--- OA_place: publisher _id: '19903' abstract: - lang: eng text: "Cooperation, that is, one person paying a cost for another's benefit, is a fundamental principle without which no form of society could exist. The extent to which humans cooperate with each other is also an essential feature that differentiates them from other animals. Cooperation occurs even in the absence of altruistic motivations, when it is selfishly incentivised by the expectation of a future reward. For example, many economic interactions are well described that way. This kind of cooperation requires that people exhibit reciprocal behaviour that acts as a mechanism that rewards cooperation.\r\nWith game-theoretic models, it is possible to formally study potential such mechanisms and under what conditions they can exist. This thesis contributes to this effort by analysing recently introduced models of cooperation that advance on previous work by taking into account the potential for pre-existing inequality among cooperating individuals as well as the different forms that reciprocity can take.\r\nIndividuals may differ both intrinsically, in their abilities, as well as extrinsically, in the amount of resources they have available. Allowing for such differences in a model of cooperation helps to understand how inequality affects the potential for, and outcomes of, cooperation among unequals. In this thesis, it is shown that in the presence of intrinsic inequality, a similar unequal distribution of resources can increase the potential for cooperation. This effect is stronger the smaller the group is in which cooperation takes place. It is also shown that under particular assumptions, if the unequal members of a group vary the size of their contributions to a cooperative effort over time, they can thereby increase their efficiency and improve the collective outcome.\r\nCooperative behaviour in a two-person interaction can be rewarded either by direct reciprocation whenever the same two people interact again, or indirectly by a third party who observed the interaction. In the latter case of indirect reciprocity, individuals are proximally rewarded by a good reputation, which ultimately translates to being rewarded with cooperative behaviour by others. This mechanism can enable selfishly motivated cooperation even in circumstances where individuals are unlikely to meet again, akin to how money facilitates trade. While these two forms of reciprocity have mostly been studied in isolation, this thesis analyses both direct and indirect reciprocity in a general model in order to compare their relative effectiveness under different circumstances. The contribution of this thesis is an extension of previous work regarding a specific kind of interaction, whose parameters allow for convenient mathematical analysis, to the most general set of possible interactions." acknowledgement: "The research for this thesis was supported by the European Research Council\r\n(grant agreements No. 863818 and No. 850529), the European Union’s Horizon 2020 research and innovation programme (Marie Skłodowska-Curie grant agreement No. 754411),\r\nthe Austrian Science Fund (grant DOI 10.55776/COE12), the French Agence Nationale\r\nde la Recherche under the Programme d’investissements d’avenir (project reference 17-\r\nEURE-0010) and the Australian Government through the Australian Research Council\r\n(grant No. SR200100005, “Securing Antarctica’s Environmental Future”)." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Valentin full_name: Hübner, Valentin id: 2c8aa207-dc7d-11ea-9b2f-f22972ecd910 last_name: Hübner orcid: 0009-0001-5009-4987 citation: ama: Hübner V. Reciprocity and inequality in social dilemmas. 2025. doi:10.15479/AT-ISTA-19903 apa: Hübner, V. (2025). Reciprocity and inequality in social dilemmas. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-19903 chicago: Hübner, Valentin. “Reciprocity and Inequality in Social Dilemmas.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19903. ieee: V. Hübner, “Reciprocity and inequality in social dilemmas,” Institute of Science and Technology Austria, 2025. ista: Hübner V. 2025. Reciprocity and inequality in social dilemmas. Institute of Science and Technology Austria. mla: Hübner, Valentin. Reciprocity and Inequality in Social Dilemmas. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-19903. short: V. Hübner, Reciprocity and Inequality in Social Dilemmas, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-06-25T13:50:10Z date_published: 2025-06-25T00:00:00Z date_updated: 2026-10-15T10:10:25Z day: '25' ddc: - '519' degree_awarded: PhD department: - _id: GradSch - _id: KrCh doi: 10.15479/AT-ISTA-19903 doi_confirm: '1' ec_funded: 1 file: - access_level: closed checksum: 794c02f8c82ca59ba6dda3bd7eed871a content_type: application/x-xz creator: vhuebner date_created: 2025-06-25T13:38:07Z date_updated: 2025-06-25T13:38:07Z file_id: '19905' file_name: Thesis Valentin Hübner source.tar.xz file_size: 6192760 relation: source_file - access_level: open_access checksum: ac56063d81c81e40322b6ff5a8c4912e content_type: application/pdf creator: vhuebner date_created: 2025-07-09T13:37:00Z date_updated: 2025-07-09T13:37:00Z file_id: '19976' file_name: Thesis Valentin Hübner.pdf file_size: 4837864 relation: main_file file_date_updated: 2025-07-09T13:37:00Z fulldoi: https://doi.org/10.15479/AT-ISTA-19903 has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ month: '06' oa: 1 oa_version: Published Version page: '157' project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 4029cfc7-b034-11f1-9e55-88ab2ff3b6ee grant_number: COE12 name: Bilateral Artificial Intelligence (Chatterjee) publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '19843' relation: part_of_dissertation status: public - id: '19074' relation: part_of_dissertation status: public - id: '15083' relation: part_of_dissertation status: public status: public supervisor: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X title: Reciprocity and inequality in social dilemmas 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: dissertation user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2025' ... --- OA_place: publisher _id: '20138' abstract: - lang: eng text: "The evolution shapes the world around us.\r\nNot only in biology, where the fittest individuals spread their genes but also in physics and social dynamics, the evolutionary forces determine the development of a state of matter or public opinions.\r\nMany models describe these dynamics.\r\nThis thesis examines the role of the structure in the models of selection.\r\nThe population structure is represented as a graph or a network, and each vertex is occupied by one individual.\r\nEvery individual has a type and fitness that represents the reproductive potential and depends on the type, occupied vertex, and the arrangement of the neighbors.