplata, Marek id: EE8452B8-C26A-11E9-B157-E80CE6697425 last_name: Suplata - first_name: Wiebke full_name: Jahr, Wiebke id: 425C1CE8-F248-11E8-B48F-1D18A9856A87 last_name: Jahr orcid: 0000-0003-0201-2315 - first_name: Julia full_name: Lyudchik, Julia id: 46E28B80-F248-11E8-B48F-1D18A9856A87 last_name: Lyudchik - first_name: Andreas full_name: Wartak, Andreas id: 60aaa06c-3de5-11eb-9e53-baa88e955dcb last_name: Wartak - first_name: Florian Km full_name: Schur, Florian Km id: 48AD8942-F248-11E8-B48F-1D18A9856A87 last_name: Schur orcid: 0000-0003-4790-8078 - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: Vorlaufer J, Semenov N, Kreuzinger C, et al. Image-based 3D active sample stabilization on the nanometer scale for optical microscopy. Biophysical Reports. 2025;5(2). doi:10.1016/j.bpr.2025.100211 apa: Vorlaufer, J., Semenov, N., Kreuzinger, C., Javoor, M., Zens, B., Agudelo Duenas, N., … Danzl, J. G. (2025). Image-based 3D active sample stabilization on the nanometer scale for optical microscopy. Biophysical Reports. Cell Press. https://doi.org/10.1016/j.bpr.2025.100211 chicago: Vorlaufer, Jakob, Nikolai Semenov, Caroline Kreuzinger, Manjunath Javoor, Bettina Zens, Nathalie Agudelo Duenas, Mojtaba Tavakoli, et al. “Image-Based 3D Active Sample Stabilization on the Nanometer Scale for Optical Microscopy.” Biophysical Reports. Cell Press, 2025. https://doi.org/10.1016/j.bpr.2025.100211. ieee: J. Vorlaufer et al., “Image-based 3D active sample stabilization on the nanometer scale for optical microscopy,” Biophysical Reports, vol. 5, no. 2. Cell Press, 2025. ista: Vorlaufer J, Semenov N, Kreuzinger C, Javoor M, Zens B, Agudelo Duenas N, Tavakoli M, Suplata M, Jahr W, Lyudchik J, Wartak A, Schur FK, Danzl JG. 2025. Image-based 3D active sample stabilization on the nanometer scale for optical microscopy. Biophysical Reports. 5(2), 100211. mla: Vorlaufer, Jakob, et al. “Image-Based 3D Active Sample Stabilization on the Nanometer Scale for Optical Microscopy.” Biophysical Reports, vol. 5, no. 2, 100211, Cell Press, 2025, doi:10.1016/j.bpr.2025.100211. short: J. Vorlaufer, N. Semenov, C. Kreuzinger, M. Javoor, B. Zens, N. Agudelo Duenas, M. Tavakoli, M. Suplata, W. Jahr, J. Lyudchik, A. Wartak, F.K. Schur, J.G. Danzl, Biophysical Reports 5 (2025). corr_author: '1' date_created: 2025-06-08T22:01:22Z date_published: 2025-06-11T00:00:00Z date_updated: 2026-10-20T08:55:34Z day: '11' ddc: - '570' department: - _id: JoDa - _id: GradSch - _id: FlSc - _id: EM-Fac doi: 10.1016/j.bpr.2025.100211 ec_funded: 1 file: - access_level: open_access checksum: 4018c833f25a3ad3b57e3577fed70334 content_type: application/pdf creator: dernst date_created: 2025-06-10T07:24:46Z date_updated: 2025-06-10T07:24:46Z file_id: '19802' file_name: 2025_BiophysicalReports_Vorlaufer.pdf file_size: 7238179 relation: main_file success: 1 file_date_updated: 2025-06-10T07:24:46Z fulldoi: https://doi.org/10.1016/j.bpr.2025.100211 has_accepted_license: '1' intvolume: ' 5' issue: '2' language: - iso: eng month: '06' oa: 1 oa_version: Published Version project: - _id: 62909c6f-2b32-11ec-9570-e1476aab5308 grant_number: CZI01 name: CryoMinflux-guided in-situ molecular census and structure determination - _id: 6285a163-2b32-11ec-9570-8e204ca2dba5 grant_number: '26137' name: Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 26AA4EF2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: W1232-B24 name: Molecular Drug Targets - _id: 2668BFA0-B435-11E9-9278-68D0E5697425 grant_number: LT00057 name: High-speed 3D-nanoscopy to study the role of adhesion during 3D cell migration publication: Biophysical Reports publication_identifier: eissn: - 2667-0747 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: record: - id: '20206' relation: dissertation_contains status: public - id: '22744' relation: dissertation_contains status: public scopus_import: '1' status: public title: Image-based 3D active sample stabilization on the nanometer scale for optical microscopy tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '18754' abstract: - lang: eng text: 'Exploring the molecular correlates of metabolic health measures may identify their shared and unique biological processes and pathways. Molecular proxies of these traits may also provide a more objective approach to their measurement. Here, DNA methylation (DNAm) data were used in epigenome-wide association studies (EWASs) and for training epigenetic scores (EpiScores) of six metabolic traits: body mass index (BMI), body fat percentage, waist-hip ratio, and blood-based measures of glucose, high-density lipoprotein cholesterol, and total cholesterol in >17,000 volunteers from the Generation Scotland (GS) cohort. We observed a maximum of 12,033 significant findings (p < 3.6 × 10−8) for BMI in a marginal linear regression EWAS. By contrast, a joint and conditional Bayesian penalized regression approach yielded 27 high-confidence associations with BMI. EpiScores trained in GS performed well in both Scottish and Singaporean test cohorts (Lothian Birth Cohort 1936 [LBC1936] and Health for Life in Singapore [HELIOS]). The EpiScores for BMI and total cholesterol performed best in HELIOS, explaining 20.8% and 7.1% of the variance in the measured traits, respectively. The corresponding results in LBC1936 were 14.4% and 3.2%, respectively. Differences were observed in HELIOS for body fat, where the EpiScore explained ∼9% of the variance in Chinese and Malay -subgroups but ∼3% in the Indian subgroup. The EpiScores also correlated with cognitive function in LBC1936 (standardized βrange: 0.08–0.12, false discovery rate p [pFDR] < 0.05). Accounting for the correlation structure across the methylome can vastly affect the number of lead findings in EWASs. The EpiScores of metabolic traits are broadly applicable across populations and can reflect differences in cognition.' article_processing_charge: No article_type: original author: - first_name: Hannah M. full_name: Smith, Hannah M. last_name: Smith - first_name: Hong Kiat full_name: Ng, Hong Kiat last_name: Ng - first_name: Joanna E. full_name: Moodie, Joanna E. last_name: Moodie - first_name: Danni A. full_name: Gadd, Danni A. last_name: Gadd - first_name: Daniel L. full_name: Mccartney, Daniel L. last_name: Mccartney - first_name: Elena full_name: Bernabeu, Elena last_name: Bernabeu - first_name: Archie full_name: Campbell, Archie last_name: Campbell - first_name: Paul full_name: Redmond, Paul last_name: Redmond - first_name: Adele full_name: Taylor, Adele last_name: Taylor - first_name: Danielle full_name: Page, Danielle last_name: Page - first_name: Janie full_name: Corley, Janie last_name: Corley - first_name: Sarah E. full_name: Harris, Sarah E. last_name: Harris - first_name: Darwin full_name: Tay, Darwin last_name: Tay - first_name: Ian J. full_name: Deary, Ian J. last_name: Deary - first_name: Kathryn L. full_name: Evans, Kathryn L. last_name: Evans - first_name: Matthew Richard full_name: Robinson, Matthew Richard id: E5D42276-F5DA-11E9-8E24-6303E6697425 last_name: Robinson orcid: 0000-0001-8982-8813 - first_name: John C. full_name: Chambers, John C. last_name: Chambers - first_name: Marie full_name: Loh, Marie last_name: Loh - first_name: Simon R. full_name: Cox, Simon R. last_name: Cox - first_name: Riccardo E. full_name: Marioni, Riccardo E. last_name: Marioni - first_name: Robert F. full_name: Hillary, Robert F. last_name: Hillary citation: ama: Smith HM, Ng HK, Moodie JE, et al. DNA methylation-based predictors of metabolic traits in Scottish and Singaporean cohorts. American Journal of Human Genetics. 2025;112(1):106-115. doi:10.1016/j.ajhg.2024.11.012 apa: Smith, H. M., Ng, H. K., Moodie, J. E., Gadd, D. A., Mccartney, D. L., Bernabeu, E., … Hillary, R. F. (2025). DNA methylation-based predictors of metabolic traits in Scottish and Singaporean cohorts. American Journal of Human Genetics. Cell Press. https://doi.org/10.1016/j.ajhg.2024.11.012 chicago: Smith, Hannah M., Hong Kiat Ng, Joanna E. Moodie, Danni A. Gadd, Daniel L. Mccartney, Elena Bernabeu, Archie Campbell, et al. “DNA Methylation-Based Predictors of Metabolic Traits in Scottish and Singaporean Cohorts.” American Journal of Human Genetics. Cell Press, 2025. https://doi.org/10.1016/j.ajhg.2024.11.012. ieee: H. M. Smith et al., “DNA methylation-based predictors of metabolic traits in Scottish and Singaporean cohorts,” American Journal of Human Genetics, vol. 112, no. 1. Cell Press, pp. 106–115, 2025. ista: Smith HM, Ng HK, Moodie JE, Gadd DA, Mccartney DL, Bernabeu E, Campbell A, Redmond P, Taylor A, Page D, Corley J, Harris SE, Tay D, Deary IJ, Evans KL, Robinson MR, Chambers JC, Loh M, Cox SR, Marioni RE, Hillary RF. 2025. DNA methylation-based predictors of metabolic traits in Scottish and Singaporean cohorts. American Journal of Human Genetics. 