[{"external_id":{"isi":["001288688000025"],"arxiv":["2301.08137"]},"license":"https://creativecommons.org/licenses/by/4.0/","author":[{"first_name":"Tobias","last_name":"Meggendorfer","id":"b21b0c15-30a2-11eb-80dc-f13ca25802e1","full_name":"Meggendorfer, Tobias","orcid":"0000-0002-1712-2165"}],"title":"Correct approximation of stationary distributions","department":[{"_id":"KrCh"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"content_type":"application/pdf","file_size":521951,"file_id":"13148","creator":"dernst","checksum":"59f707a3949c03793251b0d04c62542a","date_created":"2023-06-19T07:18:40Z","access_level":"open_access","relation":"main_file","date_updated":"2023-06-19T07:18:40Z","success":1,"file_name":"2023_LNCS_Meggendorfer.pdf"}],"scopus_import":"1","publication_status":"published","corr_author":"1","related_material":{"record":[{"status":"public","relation":"research_data","id":"14990"}]},"has_accepted_license":"1","alternative_title":["LNCS"],"oa_version":"Published Version","abstract":[{"text":"A classical problem for Markov chains is determining their stationary (or steady-state) distribution. This problem has an equally classical solution based on eigenvectors and linear equation systems. However, this approach does not scale to large instances, and iterative solutions are desirable. It turns out that a naive approach, as used by current model checkers, may yield completely wrong results. We present a new approach, which utilizes recent advances in partial exploration and mean payoff computation to obtain a correct, converging approximation.","lang":"eng"}],"day":"22","ddc":["000"],"publication":"TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems","conference":{"end_date":"2023-04-27","name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems","location":"Paris, France","start_date":"2023-04-22"},"date_created":"2023-06-18T22:00:46Z","arxiv":1,"publication_identifier":{"issn":["0302-9743"],"isbn":["9783031308222"],"eissn":["1611-3349"]},"quality_controlled":"1","language":[{"iso":"eng"}],"date_published":"2023-04-22T00:00:00Z","file_date_updated":"2023-06-19T07:18:40Z","citation":{"ista":"Meggendorfer T. 2023. Correct approximation of stationary distributions. TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13993, 489–507.","short":"T. Meggendorfer, in:, TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems, Springer Nature, 2023, pp. 489–507.","apa":"Meggendorfer, T. (2023). Correct approximation of stationary distributions. In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i> (Vol. 13993, pp. 489–507). Paris, France: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-30823-9_25\">https://doi.org/10.1007/978-3-031-30823-9_25</a>","mla":"Meggendorfer, Tobias. “Correct Approximation of Stationary Distributions.” <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, vol. 13993, Springer Nature, 2023, pp. 489–507, doi:<a href=\"https://doi.org/10.1007/978-3-031-30823-9_25\">10.1007/978-3-031-30823-9_25</a>.","ieee":"T. Meggendorfer, “Correct approximation of stationary distributions,” in <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, Paris, France, 2023, vol. 13993, pp. 489–507.","ama":"Meggendorfer T. Correct approximation of stationary distributions. In: <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol 13993. Springer Nature; 2023:489-507. doi:<a href=\"https://doi.org/10.1007/978-3-031-30823-9_25\">10.1007/978-3-031-30823-9_25</a>","chicago":"Meggendorfer, Tobias. “Correct Approximation of Stationary Distributions.” In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, 13993:489–507. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-3-031-30823-9_25\">https://doi.org/10.1007/978-3-031-30823-9_25</a>."