\r\nThe evolution is modeled in discrete steps; in one step, one individual is replaced by a neighbor selected randomly with the influence of fitness.\r\n\r\n\r\n\r\nThe role of the networks is widely examined in the literature.\r\nThe structures that promote the spread of the desired type compared to the structureless case are called amplifiers.\r\nThe existence of amplifiers in various settings is an intensively studied topic, and in some settings, the amplifiers have been identified.\r\nMoreover, there are other important questions about the number of steps until one type spreads over the whole network (fixation time), the computational complexity, and the questions about the robustness of these processes.\r\n\r\n\r\nThis thesis explores the role of structure in evolution from many perspectives.\r\nFirst, it introduces different models and various choices that can be made in the models of evolution.\r\nIt highlights the role of the structure in the real world and how this is reflected in these models.\r\nThen, it describes the previous results and open problems.\r\nSecond, the thesis describes an amplifier for two variants of the Moran process: one with a constant birth rate and the other with a constant death rate.\r\nThis is an important contribution to the robustness of the amplification.\r\nThird, the thesis determines the complexity of spatial games.\r\nThese are processes where the fitness comes from a game, and the strength of selection is high.\r\nIt shows that determining the fate of cooperation in these games is a PSPACE-complete problem.\r\nFourth, the thesis describes the amplifier of cooperation for spatial games.\r\nThis is the first amplifier in this setting.\r\nFifth, the thesis examines the coexistence in the Moran process with environmental heterogeneity.\r\nIn this setting, the fitness depends not only on the type of the individual but also on the occupied vertex.\r\nThe chapter determines the relationship between the interactions of vertices of different types and the coexistence time.\r\nSixth, the thesis examines the social balance on networks and proposes a stochastic dynamic partially aware of the state of the graph, which reaches a balanced position quickly.\r\nFinally, the thesis presents conclusions and outlines the directions for future work.\r\n\r\n\r\n" acknowledgement: "This work was supported by the European Research Council CoG 863818 (ForMSMArt) and Austrian Science Fund 10.55776/COE12.\r\n" alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Jakub full_name: Svoboda, Jakub id: 130759D2-D7DD-11E9-87D2-DE0DE6697425 last_name: Svoboda orcid: 0000-0002-1419-3267 citation: ama: Svoboda J. Structural properties of games on graphs. 2025. doi:10.15479/AT-ISTA-20138 apa: Svoboda, J. (2025). Structural properties of games on graphs. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20138 chicago: Svoboda, Jakub. “Structural Properties of Games on Graphs.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20138. ieee: J. Svoboda, “Structural properties of games on graphs,” Institute of Science and Technology Austria, 2025. ista: Svoboda J. 2025. Structural properties of games on graphs. Institute of Science and Technology Austria. mla: Svoboda, Jakub. Structural Properties of Games on Graphs. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20138. short: J. Svoboda, Structural Properties of Games on Graphs, Institute of Science and Technology Austria, 2025. corr_author: '1' das_tickbox: '1' date_created: 2025-08-05T14:33:59Z date_published: 2025-08-05T00:00:00Z date_updated: 2026-10-16T08:00:05Z day: '05' ddc: - '000' - '519' degree_awarded: PhD department: - _id: GradSch - _id: KrCh doi: 10.15479/AT-ISTA-20138 doi_confirm: '1' ec_funded: 1 file: - access_level: open_access checksum: c6c4df9777f4537940de7ab392ad57e2 content_type: application/pdf creator: jsvoboda date_created: 2025-08-14T09:54:43Z date_updated: 2025-08-14T09:54:43Z file_id: '20177' file_name: 2025_Svoboda_Jakub_Thesis.pdf file_size: 5927291 relation: main_file success: 1 - access_level: closed checksum: 485e9f9822821bc03666d245d80aaa08 content_type: application/zip creator: jsvoboda date_created: 2025-08-14T09:55:20Z date_updated: 2025-08-21T11:48:39Z file_id: '20178' file_name: 2025_Svoboda_Jakub_Thesis.zip file_size: 6731815 relation: source_file file_date_updated: 2025-08-21T11:48:39Z fulldoi: https://doi.org/10.15479/AT-ISTA-20138 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: '167' project: - _id: 0599E47C-7A3F-11EA-A408-12923DDC885E call_identifier: H2020 grant_number: '863818' name: 'Formal Methods for Stochastic Models: Algorithms and Applications' - _id: 4029cfc7-b034-11f1-9e55-88ab2ff3b6ee grant_number: COE12 name: Bilateral Artificial Intelligence (Chatterjee) publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria publisher_comment: "Chapter 4 is copyrighted by CC BY-NC-ND\r\n4.0, which prohibits derivatives. Chapter 6 is copyrighted: Copyright (2025) by the American\r\nPhysical Society. For a copy, redistribution, or modification needs to be permitted by the\r\nAmerican Physical Society.\r\n" related_material: record: - id: '12787' relation: part_of_dissertation status: public - id: '12101' relation: part_of_dissertation status: public - id: '12257' relation: part_of_dissertation status: public - id: '15297' relation: part_of_dissertation status: public - id: '18703' relation: part_of_dissertation status: public status: public supervisor: - first_name: Krishnendu full_name: Chatterjee, Krishnendu id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87 last_name: Chatterjee orcid: 0000-0002-4561-241X title: Structural properties of games on graphs 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2025' ... --- OA_place: publisher _id: '20575' abstract: - lang: eng text: "This thesis deals with eigenvalue and eigenvector universality results for random matrix ensembles equipped with non-trivial spatial structure. We consider both mean-field models with a general variance profile (Wigner-type matrices) and correlation structure (correlated matrices) among the entries, as well as non-mean-field random band matrices with bandwidth W >> N^(1/2).\r\n\r\nTo extract the universal properties of random matrix spectra and eigenvectors, we obtain concentration estimates for their resolvent, the local laws, which generalize the celebrated Wigner semicircle law for a broad class of random matrices to much finer spectral scales. The local laws hold for both a single resolvent as well as for products of multiple resolvents, known as resolvent chains, and express the remarkable approximately-deterministic behavior of these objects down to the microscopic scale.