112(1), 106–115. mla: Smith, Hannah M., et al. “DNA Methylation-Based Predictors of Metabolic Traits in Scottish and Singaporean Cohorts.” American Journal of Human Genetics, vol. 112, no. 1, Cell Press, 2025, pp. 106–15, doi:10.1016/j.ajhg.2024.11.012. short: H.M. Smith, H.K. Ng, J.E. Moodie, D.A. Gadd, D.L. Mccartney, E. Bernabeu, A. Campbell, P. Redmond, A. Taylor, D. Page, J. Corley, S.E. Harris, D. Tay, I.J. Deary, K.L. Evans, M.R. Robinson, J.C. Chambers, M. Loh, S.R. Cox, R.E. Marioni, R.F. Hillary, American Journal of Human Genetics 112 (2025) 106–115. date_created: 2025-01-05T23:01:56Z date_published: 2025-01-02T00:00:00Z date_updated: 2026-10-20T08:53:52Z day: '02' ddc: - '570' department: - _id: MaRo doi: 10.1016/j.ajhg.2024.11.012 external_id: isi: - '001412498600001' pmid: - '39706196' file: - access_level: open_access checksum: 891d120554f07da2c35d38388c29a690 content_type: application/pdf creator: dernst date_created: 2025-01-08T09:26:42Z date_updated: 2025-01-08T09:26:42Z file_id: '18776' file_name: 2025_AJHG_Smith.pdf file_size: 2266488 relation: main_file success: 1 file_date_updated: 2025-01-08T09:26:42Z fulldoi: https://doi.org/10.1016/j.ajhg.2024.11.012 has_accepted_license: '1' intvolume: ' 112' isi: 1 issue: '1' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 106-115 pmid: 1 publication: American Journal of Human Genetics publication_identifier: eissn: - 1537-6605 issn: - 0002-9297 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: link: - relation: software url: https://github.com/marioni-group/Metabolic_trait scopus_import: '1' status: public title: DNA methylation-based predictors of metabolic traits in Scottish and Singaporean cohorts tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 112 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold PlanS_conform: '1' _id: '20099' abstract: - lang: eng text: The hippocampus, critical for learning and memory, is dogmatically described as a trisynaptic circuit where dentate gyrus granule cells (GCs), CA3 pyramidal neurons (PNs), and CA1 PNs are serially connected. However, CA3 also forms an autoassociative network, and its PNs have diverse morphologies, intrinsic properties, and GC input levels. How PN subtypes compose this recurrent network is unknown. To determine the synaptic arrangement of identified CA3 PNs, we combine multicellular patch-clamp recording and post hoc morphological analysis in mouse hippocampal slices. PNs can be divided into distinct “superficial” and “deep” subclasses, the latter including previously reported “athorny” cells. Subclasses have distinct input-output transformations and asymmetric connectivity, which is more abundant from superficial to deep PNs, splitting CA3 locally into two parallel recurrent networks. Coincident spontaneous inhibition occurs frequently within but not between subclasses, implying subclass-specific inhibitory innervation. Our results suggest two separately controlled sublayers for parallel information processing in hippocampal CA3. acknowledged_ssus: - _id: Bio - _id: PreCl - _id: LifeSc - _id: M-Shop acknowledgement: We thank Andrea Navas-Olive and Rebecca J. Morse-Mora for critically reading an earlier version of the manuscript. We also thank Florian Marr and Christina Altmutter for excellent technical assistance, Alois Schlögl for programming and data-handling assistance, Todor Asenov for technical support, and Eleftheria Kralli-Beller for manuscript editing. This research was supported by the Scientific Services Units (SSUs) of ISTA. We are particularly grateful for assistance from the Imaging and Optics Facility, Preclinical Facility, Lab Support Facility, and Miba Machine Shop. The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 692692 to P.J., Marie Skłodowska-Curie Actions Individual Fellowship no. 101026635 to J.F.W., and an ISTplus Fellowship through Marie Skłodowska-Curie grant agreement no. 754411 to V.V.-B.), the Austrian Science Fund (P 36232-B, PAT 4178023, and Cluster of Excellence 10.55776/COE16 to P.J.), and a CONACyT fellowship (289638 to V.V.-B.) and was supported by a non-stipendiary EMBO fellowship (ALTF 756–2020 to J.F.W.). article_number: '116080' article_processing_charge: Yes article_type: original author: - first_name: Jake full_name: Watson, Jake id: 63836096-4690-11EA-BD4E-32803DDC885E last_name: Watson orcid: 0000-0002-8698-3823 - first_name: Victor M full_name: Vargas Barroso, Victor M id: 2F55A9DE-F248-11E8-B48F-1D18A9856A87 last_name: Vargas Barroso - first_name: Peter M full_name: Jonas, Peter M id: 353C1B58-F248-11E8-B48F-1D18A9856A87 last_name: Jonas orcid: 0000-0001-5001-4804 citation: ama: Watson J, Vargas Barroso VM, Jonas PM. Cell-specific wiring routes information flow through hippocampal CA3. Cell Reports. 2025;44(8). doi:10.1016/j.celrep.2025.116080 apa: Watson, J., Vargas Barroso, V. M., & Jonas, P. M. (2025). Cell-specific wiring routes information flow through hippocampal CA3. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2025.116080 chicago: Watson, Jake, Victor M Vargas Barroso, and Peter M Jonas. “Cell-Specific Wiring Routes Information Flow through Hippocampal CA3.” Cell Reports. Cell Press, 2025. https://doi.org/10.1016/j.celrep.2025.116080. ieee: J. Watson, V. M. Vargas Barroso, and P. M. Jonas, “Cell-specific wiring routes information flow through hippocampal CA3,” Cell Reports, vol. 44, no. 8. Cell Press, 2025. ista: Watson J, Vargas Barroso VM, Jonas PM. 2025. Cell-specific wiring routes information flow through hippocampal CA3. Cell Reports. 44(8), 116080. mla: Watson, Jake, et al. “Cell-Specific Wiring Routes Information Flow through Hippocampal CA3.” Cell Reports, vol. 44, no. 8, 116080, Cell Press, 2025, doi:10.1016/j.celrep.2025.116080. short: J. Watson, V.M. Vargas Barroso, P.M. Jonas, Cell Reports 44 (2025). corr_author: '1' date_created: 2025-08-03T22:01:30Z date_published: 2025-08-01T00:00:00Z date_updated: 2026-10-20T08:55:57Z day: '01' ddc: - '570' department: - _id: PeJo doi: 10.1016/j.celrep.2025.116080 ec_funded: 1 external_id: isi: - '001544472300002' file: - access_level: open_access checksum: 556ff9760661ecd23949d75031043b1f content_type: application/pdf creator: dernst date_created: 2025-08-04T06:53:07Z date_updated: 2025-08-04T06:53:07Z file_id: '20106' file_name: 2025_CellReports_Watson.pdf file_size: 27695214 relation: main_file success: 1 file_date_updated: 2025-08-04T06:53:07Z fulldoi: https://doi.org/10.1016/j.celrep.2025.116080 has_accepted_license: '1' intvolume: ' 44' isi: 1 issue: '8' language: - iso: eng month: '08' oa: 1 oa_version: Published Version project: - _id: 25B7EB9E-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '692692' name: Biophysics and circuit function of a giant cortical glutamatergic synapse - _id: fc2be41b-9c52-11eb-aca3-faa90aa144e9 call_identifier: H2020 grant_number: '101026635' name: Synaptic computations of the hippocampal CA3 circuitry - _id: bd88be38-d553-11ed-ba76-81d5a70a6ef5 grant_number: P36232 name: Mechanisms of GABA release in hippocampal circuits - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 0a6c8641-b036-11f1-bacf-e4eec62b5bb4 grant_number: COE16 name: Neuronal circuits in health and disease (Jonas) publication: Cell Reports publication_identifier: eissn: - 2211-1247 issn: - 2639-1856 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Cell-specific wiring routes information flow through hippocampal CA3 tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 44 year: '2025' ... --- OA_place: publisher _id: '20206' abstract: - lang: eng text: "The internal structure of biomolecules and their organization in higher-order arrangements are key factors governing the working principles of biological systems. Bioimaging has successfully revealed arrangements across relevant spatial scales. For example, cryo-electron tomography has become widely used for analyzing biomolecular structures in situ due to its comprehensive structural visualization of near-natively preserved samples, and its capability of sub-nm resolution via averaging. However, the identification of molecules within crowded cellular environments is often hindered by low contrast. Fluorescence microscopy, on the other hand, routinely visualizes specifically labeled targets at single-molecule contrast against essentially zero background. Moreover, it provides comparatively high throughput and is amenable to multiplexing. Due to this complementarity, combining datasets from both modalities acquired on the same region via correlative light and electron microscopy can reveal novel types of information. \r\nThe spatial scale at which information can be extracted depends on imaging resolution and correlation accuracy. Since diffraction of light limits the resolution of conventional fluorescence microscopy to few hundreds of nanometers, reaching the full potential of correlative imaging requires super-resolution approaches. Performing imaging at cryogenic temperature preserves structures in a near-native state and minimizes distortions between the fluorescence and the electron microscopy datasets. Implementations of this concept have achieved correlation on the scale of cellular organelles or bacterial domains.\r\nWe have worked towards pushing correlative imaging to the single-molecule scale by improving cryo-super-resolution microscopy, and devising a refined image correlation workflow. As part of this project, I constructed a microscopy setup and adopted it for super-resolution fluorescence microscopy at room temperature and cryogenic conditions. I explored different cryo-stages and acquisition strategies. Specifically, I developed a new scheme for correcting sample drift, thus increasing mechanical stability during microscopy acquisitions.