},"volume":13993,"article_processing_charge":"No","month":"04","oa":1,"intvolume":"     13993","status":"public","publisher":"Springer Nature","type":"conference","date_updated":"2025-09-09T12:28:12Z","doi":"10.1007/978-3-031-30823-9_25","year":"2023","page":"489-507","_id":"13139","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1},{"file_date_updated":"2023-06-19T08:43:21Z","date_published":"2023-04-20T00:00:00Z","oa":1,"month":"04","volume":13994,"article_processing_charge":"No","citation":{"ista":"Anand A, Mallik K, Nayak SP, Schmuck AK. 2023. Computing adequately permissive assumptions for synthesis. TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems. TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13994, 211–228.","short":"A. Anand, K. Mallik, S.P. Nayak, A.K. Schmuck, in:, TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems, Springer Nature, 2023, pp. 211–228.","chicago":"Anand, Ashwani, Kaushik Mallik, Satya Prakash Nayak, and Anne Kathrin Schmuck. “Computing Adequately Permissive Assumptions for Synthesis.” In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, 13994:211–28. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-3-031-30820-8_15\">https://doi.org/10.1007/978-3-031-30820-8_15</a>.","ama":"Anand A, Mallik K, Nayak SP, Schmuck AK. Computing adequately permissive assumptions for synthesis. In: <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>. Vol 13994. Springer Nature; 2023:211-228. doi:<a href=\"https://doi.org/10.1007/978-3-031-30820-8_15\">10.1007/978-3-031-30820-8_15</a>","apa":"Anand, A., Mallik, K., Nayak, S. P., &#38; Schmuck, A. K. (2023). Computing adequately permissive assumptions for synthesis. In <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i> (Vol. 13994, pp. 211–228). Paris, France: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-30820-8_15\">https://doi.org/10.1007/978-3-031-30820-8_15</a>","mla":"Anand, Ashwani, et al. “Computing Adequately Permissive Assumptions for Synthesis.” <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, vol. 13994, Springer Nature, 2023, pp. 211–28, doi:<a href=\"https://doi.org/10.1007/978-3-031-30820-8_15\">10.1007/978-3-031-30820-8_15</a>.","ieee":"A. Anand, K. Mallik, S. P. Nayak, and A. K. Schmuck, “Computing adequately permissive assumptions for synthesis,” in <i>TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems</i>, Paris, France, 2023, vol. 13994, pp. 211–228."},"date_created":"2023-06-18T22:00:47Z","conference":{"end_date":"2023-04-27","name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems","start_date":"2023-04-22","location":"Paris, France"},"language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1611-3349"],"isbn":["9783031308192"],"issn":["0302-9743"]},"quality_controlled":"1","_id":"13141","page":"211-228","year":"2023","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_updated":"2025-09-09T12:30:00Z","publisher":"Springer Nature","type":"conference","status":"public","intvolume":"     13994","doi":"10.1007/978-3-031-30820-8_15","title":"Computing adequately permissive assumptions for synthesis","file":[{"content_type":"application/pdf","file_size":521425,"checksum":"60dcafc1b4f6f070be43bad3fe877974","file_id":"13151","creator":"dernst","date_created":"2023-06-19T08:43:21Z","relation":"main_file","date_updated":"2023-06-19T08:43:21Z","access_level":"open_access","success":1,"file_name":"2023_LNCS_Anand.pdf"}],"tmp":{"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)","image":"/images/cc_by.png"},"department":[{"_id":"ToHe"}],"external_id":{"isi":["001288698100015"]},"author":[{"last_name":"Anand","full_name":"Anand, Ashwani","first_name":"Ashwani"},{"orcid":"0000-0001-9864-7475","first_name":"Kaushik","last_name":"Mallik","id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","full_name":"Mallik, Kaushik"},{"full_name":"Nayak, Satya Prakash","last_name":"Nayak","first_name":"Satya Prakash"},{"full_name":"Schmuck, Anne Kathrin","last_name":"Schmuck","first_name":"Anne Kathrin"}],"oa_version":"Published Version","publication":"TACAS 2023: Tools and Algorithms for the Construction and Analysis of Systems","day":"20","abstract":[{"lang":"eng","text":"We automatically compute a new class of environment assumptions in two-player turn-based finite graph games which characterize an “adequate cooperation” needed from the environment to allow the system player to win. Given an ω-regular winning condition Φ for the system player, we compute an ω-regular assumption Ψ for the environment player, such that (i) every environment strategy compliant with Ψ allows the system to fulfill Φ (sufficiency), (ii) Ψ\r\n can be fulfilled by the environment for every strategy of the system (implementability), and (iii) Ψ does not prevent any cooperative strategy choice (permissiveness).