\r\n\r\nOur primary tool for establishing the local laws is the dynamical Zigzag strategy, which we develop in the setting of spatially-inhomogeneous random matrices. Our proof method systematically addresses the challenges arising from non-trivial spatial structures and is robust to all types of singularities in the spectrum, as we demonstrate in the correlated setting. Furthermore, we incorporate the analysis of the deterministic resolvent chain approximations into the dynamical framework of the Zigzag strategy, synthesizing a unified toolkit for establishing multi-resolvent local laws.\r\n\r\nUsing these methods, we prove complete eigenvector delocalization, the Eigenstate Thermalization Hypothesis, and Wigner-Dyson universality in the bulk for random band matrices down to the optimal bandwidth W >> N^(1/2). For mean-field ensembles, we establish universality of local eigenvalue statistics at the cups for random matrices with correlated entries, and the Eigenstate Thermalization Hypothesis for Wigner-type matrices in the bulk of the spectrum.\r\n\r\nFinally, this thesis also contains other applications of the multi-resolvent local laws to spatially-inhomogeneous random matrices, obtained prior to the development of the Zigzag strategy. In particular, we provide a complete analysis of mesoscopic linear-eigenvalue statistics of Wigner-type matrices in all spectral regimes, including the novel cusps, and rigorously establish the prethermalization phenomenon for deformed Wigner matrices.\r\n\r\nThe main body of this thesis consists of seven research papers (listed on page xi), each presented in a separate chapter with its own introduction and all relevant context, suitable to be read independently. We ask the reader’s indulgence for the repetitions in the historical overviews and other minor redundancies that remain among the chapters as a result. The overall Introduction, preceding the chapters, provides a condensed, informal summary of the main ideas and concepts at the core of these works.\r\n" acknowledgement: "The work comprising this thesis was supported by the ERC Advanced Grant \"RMTBeyond\"\r\nNo.101020331 awarded to my advisor." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Volodymyr full_name: Riabov, Volodymyr id: 1949f904-edfb-11eb-afb5-e2dfddabb93b last_name: Riabov citation: ama: Riabov V. Universality in random matrices with spatial structure. 2025. doi:10.15479/AT-ISTA-20575 apa: Riabov, V. (2025). Universality in random matrices with spatial structure. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20575 chicago: Riabov, Volodymyr. “Universality in Random Matrices with Spatial Structure.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20575. ieee: V. Riabov, “Universality in random matrices with spatial structure,” Institute of Science and Technology Austria, 2025. ista: Riabov V. 2025. Universality in random matrices with spatial structure. Institute of Science and Technology Austria. mla: Riabov, Volodymyr. Universality in Random Matrices with Spatial Structure. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20575. short: V. Riabov, Universality in Random Matrices with Spatial Structure, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-10-29T19:12:24Z date_published: 2025-11-03T00:00:00Z date_updated: 2026-10-16T08:41:47Z day: '3' ddc: - '515' - '519' degree_awarded: PhD department: - _id: GradSch - _id: LaEr doi: 10.15479/AT-ISTA-20575 ec_funded: 1 file: - access_level: open_access checksum: 6a0487b2b66bb35d44b394756d44b8b4 content_type: application/pdf creator: vriabov date_created: 2025-10-29T18:53:59Z date_updated: 2025-10-29T18:53:59Z file_id: '20577' file_name: riabov_thesis-pdfa.pdf file_size: 7536583 relation: main_file success: 1 - access_level: closed checksum: 224efda6bf9864d296a1e5e0124c1e8f content_type: application/x-zip-compressed creator: vriabov date_created: 2025-10-29T18:54:53Z date_updated: 2025-10-29T18:54:53Z file_id: '20578' file_name: manuscript.zip file_size: 17841612 relation: source_file file_date_updated: 2025-10-29T18:54:53Z fulldoi: https://doi.org/10.15479/AT-ISTA-20575 has_accepted_license: '1' language: - iso: eng month: '11' oa: 1 oa_version: Published Version page: '436' project: - _id: 62796744-2b32-11ec-9570-940b20777f1d call_identifier: H2020 grant_number: '101020331' name: Random matrices beyond Wigner-Dyson-Mehta publication_identifier: isbn: - 978-3-99078-064-0 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '20322' relation: part_of_dissertation status: public - id: '13317' relation: part_of_dissertation status: public - id: '19368' relation: part_of_dissertation status: deleted - id: '20576' relation: part_of_dissertation status: public - id: '17174' relation: part_of_dissertation status: public - id: '19547' relation: part_of_dissertation status: public - id: '19598' relation: part_of_dissertation status: public - id: '18554' relation: part_of_dissertation status: public - id: '18764' relation: part_of_dissertation status: public status: public supervisor: - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 title: Universality in random matrices with spatial structure 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 _id: '19540' abstract: - lang: eng text: "This thesis deals with several different models for complex quantum mechanical systems and is structured in three main parts. \r\n\t\r\nIn Part I, we study mean field random matrices as models for quantum Hamiltonians. Our focus lies on proving concentration estimates for resolvents of random matrices, so-called local laws, mostly in the setting of multiple resolvents. These estimates have profound consequences for eigenvector overlaps and thermalization problems. More concretely, we obtain, e.g., the optimal eigenstate thermalization hypothesis (ETH) uniformly in the spectrum for Wigner matrices, an optimal lower bound on non-Hermitian eigenvector overlaps, and prethermalization for deformed Wigner matrices.\tIn order to prove our novel multi-resolvent local laws, we develop and devise two main methods, the static Psi-method and the dynamical Zigzag strategy. \r\n\t\r\nIn Part II, we study Bardeen-Cooper-Schrieffer (BCS) theory, the standard mean field microscopic theory of superconductivity. We focus on asymptotic formulas for the characteristic critical temperature and energy gap of a superconductor and prove universality of their ratio in various physical regimes. Additionally, we investigate multi-band superconductors and show that inter-band coupling effects can only enhance the critical temperature. \r\n\t\r\nIn Part III, we study quantum lattice systems. On the one hand, we show a strong version of the local-perturbations-perturb-locally (LPPL) principle for the ground state of weakly interacting quantum spin systems with a uniform on-site gap. On the other hand, we introduce a notion of a local gap and rigorously justify response theory and the Kubo formula under the weakened assumption of a local gap. \r\n\t\r\nAdditionally, we discuss two classes of problems which do not fit into the three main parts of the thesis. These are deformational rigidity of Liouville metrics on the torus and relativistic toy models of particle creation via interior-boundary-conditions (IBCs). " alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Sven Joscha full_name: Henheik, Sven Joscha id: 31d731d7-d235-11ea-ad11-b50331c8d7fb last_name: Henheik orcid: 0000-0003-1106-327X citation: ama: 'Henheik SJ. Modeling complex quantum systems: Random matrices, BCS theory, and quantum lattice systems. 