\r\n" acknowledged_ssus: - _id: M-Shop - _id: EM-Fac - _id: Bio acknowledgement: "The project was supported by CZI grant DAF2021-234754 and grant\r\nDOI: https://doi.org/10.37921/812628ebpcwg from the Chan Zuckerberg Initiative DAF, an\r\nadvised fund of Silicon Valley Community Foundation (funder\r\nDOI: https://doi.org/10.13039/100014989), as well as internal grants from ISTA’s Equipment\r\nInvestment Committee and Interdisciplinary Project Committee. " alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Jakob full_name: Vorlaufer, Jakob id: 937696FA-C996-11E9-8C7C-CF13E6697425 last_name: Vorlaufer orcid: 0009-0000-7590-3501 citation: ama: Vorlaufer J. Construction of a cryo-super-resolution microscope to guide in situ structure analysis. 2025. doi:10.15479/AT-ISTA-20206 apa: Vorlaufer, J. (2025). Construction of a cryo-super-resolution microscope to guide in situ structure analysis. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20206 chicago: Vorlaufer, Jakob. “Construction of a Cryo-Super-Resolution Microscope to Guide in Situ Structure Analysis.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20206. ieee: J. Vorlaufer, “Construction of a cryo-super-resolution microscope to guide in situ structure analysis,” Institute of Science and Technology Austria, 2025. ista: Vorlaufer J. 2025. Construction of a cryo-super-resolution microscope to guide in situ structure analysis. Institute of Science and Technology Austria. mla: Vorlaufer, Jakob. Construction of a Cryo-Super-Resolution Microscope to Guide in Situ Structure Analysis. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20206. short: J. Vorlaufer, Construction of a Cryo-Super-Resolution Microscope to Guide in Situ Structure Analysis, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-08-22T08:12:55Z date_published: 2025-08-25T00:00:00Z date_updated: 2026-10-20T08:55:33Z day: '25' ddc: - '621' - '535' degree_awarded: PhD department: - _id: GradSch - _id: JoDa doi: 10.15479/AT-ISTA-20206 file: - access_level: closed checksum: 191db3367c19c9b32b65f4bc3a7c19de content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: jvorlauf date_created: 2025-08-25T13:49:55Z date_updated: 2025-08-25T13:49:55Z file_id: '20228' file_name: 2025_Vorlaufer_Jakob_Thesis.docx file_size: 39735535 relation: source_file - access_level: open_access checksum: 104400e6036921569610230c1d4899dc content_type: application/pdf creator: jvorlauf date_created: 2025-08-25T13:49:56Z date_updated: 2025-08-25T13:49:56Z file_id: '20229' file_name: 2025_Vorlaufer_Jakob_Thesis.pdf file_size: 10947446 relation: main_file success: 1 file_date_updated: 2025-08-25T13:49:56Z fulldoi: https://doi.org/10.15479/AT-ISTA-20206 has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-sa/4.0/ month: '08' oa: 1 oa_version: Published Version page: '107' project: - _id: 62909c6f-2b32-11ec-9570-e1476aab5308 grant_number: CZI01 name: CryoMinflux-guided in-situ molecular census and structure determination publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '19795' relation: part_of_dissertation status: public status: public supervisor: - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 title: Construction of a cryo-super-resolution microscope to guide in situ structure analysis tmp: image: /images/cc_by_nc_sa.png legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) short: CC BY-NC-SA (4.0) type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '19506' abstract: - lang: eng text: 'Hippocampal reactivation of waking neuronal assemblies in sleep is a key initial step of systems consolidation. Nevertheless, it is unclear whether reactivated assemblies are static or whether they reorganize gradually over prolonged sleep. We tracked reactivated CA1 assembly patterns over ∼20 h of sleep/rest periods and related them to assemblies seen before or after in a spatial learning paradigm using rats. We found that reactivated assembly patterns were gradually transformed and started to resemble those seen in the subsequent recall session. Periods of rapid eye movement (REM) sleep and non-REM (NREM) had antagonistic roles: whereas NREM accelerated the assembly drift, REM countered it. Moreover, only a subset of rate-changing pyramidal cells contributed to the drift, whereas stable-firing-rate cells maintained unaltered reactivation patterns. Our data suggest that prolonged sleep promotes the spontaneous reorganization of spatial assemblies, which can contribute to daily cognitive map changes or encoding new learning situations.' acknowledgement: We thank Andrea Cumpelik, Lisa Genzel, and Freya Ólafsdóttir for comments on an earlier version of the manuscript. This work was supported by the European Research Council (281511) and Austrian Science Fund (FWF I3713). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Lars full_name: Bollmann, Lars id: 47AD3038-F248-11E8-B48F-1D18A9856A87 last_name: Bollmann - first_name: Peter full_name: Baracskay, Peter id: 361CC00E-F248-11E8-B48F-1D18A9856A87 last_name: Baracskay - first_name: Federico full_name: Stella, Federico id: 39AF1E74-F248-11E8-B48F-1D18A9856A87 last_name: Stella orcid: 0000-0001-9439-3148 - first_name: Jozsef L full_name: Csicsvari, Jozsef L id: 3FA14672-F248-11E8-B48F-1D18A9856A87 last_name: Csicsvari orcid: 0000-0002-5193-4036 citation: ama: Bollmann L, Baracskay P, Stella F, Csicsvari JL. Sleep stages antagonistically modulate reactivation drift. Neuron. 2025;113(9):1446-1459.e6. doi:10.1016/j.neuron.2025.02.025 apa: Bollmann, L., Baracskay, P., Stella, F., & Csicsvari, J. L. (2025). Sleep stages antagonistically modulate reactivation drift. Neuron. Cell Press. https://doi.org/10.1016/j.neuron.2025.02.025 chicago: Bollmann, Lars, Peter Baracskay, Federico Stella, and Jozsef L Csicsvari. “Sleep Stages Antagonistically Modulate Reactivation Drift.” Neuron. Cell Press, 2025. https://doi.org/10.1016/j.neuron.2025.02.025. ieee: L. Bollmann, P. Baracskay, F. Stella, and J. L. Csicsvari, “Sleep stages antagonistically modulate reactivation drift,” Neuron, vol. 113, no. 9. Cell Press, p. 1446–1459.e6, 2025. ista: Bollmann L, Baracskay P, Stella F, Csicsvari JL. 2025. Sleep stages antagonistically modulate reactivation drift. Neuron. 113(9), 1446–1459.e6. mla: Bollmann, Lars, et al. “Sleep Stages Antagonistically Modulate Reactivation Drift.” Neuron, vol. 113, no. 9, Cell Press, 2025, p. 1446–1459.e6, doi:10.1016/j.neuron.2025.02.025. short: L. Bollmann, P. Baracskay, F. Stella, J.L. Csicsvari, Neuron 113 (2025) 1446–1459.e6. corr_author: '1' date_created: 2025-04-06T22:01:32Z date_published: 2025-05-07T00:00:00Z date_updated: 2026-10-20T08:54:27Z day: '07' ddc: - '570' department: - _id: JoCs doi: 10.1016/j.neuron.2025.02.025 ec_funded: 1 external_id: isi: - '001510440400001' pmid: - '40132588' file: - access_level: open_access checksum: 5e57852a45a78a751dd3a5e807bf015f content_type: application/pdf creator: dernst date_created: 2025-08-05T12:43:44Z date_updated: 2025-08-05T12:43:44Z file_id: '20133' file_name: 2025_Neuron_Bollmann.pdf file_size: 27047730 relation: main_file success: 1 file_date_updated: 2025-08-05T12:43:44Z fulldoi: https://doi.org/10.1016/j.neuron.2025.02.025 has_accepted_license: '1' intvolume: ' 113' isi: 1 issue: '9' language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 1446-1459.e6 pmid: 1 project: - _id: 257A4776-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '281511' name: Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex - _id: 2654F984-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I 3713-B27 name: Interneuro plasticity during spatial learning publication: Neuron publication_identifier: eissn: - 1097-4199 issn: - 0896-6273 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: link: - description: News on ISTA website relation: press_release url: https://ista.ac.at/en/news/how-sleep-keeps-our-memories-fresh/ scopus_import: '1' status: public title: Sleep stages antagonistically modulate reactivation drift tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 113 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '19443' abstract: - lang: eng text: In cryo-electron microscopy, accurate particle localization and classification are imperative. Recent deep learning solutions, though successful, require extensive training datasets. The protracted generation time of physics-based models, often employed to produce these datasets, limits their broad applicability. We introduce FakET, a method based on neural style transfer, capable of simulating the forward operator of any cryo transmission electron microscope. It can be used to adapt a synthetic training dataset according to reference data producing high-quality simulated micrographs or tilt-series. To assess the quality of our generated data, we used it to train a state-of-the-art localization and classification architecture and compared its performance with a counterpart trained on benchmark data. Remarkably, our technique matches the performance, boosts data generation speed 750x, uses 33x less memory, and scales well to typical transmission electron microscope detector sizes. It leverages GPU acceleration and parallel processing. The source code is available at https://github.com/paloha/faket/. acknowledgement: The IMP and D.H. are generously funded by Boehringer Ingelheim. We thank Julius Berner from the Mathematical Data Science group @ UniVie, Ilja Gubins and Marten Chaillet from the SHREC team, and the members of the Haselbach lab for helpful discussions. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Pavol full_name: Harar, Pavol id: e03d953a-6e8c-11ef-99e4-f0717d385cd5 last_name: Harar orcid: 0000-0001-5206-1794 - first_name: Lukas full_name: Herrmann, Lukas last_name: Herrmann - first_name: Philipp full_name: Grohs, Philipp last_name: Grohs - first_name: David full_name: Haselbach, David last_name: Haselbach citation: ama: 'Harar P, Herrmann L, Grohs P, Haselbach D. FakET: Simulating cryo-electron tomograms with neural style transfer. Structure. 2025;33(4):820-827.e4. doi:10.1016/j.str.2025.01.020' apa: 'Harar, P., Herrmann, L., Grohs, P., & Haselbach, D. (2025). FakET: Simulating cryo-electron tomograms with neural style transfer. Structure. Cell Press. https://doi.org/10.1016/j.str.2025.01.020' chicago: 'Harar, Pavol, Lukas Herrmann, Philipp Grohs, and David Haselbach. “FakET: Simulating Cryo-Electron Tomograms with Neural Style Transfer.” Structure. Cell Press, 2025. https://doi.org/10.1016/j.str.2025.01.020.' ieee: 'P. Harar, L. Herrmann, P. Grohs, and D. Haselbach, “FakET: Simulating cryo-electron tomograms with neural style transfer,” Structure, vol. 33, no. 4. Cell Press, p. 820–827.e4, 2025.' ista: 'Harar P, Herrmann L, Grohs P, Haselbach D. 2025. FakET: Simulating cryo-electron tomograms with neural style transfer. Structure. 33(4), 820–827.e4.' mla: 'Harar, Pavol, et al. “FakET: Simulating Cryo-Electron Tomograms with Neural Style Transfer.” Structure, vol. 33, no. 4, Cell Press, 2025, p. 820–827.e4, doi:10.1016/j.str.2025.01.020.' short: P. Harar, L. Herrmann, P. Grohs, D. Haselbach, Structure 33 (2025) 820–827.e4. corr_author: '1' date_created: 2025-03-23T23:01:27Z date_published: 2025-04-03T00:00:00Z date_updated: 2026-10-20T08:54:10Z day: '03' ddc: - '570' department: - _id: AlMi doi: 10.1016/j.str.2025.01.020 external_id: isi: - '001463196100001' pmid: - '39947174' file: - access_level: open_access checksum: f346bc357a66a88cca3d0eb95793fb73 content_type: application/pdf creator: dernst date_created: 2025-08-05T12:15:13Z date_updated: 2025-08-05T12:15:13Z file_id: '20130' file_name: 2025_Structure_Harar.pdf file_size: 4367530 relation: main_file success: 1 file_date_updated: 2025-08-05T12:15:13Z fulldoi: https://doi.org/10.1016/j.str.2025.01.020 has_accepted_license: '1' intvolume: ' 33' isi: 1 issue: '4' language: - iso: eng month: '04' oa: 1 oa_version: Published Version page: 820-827.e4 pmid: 1 publication: Structure publication_identifier: eissn: - 1878-4186 issn: - 0969-2126 publication_status: published publisher: Cell Press quality_controlled: '1' related_material: link: - relation: software url: https://github.com/paloha/faket/ scopus_import: '1' status: public title: 'FakET: Simulating cryo-electron tomograms with neural style transfer' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 33 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20154' abstract: - lang: eng text: In long-lived mammals, including humans, brain cell homeostasis is critical for maintaining brain function throughout life. Most neurons are generated during development and must maintain their cellular identity and plasticity to preserve brain function. Although extensive studies indicate the importance of recycling and regenerating cellular molecules to maintain cellular homeostasis, recent evidence has shown that some proteins and RNAs do not turn over for months and even years. We propose that these long-lived cellular molecules may be the basis for maintaining brain function in the long term, but also a potential convergent target of brain aging. We highlight key discoveries and challenges, and propose potential directions to unravel the mystery of brain cell longevity. acknowledgement: The work was supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) (470322152 – T1347/3-1; 497658532 – T1347/4-1; 507965872 – T1347/5-1; and 460333672 – CRC1540 Exploring Brain Mechanics) to T.T., the Schram Foundation (T.T.), the European Research Council (ERC-2018-STG, 804468 EAGER; ERC-2023-COG, 101125034 NEUTIME) to T.T., the Hans-Georg Geis und Xue Hong Dong-Geis Foundation and Forschungsstiftung Medizin am Universitätsklinikum Erlangen to T.T., and the Interdisciplinary Centre for Clinical Research Erlangen (Interdisziplinäres Zentrum für Klinische Forschung, Universitätsklinikum Erlangen; P162 to T.T.). We thank Dr Laura J. Harrison for editing assistance. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Martin W full_name: Hetzer, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: Hetzer orcid: 0000-0002-2111-992X - first_name: Tomohisa full_name: Toda, Tomohisa last_name: Toda citation: ama: Hetzer M, Toda T. Long-lived cellular molecules in the brain. Trends in Neurosciences. 2025;48(9):645-654. doi:10.1016/j.tins.2025.07.004 apa: Hetzer, M., & Toda, T. (2025). Long-lived cellular molecules in the brain. Trends in Neurosciences. Cell Press. https://doi.org/10.1016/j.tins.2025.07.004 chicago: Hetzer, Martin, and Tomohisa Toda. “Long-Lived Cellular Molecules in the Brain.” Trends in Neurosciences. Cell Press, 2025. https://doi.org/10.1016/j.tins.2025.07.004. ieee: M. Hetzer and T. Toda, “Long-lived cellular molecules in the brain,” Trends in Neurosciences, vol. 48, no. 9. Cell Press, pp. 645–654, 2025. ista: Hetzer M, Toda T. 2025. Long-lived cellular molecules in the brain. Trends in Neurosciences. 48(9), 645–654. mla: Hetzer, Martin, and Tomohisa Toda. “Long-Lived Cellular Molecules in the Brain.” Trends in Neurosciences, vol. 48, no. 9, Cell Press, 2025, pp. 645–54, doi:10.1016/j.tins.2025.07.004. short: M. Hetzer, T. Toda, Trends in Neurosciences 48 (2025) 645–654. corr_author: '1' date_created: 2025-08-10T22:01:29Z date_published: 2025-09-01T00:00:00Z date_updated: 2026-10-20T08:54:50Z day: '01' ddc: - '570' department: - _id: MaHe doi: 10.1016/j.tins.2025.07.004 external_id: isi: - '001568965400001' pmid: - '40744775' file: - access_level: open_access checksum: 90942491b499f70b0bf48b8aec2e7387 content_type: application/pdf creator: dernst date_created: 2025-12-29T13:47:27Z date_updated: 2025-12-29T13:47:27Z file_id: '20873' file_name: 2025_TrendsNeurosciences_Hetzer.pdf file_size: 327847 relation: main_file success: 1 file_date_updated: 2025-12-29T13:47:27Z fulldoi: https://doi.org/10.1016/j.tins.2025.07.004 has_accepted_license: '1' intvolume: ' 48' isi: 1 issue: '9' language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: 645-654 pmid: 1 publication: Trends in Neurosciences publication_identifier: eissn: - 1878-108X issn: - 0166-2236 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Long-lived cellular molecules in the brain tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 48 year: '2025' ... --- OA_type: closed access _id: '20427' abstract: - lang: eng text: Animal cells migrating up chemotactic gradients often show speed oscillations. A new study describes a molecular circuit that switches zebrafish germ cells between phases of straight runs, tumbling and directional reorientation. article_processing_charge: No article_type: letter_note author: - first_name: Ziqiang full_name: Li, Ziqiang id: 922e68bb-1727-11ee-857c-966e8cc1b6c3 last_name: Li - first_name: Michael K full_name: Sixt, Michael K id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87 last_name: Sixt orcid: 0000-0002-6620-9179 citation: ama: 'LI Z, Sixt MK. Cell migration: How animal cells run and tumble. Current Biology. 2025;35(18):R890-R892. doi:10.1016/j.cub.2025.08.016' apa: 'LI, Z., & Sixt, M. K. (2025). Cell migration: How animal cells run and tumble. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2025.08.016' chicago: 'LI, ZIQIANG, and Michael K Sixt. “Cell Migration: How Animal Cells Run and Tumble.” Current Biology. Cell Press, 2025. https://doi.org/10.1016/j.cub.2025.08.016.' ieee: 'Z. LI and M. K. Sixt, “Cell migration: How animal cells run and tumble,” Current Biology, vol. 35, no. 18. Cell Press, pp. R890–R892, 2025.' ista: 'LI Z, Sixt MK. 2025. Cell migration: How animal cells run and tumble. Current Biology. 35(18), R890–R892.' mla: 'LI, ZIQIANG, and Michael K. Sixt. “Cell Migration: How Animal Cells Run and Tumble.” Current Biology, vol. 35, no. 18, Cell Press, 2025, pp. R890–92, doi:10.1016/j.cub.2025.08.016.' short: Z. LI, M.K. Sixt, Current Biology 35 (2025) R890–R892. corr_author: '1' date_created: 2025-10-05T22:01:35Z date_published: 2025-09-22T00:00:00Z date_updated: 2026-10-20T08:55:09Z day: '22' department: - _id: MiSi doi: 10.1016/j.cub.2025.08.016 external_id: isi: - '001592664700001' pmid: - '40987270' fulldoi: https://doi.org/10.1016/j.cub.2025.08.016 intvolume: ' 35' isi: 1 issue: '18' language: - iso: eng month: '09' oa_version: None page: R890-R892 pmid: 1 publication: Current Biology publication_identifier: eissn: - 1879-0445 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: 'Cell migration: How animal cells run and tumble' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 35 year: '2025' ...