\r\nFor parity games, which are canonical representations of ω-regular games, we present a polynomial-time algorithm for the symbolic computation of adequately permissive assumptions and show that our algorithm runs faster and produces better assumptions than existing approaches—both theoretically and empirically. To the best of our knowledge, for ω\r\n-regular games, we provide the first algorithm to compute sufficient and implementable environment assumptions that are also permissive."}],"ddc":["000"],"publication_status":"published","scopus_import":"1","alternative_title":["LNCS"],"has_accepted_license":"1"},{"has_accepted_license":"1","alternative_title":["LNCS"],"scopus_import":"1","publication_status":"published","corr_author":"1","ddc":["000"],"abstract":[{"lang":"eng","text":"Reinforcement learning has received much attention for learning controllers of deterministic systems. We consider a learner-verifier framework for stochastic control systems and survey recent methods that formally guarantee a conjunction of reachability and safety properties. Given a property and a lower bound on the probability of the property being satisfied, our framework jointly learns a control policy and a formal certificate to ensure the satisfaction of the property with a desired probability threshold. Both the control policy and the formal certificate are continuous functions from states to reals, which are learned as parameterized neural networks. While in the deterministic case, the certificates are invariant and barrier functions for safety, or Lyapunov and ranking functions for liveness, in the stochastic case the certificates are supermartingales. For certificate verification, we use interval arithmetic abstract interpretation to bound the expected values of neural network functions."}],"day":"22","project":[{"grant_number":"863818","call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E"},{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"publication":"Tools and Algorithms for the Construction and Analysis of Systems ","oa_version":"Published Version","ec_funded":1,"author":[{"full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2985-7724"},{"id":"3DC22916-F248-11E8-B48F-1D18A9856A87","full_name":"Lechner, Mathias","last_name":"Lechner","first_name":"Mathias"},{"orcid":"0000-0002-4681-1699","full_name":"Zikelic, Dorde","id":"294AA7A6-F248-11E8-B48F-1D18A9856A87","last_name":"Zikelic","first_name":"Dorde"}],"external_id":{"isi":["001288688000001"]},"tmp":{"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)","image":"/images/cc_by.png"},"department":[{"_id":"KrCh"},{"_id":"ToHe"}],"file":[{"creator":"dernst","file_id":"13150","checksum":"3d8a8bb24d211bc83360dfc2fd744307","relation":"main_file","access_level":"open_access","date_updated":"2023-06-19T08:29:30Z","date_created":"2023-06-19T08:29:30Z","success":1,"file_name":"2023_LNCS_Chatterjee.pdf","content_type":"application/pdf","file_size":528455}],"title":"A learner-verifier framework for neural network controllers and certificates of stochastic systems","doi":"10.1007/978-3-031-30823-9_1","acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093, ERC CoG 863818 (FoRM-SMArt) and the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385.","intvolume":"     13993","date_updated":"2025-09-09T12:29:26Z","publisher":"Springer Nature","type":"conference","status":"public","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"year":"2023","_id":"13142","page":"3-25","quality_controlled":"1","publication_identifier":{"issn":["0302-9743"],"isbn":["9783031308222"],"eissn":["1611-3349"]},"language":[{"iso":"eng"}],"conference":{"name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems","end_date":"2023-04-27","start_date":"2023-04-22","location":"Paris, France"},"date_created":"2023-06-18T22:00:47Z","citation":{"short":"K. Chatterjee, T.A. Henzinger, M. Lechner, D. Zikelic, in:, Tools and Algorithms for the Construction and Analysis of Systems , Springer Nature, 2023, pp. 3–25.","ista":"Chatterjee K, Henzinger TA, Lechner M, Zikelic D. 2023. A learner-verifier framework for neural network controllers and certificates of stochastic systems. Tools and Algorithms for the Construction and Analysis of Systems . TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 13993, 3–25.","ieee":"K. Chatterjee, T. A. Henzinger, M. Lechner, and D. Zikelic, “A learner-verifier framework for neural network controllers and certificates of stochastic systems,” in <i>Tools and Algorithms for the Construction and Analysis of Systems </i>, Paris, France, 2023, vol. 13993, pp. 3–25.","mla":"Chatterjee, Krishnendu, et al. “A Learner-Verifier Framework for Neural Network Controllers and Certificates of Stochastic Systems.” <i>Tools and Algorithms for the Construction and Analysis of Systems </i>, vol. 13993, Springer Nature, 2023, pp. 3–25, doi:<a href=\"https://doi.org/10.1007/978-3-031-30823-9_1\">10.1007/978-3-031-30823-9_1</a>.","apa":"Chatterjee, K., Henzinger, T. A., Lechner, M., &#38; Zikelic, D. (2023). A learner-verifier framework for neural network controllers and certificates of stochastic systems. In <i>Tools and Algorithms for the Construction and Analysis of Systems </i> (Vol. 13993, pp. 3–25). Paris, France: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-30823-9_1\">https://doi.org/10.1007/978-3-031-30823-9_1</a>","ama":"Chatterjee K, Henzinger TA, Lechner M, Zikelic D. A learner-verifier framework for neural network controllers and certificates of stochastic systems. In: <i>Tools and Algorithms for the Construction and Analysis of Systems </i>. Vol 13993. Springer Nature; 2023:3-25. doi:<a href=\"https://doi.org/10.1007/978-3-031-30823-9_1\">10.1007/978-3-031-30823-9_1</a>","chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, Mathias Lechner, and Dorde Zikelic. “A Learner-Verifier Framework for Neural Network Controllers and Certificates of Stochastic Systems.” In <i>Tools and Algorithms for the Construction and Analysis of Systems </i>, 13993:3–25. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-3-031-30823-9_1\">https://doi.org/10.1007/978-3-031-30823-9_1</a>."},"oa":1,"article_processing_charge":"No","month":"04","volume":13993,"date_published":"2023-04-22T00:00:00Z","file_date_updated":"2023-06-19T08:29:30Z"},{"corr_author":"1","publication_status":"published","scopus_import":"1","has_accepted_license":"1","oa_version":"Published Version","publication":"Electronic Communications in Probability","project":[{"grant_number":"E208","name":"Configuration Spaces over Non-Smooth Spaces","_id":"34dbf174-11ca-11ed-8bc3-afe9d43d4b9c"}],"abstract":[{"text":"We prove a characterization of the Dirichlet–Ferguson measure over an arbitrary finite diffuse measure space. We provide an interpretation of this characterization in analogy with the Mecke identity for Poisson point processes.","lang":"eng"}],"day":"05","ddc":["510"],"external_id":{"isi":["001042025400001"]},"author":[{"orcid":"0000-0002-9881-6870","full_name":"Dello Schiavo, Lorenzo","last_name":"Dello Schiavo","first_name":"Lorenzo","id":"ECEBF480-9E4F-11EA-B557-B0823DDC885E"},{"full_name":"Lytvynov, Eugene","last_name":"Lytvynov","first_name":"Eugene"}],"title":"A Mecke-type characterization of the Dirichlet–Ferguson measure","file":[{"access_level":"open_access","date_updated":"2023-06-19T09:37:40Z","relation":"main_file","date_created":"2023-06-19T09:37:40Z","file_id":"13152","checksum":"4a543fe4b3f9e747cc52167c17bfb524","creator":"dernst","success":1,"file_name":"2023_ElectronCommProbability_Schiavo.pdf","file_size":271434,"content_type":"application/pdf"}],"department":[{"_id":"JaMa"}],"tmp":{"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)","image":"/images/cc_by.png"},"status":"public","publisher":"Institute of Mathematical Statistics","type":"journal_article","date_updated":"2025-04-14T12:59:08Z","intvolume":"        28","doi":"10.1214/23-ECP528","acknowledgement":"Research supported by the Sfb 1060 The Mathematics of Emergent Effects (University of Bonn). L.D.S. gratefully acknowledges funding of his current position by the Austrian Science Fund (FWF) through project ESPRIT 208.","page":"1-12","_id":"13145","year":"2023","article_type":"original","isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-06-18T22:00:48Z","language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"eissn":["1083-589X"]},"file_date_updated":"2023-06-19T09:37:40Z","date_published":"2023-05-05T00:00:00Z","month":"05","article_processing_charge":"No","volume":28,"oa":1,"citation":{"short":"L. Dello Schiavo, E. Lytvynov, Electronic Communications in Probability 28 (2023) 1–12.","ista":"Dello Schiavo L, Lytvynov E. 2023. A Mecke-type characterization of the Dirichlet–Ferguson measure. Electronic Communications in Probability. 