2025. doi:10.15479/AT-ISTA-19540' apa: 'Henheik, S. J. (2025). Modeling complex quantum systems: Random matrices, BCS theory, and quantum lattice systems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-19540' chicago: 'Henheik, Sven Joscha. “Modeling Complex Quantum Systems: Random Matrices, BCS Theory, and Quantum Lattice Systems.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19540.' ieee: 'S. J. Henheik, “Modeling complex quantum systems: Random matrices, BCS theory, and quantum lattice systems,” Institute of Science and Technology Austria, 2025.' ista: 'Henheik SJ. 2025. Modeling complex quantum systems: Random matrices, BCS theory, and quantum lattice systems. Institute of Science and Technology Austria.' mla: 'Henheik, Sven Joscha. Modeling Complex Quantum Systems: Random Matrices, BCS Theory, and Quantum Lattice Systems. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-19540.' short: 'S.J. Henheik, Modeling Complex Quantum Systems: Random Matrices, BCS Theory, and Quantum Lattice Systems, Institute of Science and Technology Austria, 2025.' corr_author: '1' date_created: 2025-04-10T21:21:18Z date_published: 2025-04-10T00:00:00Z date_updated: 2026-10-16T08:41:47Z day: '10' ddc: - '519' degree_awarded: PhD department: - _id: GradSch - _id: LaEr doi: 10.15479/AT-ISTA-19540 doi_confirm: '1' ec_funded: 1 file: - access_level: closed checksum: b8477ae5578436c72c3bb4193ad34ac5 content_type: application/zip creator: shenheik date_created: 2025-04-10T21:14:18Z date_updated: 2025-04-10T21:14:18Z file_id: '19542' file_name: Henheik-Thesis_source_final.zip file_size: 4107587 relation: source_file - access_level: open_access checksum: e9fc0ea12ec46c9f71110c33217c4140 content_type: application/pdf creator: shenheik date_created: 2025-04-11T13:16:05Z date_updated: 2025-04-11T13:16:05Z file_id: '19553' file_name: Henheik-Thesis-pdfa_FINAL.pdf file_size: 9999492 relation: main_file success: 1 - access_level: closed checksum: f94580f86c785e7108eb116cd189e225 content_type: application/pdf creator: cchlebak date_created: 2025-04-23T14:10:27Z date_updated: 2025-04-23T14:10:27Z file_id: '19615' file_name: Henheik-Thesis-Volume1_print.pdf file_size: 13276442 relation: other - access_level: closed checksum: b927ead3c78020ffb32918911deedb74 content_type: application/pdf creator: cchlebak date_created: 2025-04-23T14:11:05Z date_updated: 2025-04-23T14:11:05Z file_id: '19616' file_name: Henheik-Thesis-Volume2_print.pdf file_size: 7628767 relation: other file_date_updated: 2025-04-23T14:11:05Z fulldoi: https://doi.org/10.15479/AT-ISTA-19540 has_accepted_license: '1' language: - iso: eng month: '04' oa: 1 oa_version: Published Version page: '720' project: - _id: 62796744-2b32-11ec-9570-940b20777f1d call_identifier: H2020 grant_number: '101020331' name: Random matrices beyond Wigner-Dyson-Mehta publication_identifier: isbn: - 978-3-99078-057-2 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '14343' relation: part_of_dissertation status: public - id: '13317' relation: part_of_dissertation status: public - id: '11732' relation: part_of_dissertation status: public - id: '12184' relation: part_of_dissertation status: public - id: '14421' relation: part_of_dissertation status: public - id: '10623' relation: part_of_dissertation status: public - id: '18112' relation: part_of_dissertation status: public - id: '19001' relation: part_of_dissertation status: public - id: '10642' relation: part_of_dissertation status: public - id: '19545' relation: part_of_dissertation status: public - id: '19546' relation: part_of_dissertation status: public - id: '19550' relation: part_of_dissertation status: public - id: '19551' relation: part_of_dissertation status: public - id: '19552' relation: part_of_dissertation status: public - id: '19547' relation: part_of_dissertation status: public - id: '19548' relation: part_of_dissertation status: public - id: '14542' relation: part_of_dissertation status: public - id: '18656' relation: part_of_dissertation status: public - id: '17049' relation: part_of_dissertation status: public - id: '18764' relation: part_of_dissertation status: public status: public supervisor: - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 title: 'Modeling complex quantum systems: Random matrices, BCS theory, and quantum lattice systems' 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: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '18764' abstract: - lang: eng text: We prove that a class of weakly perturbed Hamiltonians of the form H_λ= H_0 + λW, with W being a Wigner matrix, exhibits prethermalization. That is, the time evolution generated by H_λ relaxes to its ultimate thermal state via an intermediate prethermal state with a lifetime of order λ^{-2}. Moreover, we obtain a general relaxation formula, expressing the perturbed dynamics via the unperturbed dynamics and the ultimate thermal state. The proof relies on a two-resolvent law for the deformed Wigner matrix H_λ. acknowledgement: "All authors were supported by the ERC Advanced Grant “RMTBeyond” No. 101020331.\r\nJ.R. was additionally supported by the ERC Advanced Grant “LDRaM” No. 884584.\r\nWe thank Peter Reimann and Lennart Dabelow for helpful comments. Open access funding provided by Institute of Science and Technology (IST Austria)." article_processing_charge: Yes (via OA deal) article_type: original arxiv: 1 author: - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Sven Joscha full_name: Henheik, Sven Joscha id: 31d731d7-d235-11ea-ad11-b50331c8d7fb last_name: Henheik orcid: 0000-0003-1106-327X - first_name: Jana full_name: Reker, Jana id: e796e4f9-dc8d-11ea-abe3-97e26a0323e9 last_name: Reker - first_name: Volodymyr full_name: Riabov, Volodymyr id: 1949f904-edfb-11eb-afb5-e2dfddabb93b last_name: Riabov citation: ama: Erdös L, Henheik SJ, Reker J, Riabov V. Prethermalization for deformed Wigner matrices. Annales Henri Poincare. 2025;26:1991-2033. doi:10.1007/s00023-024-01518-y apa: Erdös, L., Henheik, S. J., Reker, J., & Riabov, V. (2025). Prethermalization for deformed Wigner matrices. Annales Henri Poincare. Springer Nature. https://doi.org/10.1007/s00023-024-01518-y chicago: Erdös, László, Sven Joscha Henheik, Jana Reker, and Volodymyr Riabov. “Prethermalization for Deformed Wigner Matrices.” Annales Henri Poincare. Springer Nature, 2025. https://doi.org/10.1007/s00023-024-01518-y. ieee: L. Erdös, S. J. Henheik, J. Reker, and V. Riabov, “Prethermalization for deformed Wigner matrices,” Annales Henri Poincare, vol. 26. Springer Nature, pp. 1991–2033, 2025. ista: Erdös L, Henheik SJ, Reker J, Riabov V. 2025. Prethermalization for deformed Wigner matrices. Annales Henri Poincare. 26, 1991–2033. mla: Erdös, László, et al. “Prethermalization for Deformed Wigner Matrices.” Annales Henri Poincare, vol. 26, Springer Nature, 2025, pp. 1991–2033, doi:10.1007/s00023-024-01518-y. short: L. Erdös, S.J. Henheik, J. Reker, V. Riabov, Annales Henri Poincare 26 (2025) 1991–2033. corr_author: '1' das_tickbox: '0' date_created: 2025-01-05T23:01:59Z date_published: 2025-06-01T00:00:00Z date_updated: 2026-10-16T08:41:47Z day: '01' ddc: - '510' department: - _id: LaEr doi: 10.1007/s00023-024-01518-y ec_funded: 1 external_id: arxiv: - '2310.06677' isi: - '001385326500001' file: - access_level: open_access checksum: 49e6a934db540206f7eaa0c798553ded content_type: application/pdf creator: dernst date_created: 2025-06-25T05:38:34Z date_updated: 2025-06-25T05:38:34Z file_id: '19895' file_name: 2025_AnnalesHenriPoincare_Erdoes.pdf file_size: 977773 relation: main_file success: 1 file_date_updated: 2025-06-25T05:38:34Z fulldoi: https://doi.org/10.1007/s00023-024-01518-y has_accepted_license: '1' intvolume: ' 26' isi: 1 language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: 1991-2033 project: - _id: 62796744-2b32-11ec-9570-940b20777f1d call_identifier: H2020 grant_number: '101020331' name: Random matrices beyond Wigner-Dyson-Mehta publication: Annales Henri Poincare publication_identifier: issn: - 1424-0637 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '17174' relation: earlier_version status: public - id: '20575' relation: dissertation_contains status: public - id: '19540' relation: dissertation_contains status: public researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: yes title: Prethermalization for deformed Wigner matrices 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: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 26 year: '2025' ... --- OA_type: closed access _id: '18707' abstract: - lang: eng text: Lead Sulfide (PbS) has garnered attention as a promising thermoelectric (TE) material due to its natural abundance and cost-effectiveness. However, its practical application is hindered by inherently high lattice thermal conductivity and low electrical conductivity. In this study, we address these challenges by surface functionalization of PbS nanocrystals using Cu2S molecular complexes-based ligand displacement. The molecular complexes facilitate the incorporation of Cu into the PbS matrix and leads to the formation of nanoscale defects, dislocations, and strain fields while optimizing the charge carrier transport. The structural modulations enhance the phonon scattering and lead to a significant reduction in lattice thermal conductivity of 0.60 W m−1K−1 at 867 K in the PbS-Cu2S system. Simultaneously, the Cu incorporation improves electrical conductivity by increasing both carrier concentration and mobility with carefully optimized the content of Cu2S molecular complexes. These synergistic modifications yield a peak figure-of-merit (zT) of 1.05 at 867 K for the PbS-1.0 %Cu2S sample, representing an almost twofold enhancement in TE performance compared to pristine PbS. This work highlights the effectiveness of surface treatment in overcoming the intrinsic limitations of PbS-based materials and presents a promising strategy for the development of high-efficiency TE systems. acknowledgement: Y.L. acknowledges funding from the National Natural Science Foundation of China (NSFC) (Grants No. 22209034), the Innovation and Entrepreneurship Project of Overseas Returnees in Anhui Province (Grant No. 2022LCX002) and the Fundamental Research Funds for the Central Universities (JZ2024HGTB0239). M.I. acknowledges financial support from ISTA and the Werner Siemens Foundation. K.H.L. acknowledges financial support from the National Natural Science Foundation of China (NSFC) (Grant No. 22208293). M.H acknowledges funding from Australian Research Council (FT230100316 and IH200100035) and iLAuNCH, Trailblazer Universities Program. L. H. and S. W. acknowledge the Fundamental Research Funds for the Central Universities (JZ2023HGTA0179, JZ2024HGTA0170). article_processing_charge: No article_type: original author: - first_name: Haibo full_name: Shu, Haibo last_name: Shu - first_name: Mingjun full_name: Zhao, Mingjun last_name: Zhao - first_name: Shaoqing full_name: Lu, Shaoqing last_name: Lu - first_name: Shanhong full_name: Wan, Shanhong last_name: Wan - first_name: Aziz full_name: Genç, Aziz last_name: Genç - first_name: Lulu full_name: Huang, Lulu last_name: Huang - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Khak Ho full_name: Lim, Khak Ho last_name: Lim - first_name: Min full_name: Hong, Min last_name: Hong - first_name: Yu full_name: Liu, Yu id: 2A70014E-F248-11E8-B48F-1D18A9856A87 last_name: Liu orcid: 0000-0001-7313-6740 citation: ama: Shu H, Zhao M, Lu S, et al. Influence of surface engineering on the transport properties of lead sulfide nanomaterials. Journal of Colloid and Interface Science. 2025;683:703-712. doi:10.1016/j.jcis.2024.12.067 apa: Shu, H., Zhao, M., Lu, S., Wan, S., Genç, A., Huang, L., … Liu, Y. (2025). Influence of surface engineering on the transport properties of lead sulfide nanomaterials. Journal of Colloid and Interface Science. Elsevier. https://doi.org/10.1016/j.jcis.2024.12.067 chicago: Shu, Haibo, Mingjun Zhao, Shaoqing Lu, Shanhong Wan, Aziz Genç, Lulu Huang, Maria Ibáñez, Khak Ho Lim, Min Hong, and Yu Liu. “Influence of Surface Engineering on the Transport Properties of Lead Sulfide Nanomaterials.” Journal of Colloid and Interface Science. Elsevier, 2025. https://doi.org/10.1016/j.jcis.2024.12.067. ieee: H. Shu et al., “Influence of surface engineering on the transport properties of lead sulfide nanomaterials,” Journal of Colloid and Interface Science, vol. 683. Elsevier, pp. 703–712, 2025. ista: Shu H, Zhao M, Lu S, Wan S, Genç A, Huang L, Ibáñez M, Lim KH, Hong M, Liu Y. 2025. Influence of surface engineering on the transport properties of lead sulfide nanomaterials. Journal of Colloid and Interface Science. 