28, 1–12.","chicago":"Dello Schiavo, Lorenzo, and Eugene Lytvynov. “A Mecke-Type Characterization of the Dirichlet–Ferguson Measure.” <i>Electronic Communications in Probability</i>. Institute of Mathematical Statistics, 2023. <a href=\"https://doi.org/10.1214/23-ECP528\">https://doi.org/10.1214/23-ECP528</a>.","ama":"Dello Schiavo L, Lytvynov E. A Mecke-type characterization of the Dirichlet–Ferguson measure. <i>Electronic Communications in Probability</i>. 2023;28:1-12. doi:<a href=\"https://doi.org/10.1214/23-ECP528\">10.1214/23-ECP528</a>","ieee":"L. Dello Schiavo and E. Lytvynov, “A Mecke-type characterization of the Dirichlet–Ferguson measure,” <i>Electronic Communications in Probability</i>, vol. 28. Institute of Mathematical Statistics, pp. 1–12, 2023.","mla":"Dello Schiavo, Lorenzo, and Eugene Lytvynov. “A Mecke-Type Characterization of the Dirichlet–Ferguson Measure.” <i>Electronic Communications in Probability</i>, vol. 28, Institute of Mathematical Statistics, 2023, pp. 1–12, doi:<a href=\"https://doi.org/10.1214/23-ECP528\">10.1214/23-ECP528</a>.","apa":"Dello Schiavo, L., &#38; Lytvynov, E. (2023). A Mecke-type characterization of the Dirichlet–Ferguson measure. <i>Electronic Communications in Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/23-ECP528\">https://doi.org/10.1214/23-ECP528</a>"}},{"publication_status":"published","corr_author":"1","has_accepted_license":"1","oa_version":"Submitted Version","ddc":["000"],"day":"01","publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","author":[{"last_name":"Schlögl","first_name":"Alois","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"last_name":"Elefante","full_name":"Elefante, Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","first_name":"Stefano"},{"id":"3661B498-F248-11E8-B48F-1D18A9856A87","last_name":"Hodirnau","first_name":"Victor-Valentin","full_name":"Hodirnau, Victor-Valentin","orcid":"0000-0003-3904-947X"}],"title":"Running Windows-applications on a Linux HPC cluster using WINE","department":[{"_id":"ScienComp"},{"_id":"EM-Fac"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"creator":"dernst","file_id":"13249","checksum":"ec8e4295d54171032cdd1b01423eb4a6","date_updated":"2023-07-18T09:18:55Z","access_level":"open_access","relation":"main_file","date_created":"2023-07-18T09:18:55Z","success":1,"file_name":"2023_ASHPC_Schloegl.pdf","content_type":"application/pdf","file_size":316959}],"status":"public","type":"conference_abstract","publisher":"EuroCC","date_updated":"2024-07-16T10:17:09Z","acknowledgement":"Thanks to Jesse Hansen for his suggestions on improving the abstract.","year":"2023","page":"59-59","_id":"13161","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"location":"Maribor, Slovenia","start_date":"2023-06-13","end_date":"2023-06-15","name":"ASHPC: Austrian-Slovenian HPC Meeting"},"date_created":"2023-06-23T11:01:23Z","quality_controlled":"1","language":[{"iso":"eng"}],"date_published":"2023-07-01T00:00:00Z","file_date_updated":"2023-07-18T09:18:55Z","citation":{"ama":"Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux HPC cluster using WINE. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; 2023:59-59.","chicago":"Schlögl, Alois, Stefano Elefante, and Victor-Valentin Hodirnau. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 59–59. EuroCC, 2023.","apa":"Schlögl, A., Elefante, S., &#38; Hodirnau, V.-V. (2023). Running Windows-applications on a Linux HPC cluster using WINE. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 59–59). Maribor, Slovenia: EuroCC.","ieee":"A. Schlögl, S. Elefante, and V.-V. Hodirnau, “Running Windows-applications on a Linux HPC cluster using WINE,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, 2023, pp. 59–59.","mla":"Schlögl, Alois, et al. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, 2023, pp. 59–59.","ista":"Schlögl A, Elefante S, Hodirnau V-V. 2023. Running Windows-applications on a Linux HPC cluster using WINE. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 59–59.","short":"A. Schlögl, S. Elefante, V.-V. Hodirnau, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, 2023, pp. 59–59."},"article_processing_charge":"No","month":"07","oa":1},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","_id":"13162","page":"42-42","date_updated":"2024-07-16T10:24:07Z","type":"conference_abstract","status":"public","publisher":"EuroCC","citation":{"ista":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. 2023. Cryo-EM software packages: A sys-admins point of view. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 42–42.","short":"S. Elefante, S. Stadlbauer, M.F. Alexander, A. Schlögl, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, 2023, pp. 42–42.","apa":"Elefante, S., Stadlbauer, S., Alexander, M. F., &#38; Schlögl, A. (2023). Cryo-EM software packages: A sys-admins point of view. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 42–42). Maribor, Slovenia: EuroCC.","mla":"Elefante, Stefano, et al. “Cryo-EM Software Packages: A Sys-Admins Point of View.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, 2023, pp. 42–42.","ieee":"S. Elefante, S. Stadlbauer, M. F. Alexander, and A. Schlögl, “Cryo-EM software packages: A sys-admins point of view,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, 2023, pp. 42–42.","ama":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages: A sys-admins point of view. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; 2023:42-42.","chicago":"Elefante, Stefano, Stephan Stadlbauer, Michael F Alexander, and Alois Schlögl. “Cryo-EM Software Packages: A Sys-Admins Point of View.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 42–42. EuroCC, 2023."},"oa":1,"month":"07","article_processing_charge":"No","date_published":"2023-07-01T00:00:00Z","file_date_updated":"2023-07-18T09:28:30Z","quality_controlled":"1","language":[{"iso":"eng"}],"conference":{"name":"ASHPC: Austrian-Slovenian HPC Meeting","end_date":"2023-06-15","location":"Maribor, Slovenia","start_date":"2023-06-12"},"date_created":"2023-06-23T11:03:18Z","ddc":["000"],"day":"01","publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","oa_version":"Submitted Version","has_accepted_license":"1","corr_author":"1","publication_status":"published","tmp":{"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)","image":"/images/cc_by.png"},"department":[{"_id":"ScienComp"}],"file":[{"file_size":380354,"content_type":"application/pdf","file_name":"2023_ASHPC_Elefante.pdf","success":1,"access_level":"open_access","relation":"main_file","date_updated":"2023-07-18T09:28:30Z","date_created":"2023-07-18T09:28:30Z","creator":"dernst","checksum":"0ab6173cd5c5634ed773cd37ff012681","file_id":"13250"}],"title":"Cryo-EM software packages: A sys-admins point of view","author":[{"id":"490F40CE-F248-11E8-B48F-1D18A9856A87","last_name":"Elefante","full_name":"Elefante, Stefano","first_name":"Stefano"},{"full_name":"Stadlbauer, Stephan","first_name":"Stephan","last_name":"Stadlbauer","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Alexander","full_name":"Alexander, Michael F","id":"3A02A8FA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael F"},{"orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","last_name":"Schlögl","first_name":"Alois"}]},{"doi":"10.1038/s41467-023-39317-4","acknowledgement":"We thank Manfred Schartl for sharing RNA-seq data from medaka ovaries and testes prior to publication; Maria Novatchkova for help with RNA-seq analysis; Katharina Lust for advice on medaka techniques; Milan Malinsky for input on Lake Malawi cichlid Bouncer sequences; Felicia Spitzer, Mirjam Binner, and Anna Bandura for help with genotyping; Friedrich Puhl, Kerstin Rattner, Julia Koenig, and Dijana Sunjic for taking care of zebrafish and medaka; and the Pauli lab for helpful discussions about the project and feedback on the manuscript. K.R.B.G. was supported by a DOC Fellowship from the Austrian Academy of Sciences. Work in the Pauli lab was supported by the FWF START program (Y 1031-B28 to A.P.), the ERC CoG 101044495/GaMe, the HFSP Career Development Award (CDA00066/2015 to A.P.), a HFSP Young Investigator Award (RGY0079/2020 to A.P.) and the FWF SFB RNA-Deco (project number F80). The IMP receives institutional funding