683, 703–712. mla: Shu, Haibo, et al. “Influence of Surface Engineering on the Transport Properties of Lead Sulfide Nanomaterials.” Journal of Colloid and Interface Science, vol. 683, Elsevier, 2025, pp. 703–12, doi:10.1016/j.jcis.2024.12.067. short: H. Shu, M. Zhao, S. Lu, S. Wan, A. Genç, L. Huang, M. Ibáñez, K.H. Lim, M. Hong, Y. Liu, Journal of Colloid and Interface Science 683 (2025) 703–712. das_tickbox: '1' dataavailabilitystatement: Data will be made available on request. date_created: 2024-12-29T23:01:56Z date_published: 2025-04-01T00:00:00Z date_updated: 2026-10-16T09:22:32Z day: '01' department: - _id: MaIb doi: 10.1016/j.jcis.2024.12.067 external_id: isi: - '001393340800001' pmid: - '39706089' fulldoi: https://doi.org/10.1016/j.jcis.2024.12.067 intvolume: ' 683' isi: 1 language: - iso: eng month: '04' oa_version: None page: 703-712 pmid: 1 project: - _id: 9B8F7476-BA93-11EA-9121-9846C619BF3A name: 'HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery' publication: Journal of Colloid and Interface Science publication_identifier: eissn: - 1095-7103 issn: - 0021-9797 publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: upon request scopus_import: '1' status: public supplementarymaterial: yes title: Influence of surface engineering on the transport properties of lead sulfide nanomaterials type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 683 year: '2025' ... --- OA_type: closed access _id: '18558' abstract: - lang: eng text: The current investigation presents a facile and cost-effective sol-gel approach for the synthesis of phase-pure multiferroic bismuth ferrite (BiFeO3) nanoparticles (BFO NPs) by using propylene glycol as a complexing agent, intended for use as a photocatalyst to efficiently degrade organic dyes in aqueous solutions under natural sunlight. Characterization techniques, including thermogravimetric analysis (TGA), Fourier transform infrared spectroscopy (FT-IR), and X-ray diffraction (XRD), elucidated a plausible reaction pathway for the formation of phase-pure BFO NPs. Rietveld refinement of the XRD data, in conjunction with transmission electron microscopy (TEM) and Raman spectroscopy, confirmed the synthesis of single-phase BFO NPs at 400 °C, displaying a space group of R3c and an average crystallite size of 25 nm. UV–visible diffuse reflectance spectroscopy revealed an absorption cut-off wavelength near 590 nm, corresponding to a band gap of 2.08 eV, indicating the capability of BFO NPs to absorb visible light within the 400–590 nm range. BFO NPs have shown efficient and rapid photocatalytic degradation of methylene blue (MB) in acidic, neutral, and basic pH conditions under natural sunlight. This is attributed to the intrinsic ferroelectric and ferromagnetic ordering present in synthesized BFO NPs which facilitates the separation and migration of photoinduced charges through band bending phenomena at the interface. acknowledgement: "Simant Kumar Srivastav greatly acknowledges the University Grant Commission (UGC), New Delhi, India for providing BSR start-up grant to carry out this research work.\r\nThis research was supported by start-up grant of the University Grant Commission (UGC), New Delhi, India through project no F-30-500/2019 (BSR)." article_processing_charge: No article_type: original author: - first_name: Madhu full_name: Verma, Madhu last_name: Verma - first_name: Ajay full_name: Kumar, Ajay last_name: Kumar - first_name: Vijay Kumar full_name: Thakur, Vijay Kumar last_name: Thakur - first_name: Akanksha full_name: Maurya, Akanksha last_name: Maurya - first_name: Sachin full_name: Kumar, Sachin last_name: Kumar - first_name: Saurabh full_name: Singh, Saurabh id: 12d625da-9cb3-11ed-9667-af09d37d3f0a last_name: Singh orcid: 0000-0003-2209-5269 - first_name: Simant Kumar full_name: Srivastav, Simant Kumar last_name: Srivastav citation: ama: Verma M, Kumar A, Thakur VK, et al. Efficient and rapid sunlight-driven photocatalytic degradation of methylene blue dye using multiferroic BiFeO3 nanoparticles. Journal of Sol-Gel Science and Technology. 2025;113:356-373. doi:10.1007/s10971-024-06607-2 apa: Verma, M., Kumar, A., Thakur, V. K., Maurya, A., Kumar, S., Singh, S., & Srivastav, S. K. (2025). Efficient and rapid sunlight-driven photocatalytic degradation of methylene blue dye using multiferroic BiFeO3 nanoparticles. Journal of Sol-Gel Science and Technology. Springer Nature. https://doi.org/10.1007/s10971-024-06607-2 chicago: Verma, Madhu, Ajay Kumar, Vijay Kumar Thakur, Akanksha Maurya, Sachin Kumar, Saurabh Singh, and Simant Kumar Srivastav. “Efficient and Rapid Sunlight-Driven Photocatalytic Degradation of Methylene Blue Dye Using Multiferroic BiFeO3 Nanoparticles.” Journal of Sol-Gel Science and Technology. Springer Nature, 2025. https://doi.org/10.1007/s10971-024-06607-2. ieee: M. Verma et al., “Efficient and rapid sunlight-driven photocatalytic degradation of methylene blue dye using multiferroic BiFeO3 nanoparticles,” Journal of Sol-Gel Science and Technology, vol. 113. Springer Nature, pp. 356–373, 2025. ista: Verma M, Kumar A, Thakur VK, Maurya A, Kumar S, Singh S, Srivastav SK. 2025. Efficient and rapid sunlight-driven photocatalytic degradation of methylene blue dye using multiferroic BiFeO3 nanoparticles. Journal of Sol-Gel Science and Technology. 113, 356–373. mla: Verma, Madhu, et al. “Efficient and Rapid Sunlight-Driven Photocatalytic Degradation of Methylene Blue Dye Using Multiferroic BiFeO3 Nanoparticles.” Journal of Sol-Gel Science and Technology, vol. 113, Springer Nature, 2025, pp. 356–73, doi:10.1007/s10971-024-06607-2. short: M. Verma, A. Kumar, V.K. Thakur, A. Maurya, S. Kumar, S. Singh, S.K. Srivastav, Journal of Sol-Gel Science and Technology 113 (2025) 356–373. das_tickbox: '1' dataavailabilitystatement: No datasets were generated or analyzed during the current study. date_created: 2024-11-17T23:01:47Z date_published: 2025-02-01T00:00:00Z date_updated: 2026-10-16T09:21:57Z day: '01' department: - _id: MaIb doi: 10.1007/s10971-024-06607-2 external_id: isi: - '001348590700001' fulldoi: https://doi.org/10.1007/s10971-024-06607-2 intvolume: ' 113' isi: 1 language: - iso: eng month: '02' oa_version: None page: 356-373 publication: Journal of Sol-Gel Science and Technology publication_identifier: eissn: - 1573-4846 issn: - 0928-0707 publication_status: published publisher: Springer Nature quality_controlled: '1' researchdata_availability: not applicable scopus_import: '1' status: public supplementarymaterial: yes title: Efficient and rapid sunlight-driven photocatalytic degradation of methylene blue dye using multiferroic BiFeO3 nanoparticles type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 113 year: '2025' ... --- OA_type: closed access _id: '18701' abstract: - lang: eng text: We developed in-situ engineered polycrystalline polythiophene (PTh) and its composite with reduced graphene oxide (PTh-rGO) via a simple chemical synthesis. The PTh-rGO-based electrodes in a symmetrical device with xanthan gum in 1 M aq. Na2SO4 as an electrolyte, delivers a specific capacitance (Csp) of 114.7 F g–1 (electrode) and 28.7 F g–1 (cell) at an applied current density of 0.2 A g−1. The maximum energy and power densities recorded from the device were 588.0 mWh kg−1 and 1.1 kW kg−1 at 1.5 A g−1. The device exhibited a remarkable retention of Csp of 98.9 % over 10,000 continuous galvanostatic charge–discharge cycles highlighting an excellent performance. Electrochemical impedance spectroscopy analysis emphasizes material’s excellent structural integrity. This is attributed to the crystalline phases present in the matrix. acknowledgement: This work was partly supported by the Institute of Information & Communications Technology Planning & Evaluation (IITP) grant funded by the Korea government (MSIT) (No.RS-2021-II210077) and Korea Institute of Energy Technology Evaluation and Planning (KETEP) grant funded by the Korea government (MOTIE)(RS-2024-00398346, ESS BigData-Based O&M and Asset Management Technical Manpower Training). article_number: '137869' article_processing_charge: No article_type: original author: - first_name: Neelima full_name: Mahato, Neelima last_name: Mahato - first_name: Saurabh full_name: Singh, Saurabh id: 12d625da-9cb3-11ed-9667-af09d37d3f0a last_name: Singh orcid: 0000-0003-2209-5269 - first_name: T. V.M. full_name: Sreekanth, T. V.M. last_name: Sreekanth - first_name: Kisoo full_name: Yoo, Kisoo last_name: Yoo - first_name: Jonghoon full_name: Kim, Jonghoon last_name: Kim citation: ama: 'Mahato N, Singh S, Sreekanth TVM, Yoo K, Kim J. In-situ engineered highly-crystalline Polythiophene empowered electrochemical capacitor-II: Anomalous electrochemical charge storage behavior of Polythiophene-rGO composite. Materials Letters. 2025;382. doi:10.1016/j.matlet.2024.137869' apa: 'Mahato, N., Singh, S., Sreekanth, T. V. M., Yoo, K., & Kim, J. (2025). In-situ engineered highly-crystalline Polythiophene empowered electrochemical capacitor-II: Anomalous electrochemical charge storage behavior of Polythiophene-rGO composite. Materials Letters. Elsevier. https://doi.org/10.1016/j.matlet.2024.137869' chicago: 'Mahato, Neelima, Saurabh Singh, T. V.M. Sreekanth, Kisoo Yoo, and Jonghoon Kim. “In-Situ Engineered Highly-Crystalline Polythiophene Empowered Electrochemical Capacitor-II: Anomalous Electrochemical Charge Storage Behavior of Polythiophene-RGO Composite.” Materials Letters. Elsevier, 2025. https://doi.org/10.1016/j.matlet.2024.137869.' ieee: 'N. Mahato, S. Singh, T. V. M. Sreekanth, K. Yoo, and J. Kim, “In-situ engineered highly-crystalline Polythiophene empowered electrochemical capacitor-II: Anomalous electrochemical charge storage behavior of Polythiophene-rGO composite,” Materials Letters, vol. 382. Elsevier, 2025.' ista: 'Mahato N, Singh S, Sreekanth TVM, Yoo K, Kim J. 2025. In-situ engineered highly-crystalline Polythiophene empowered electrochemical capacitor-II: Anomalous electrochemical charge storage behavior of Polythiophene-rGO composite. Materials Letters. 382, 137869.' mla: 'Mahato, Neelima, et al. “In-Situ Engineered Highly-Crystalline Polythiophene Empowered Electrochemical Capacitor-II: Anomalous Electrochemical Charge Storage Behavior of Polythiophene-RGO Composite.” Materials Letters, vol. 382, 137869, Elsevier, 2025, doi:10.1016/j.matlet.2024.137869.' short: N. Mahato, S. Singh, T.V.M. Sreekanth, K. Yoo, J. Kim, Materials Letters 382 (2025). das_tickbox: '1' dataavailabilitystatement: Data will be made available on request. date_created: 2024-12-22T23:01:47Z date_published: 2025-03-01T00:00:00Z date_updated: 2026-10-16T10:00:45Z day: '01' department: - _id: MaIb doi: 10.1016/j.matlet.2024.137869 external_id: isi: - '001433664000001' fulldoi: https://doi.org/10.1016/j.matlet.2024.137869 intvolume: ' 382' isi: 1 language: - iso: eng month: '03' oa_version: None publication: Materials Letters publication_identifier: eissn: - 1873-4979 issn: - 0167-577X publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: upon request scopus_import: '1' status: public supplementarymaterial: yes title: 'In-situ engineered highly-crystalline Polythiophene empowered electrochemical capacitor-II: Anomalous electrochemical charge storage behavior of Polythiophene-rGO composite' type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 382 year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '18753' abstract: - lang: eng text: "We continue a line of research which studies which hereditary families of digraphs have bounded dichromatic number. For a class of digraphs C, a hero in \ C is any digraph H\r\n such that H -free digraphs in C have bounded dichromatic number. We show that if F\r\n is an oriented star of degree at least five, the only heroes for the class of F -free digraphs are transitive tournaments. For oriented stars F of degree exactly four, we show the only heroes in F -free digraphs are transitive tournaments, or possibly special joins of transitive tournaments. Aboulker et al. characterized the set of heroes of {H,K1+P2→} -free digraphs almost completely, and we show the same characterization for the class of {H,rK1+P3→} -free digraphs. Lastly, we show that if we forbid two \"valid\" orientations of brooms, then every transitive tournament is a hero for this class of digraphs." acknowledgement: "We thank the anonymous referees for their careful proofreading which helped improve the presentation of this paper. We also thank one of the anonymous referees for pointing out our construction implies Theorem 1.7!\r\nBenjamin Moore finished this project while a postdoctoral researcher at Charles University, and was supported by project 22-17398S (Flows and cycles in graphs on surfaces) of the Czech Science Foundation. Benjamin Moore is currently funded by RANDSTRUCT No. 101076777, and appreciates the gracious support. We acknowledge the support of the Natural Sciences and Engineering Research Council of Canada (NSERC), [funding reference number RGPIN-2020-03912]. Cette recherche a été financée par le Conseil de recherches en sciences naturelles et en génie du Canada (CRSNG), [numéro de référence RGPIN-2020-03912]. This project was funded in part by the Government of Ontario ." article_number: '104104' article_processing_charge: Yes (in subscription journal) article_type: original arxiv: 1 author: - first_name: Alvaro full_name: Carbonero, Alvaro last_name: Carbonero - first_name: Hidde full_name: Koerts, Hidde last_name: Koerts - first_name: Benjamin full_name: Moore, Benjamin id: 6dc1a1be-bf1c-11ed-8d2b-d044840f49d6 last_name: Moore - first_name: Sophie full_name: Spirkl, Sophie last_name: Spirkl citation: ama: Carbonero A, Koerts H, Moore B, Spirkl S. On heroes in digraphs with forbidden induced forests. European Journal of Combinatorics. 2025;125. doi:10.1016/j.ejc.2024.104104 apa: Carbonero, A., Koerts, H., Moore, B., & Spirkl, S. (2025). On heroes in digraphs with forbidden induced forests. European Journal of Combinatorics. Elsevier. https://doi.org/10.1016/j.ejc.2024.104104 chicago: Carbonero, Alvaro, Hidde Koerts, Benjamin Moore, and Sophie Spirkl. “On Heroes in Digraphs with Forbidden Induced Forests.” European Journal of Combinatorics. Elsevier, 2025. https://doi.org/10.1016/j.ejc.2024.104104. ieee: A. Carbonero, H. Koerts, B. Moore, and S. Spirkl, “On heroes in digraphs with forbidden induced forests,” European Journal of Combinatorics, vol. 125. Elsevier, 2025. ista: Carbonero A, Koerts H, Moore B, Spirkl S. 2025. On heroes in digraphs with forbidden induced forests. European Journal of Combinatorics. 125, 104104. mla: Carbonero, Alvaro, et al. “On Heroes in Digraphs with Forbidden Induced Forests.” European Journal of Combinatorics, vol. 125, 104104, Elsevier, 2025, doi:10.1016/j.ejc.2024.104104. short: A. Carbonero, H. Koerts, B. Moore, S. Spirkl, European Journal of Combinatorics 125 (2025). corr_author: '1' das_tickbox: '0' date_created: 2025-01-05T23:01:55Z date_published: 2025-03-01T00:00:00Z date_updated: 2026-10-16T10:13:50Z day: '01' ddc: - '510' department: - _id: MaKw doi: 10.1016/j.ejc.2024.104104 external_id: arxiv: - '2306.04710' isi: - '001400113700001' file: - access_level: open_access checksum: 2c75f78f40ebb93d16fe3765bda2905a content_type: application/pdf creator: dernst date_created: 2025-04-16T09:16:25Z date_updated: 2025-04-16T09:16:25Z file_id: '19577' file_name: 2025_EuropJournCombinatorics_Carbonero.pdf file_size: 1110657 relation: main_file success: 1 file_date_updated: 2025-04-16T09:16:25Z fulldoi: https://doi.org/10.1016/j.ejc.2024.104104 has_accepted_license: '1' intvolume: ' 125' isi: 1 language: - iso: eng month: '03' oa: 1 oa_version: Published Version project: - _id: bd95085b-d553-11ed-ba76-e55d3349be45 grant_number: '101076777' name: Randomness and structure in combinatorics publication: European Journal of Combinatorics publication_identifier: issn: - 0195-6698 publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: no title: On heroes in digraphs with forbidden induced forests 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: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 125 year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '19603' abstract: - lang: eng text: "MaxCut is a classical NP-complete problem and a crucial building block in many\r\ncombinatorial algorithms. The famousEdwards-Erdös bound states that any connected\r\ngraph on n vertices with m edges contains a cut of size at least m/2 + n−1/4 . Crowston,\r\nJones and Mnich [Algorithmica, 2015] showed that the MaxCut problem on simple\r\nconnected graphs admits an FPT algorithm, where the parameter k is the difference\r\nbetween the desired cut size c and the lower bound given by the Edwards-Erdös\r\nbound. This was later improved by Etscheid and Mnich [Algorithmica, 2017] to run\r\nin parameterized linear time, i.e., f (k) · O(m). We improve upon this result in two\r\nways: Firstly, we extend the algorithm to work also for multigraphs (alternatively,\r\ngraphs with positive integer weights). Secondly, we change the parameter; instead of\r\nthe difference to the Edwards-Erdös bound, we use the difference to the Poljak-Turzík\r\nbound. The Poljak-Turzík bound states that any weighted graph G has a cut of weight\r\nat least w(G)/2 + wMSF (G)/4 , where w(G) denotes the total weight of G, and wMSF (G)\r\ndenotes the weight of its minimum spanning forest. In connected simple graphs the\r\ntwo bounds are equivalent, but for multigraphs the Poljak-Turzík bound can be larger\r\nand thus yield a smaller parameter k. Our algorithm also runs in parameterized linear\r\ntime, i.e., f (k) · O(m + n)." acknowledgement: "Kalina Petrova is supported by the Swiss National Science Foundation, grant no. CRSII5 173721, and also receives funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413. Simon Weber is supported by the Swiss National Science Foundation under project no. 204320.\r\nOpen access funding provided by Swiss Federal Institute of Technology Zurich." article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Jonas full_name: Lill, Jonas last_name: Lill - first_name: Kalina H full_name: Petrova, Kalina H id: 554ff4e4-f325-11ee-b0c4-a10dbd523381 last_name: Petrova - first_name: Simon full_name: Weber, Simon last_name: Weber citation: ama: Lill J, Petrova KH, Weber S. Linear-time MaxCut in multigraphs parameterized above the Poljak-Turzík bound. Algorithmica. 2025;87:983-1007. doi:10.1007/s00453-025-01306-y apa: Lill, J., Petrova, K. H., & Weber, S. (2025). Linear-time MaxCut in multigraphs parameterized above the Poljak-Turzík bound. Algorithmica. Springer Nature. https://doi.org/10.1007/s00453-025-01306-y chicago: Lill, Jonas, Kalina H Petrova, and Simon Weber. “Linear-Time MaxCut in Multigraphs Parameterized above the Poljak-Turzík Bound.” Algorithmica. Springer Nature, 2025. https://doi.org/10.1007/s00453-025-01306-y. ieee: J. Lill, K. H. Petrova, and S. Weber, “Linear-time MaxCut in multigraphs parameterized above the Poljak-Turzík bound,” Algorithmica, vol. 87. Springer Nature, pp. 983–1007, 2025. ista: Lill J, Petrova KH, Weber S. 2025. Linear-time MaxCut in multigraphs parameterized above the Poljak-Turzík bound. Algorithmica. 87, 983–1007. mla: Lill, Jonas, et al. “Linear-Time MaxCut in Multigraphs Parameterized above the Poljak-Turzík Bound.” Algorithmica, vol. 87, Springer Nature, 2025, pp. 983–1007, doi:10.1007/s00453-025-01306-y. short: J. Lill, K.H. Petrova, S. Weber, Algorithmica 87 (2025) 983–1007. date_created: 2025-04-20T22:01:28Z date_published: 2025-07-01T00:00:00Z date_updated: 2026-10-16T10:13:33Z day: '01' ddc: - '510' department: - _id: MaKw doi: 10.1007/s00453-025-01306-y ec_funded: 1 external_id: isi: - '001463103800001' file: - access_level: open_access checksum: eab3f1834b0ba347b05ae9897729c0ad content_type: application/pdf creator: dernst date_created: 2026-01-05T13:45:57Z date_updated: 2026-01-05T13:45:57Z file_id: '20957' file_name: 2025_Algorithmica_Lill.pdf file_size: 448554 relation: main_file success: 1 file_date_updated: 2026-01-05T13:45:57Z fulldoi: https://doi.org/10.1007/s00453-025-01306-y has_accepted_license: '1' intvolume: ' 87' isi: 1 language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 983-1007 project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Algorithmica publication_identifier: eissn: - 1432-0541 issn: - 0178-4617 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '18758' relation: earlier_version status: public scopus_import: '1' status: public title: Linear-time MaxCut in multigraphs parameterized above the Poljak-Turzík bound 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: 87 year: '2025' ... --- 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 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 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' ...