from Boehringer Ingelheim and the Austrian Research Promotion Agency (Headquarter grant FFG-852936). Work by J.S. and Y.M. in this project was supported by the Israel Science Foundation grant 636/21 to Y.M. Work by L.J. was supported by the Swedish Research Council grant 2020-04936 and the Knut and Alice Wallenberg Foundation grant 2018.0042. For the purpose of Open Access, the author has applied a CC BY public copyright license to any Author Accepted Manuscript (AAM) version arising from this submission.","intvolume":"        14","publisher":"Springer Nature","status":"public","type":"journal_article","date_updated":"2025-04-23T08:59:40Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","isi":1,"pmid":1,"year":"2023","_id":"13164","publication_identifier":{"eissn":["2041-1723"]},"quality_controlled":"1","language":[{"iso":"eng"}],"date_created":"2023-06-25T22:00:45Z","citation":{"ama":"Gert KRB, Panser K, Surm J, et al. Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-39317-4\">10.1038/s41467-023-39317-4</a>","chicago":"Gert, Krista R.B., Karin Panser, Joachim Surm, Benjamin S. Steinmetz, Alexander Schleiffer, Luca Jovine, Yehu Moran, Fyodor Kondrashov, and Andrea Pauli. “Divergent Molecular Signatures in Fish Bouncer Proteins Define Cross-Fertilization Boundaries.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-39317-4\">https://doi.org/10.1038/s41467-023-39317-4</a>.","mla":"Gert, Krista R. B., et al. “Divergent Molecular Signatures in Fish Bouncer Proteins Define Cross-Fertilization Boundaries.” <i>Nature Communications</i>, vol. 14, 3506, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-39317-4\">10.1038/s41467-023-39317-4</a>.","ieee":"K. R. B. Gert <i>et al.</i>, “Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","apa":"Gert, K. R. B., Panser, K., Surm, J., Steinmetz, B. S., Schleiffer, A., Jovine, L., … Pauli, A. (2023). Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-39317-4\">https://doi.org/10.1038/s41467-023-39317-4</a>","short":"K.R.B. Gert, K. Panser, J. Surm, B.S. Steinmetz, A. Schleiffer, L. Jovine, Y. Moran, F. Kondrashov, A. Pauli, Nature Communications 14 (2023).","ista":"Gert KRB, Panser K, Surm J, Steinmetz BS, Schleiffer A, Jovine L, Moran Y, Kondrashov F, Pauli A. 2023. Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries. Nature Communications. 14, 3506."},"article_processing_charge":"No","volume":14,"month":"06","oa":1,"date_published":"2023-06-14T00:00:00Z","file_date_updated":"2023-06-26T10:26:04Z","has_accepted_license":"1","article_number":"3506","scopus_import":"1","publication_status":"published","day":"14","ddc":["570"],"abstract":[{"text":"Molecular compatibility between gametes is a prerequisite for successful fertilization. As long as a sperm and egg can recognize and bind each other via their surface proteins, gamete fusion may occur even between members of separate species, resulting in hybrids that can impact speciation. The egg membrane protein Bouncer confers species specificity to gamete interactions between medaka and zebrafish, preventing their cross-fertilization. Here, we leverage this specificity to uncover distinct amino acid residues and N-glycosylation patterns that differentially influence the function of medaka and zebrafish Bouncer and contribute to cross-species incompatibility. Curiously, in contrast to the specificity observed for medaka and zebrafish Bouncer, seahorse and fugu Bouncer are compatible with both zebrafish and medaka sperm, in line with the pervasive purifying selection that dominates Bouncer’s evolution. The Bouncer-sperm interaction is therefore the product of seemingly opposing evolutionary forces that, for some species, restrict fertilization to closely related fish, and for others, allow broad gamete compatibility that enables hybridization.","lang":"eng"}],"publication":"Nature Communications","oa_version":"Published Version","author":[{"full_name":"Gert, Krista R.B.","last_name":"Gert","first_name":"Krista R.B."},{"last_name":"Panser","full_name":"Panser, Karin","first_name":"Karin"},{"first_name":"Joachim","last_name":"Surm","full_name":"Surm, Joachim"},{"last_name":"Steinmetz","full_name":"Steinmetz, Benjamin S.","first_name":"Benjamin S."},{"full_name":"Schleiffer, Alexander","last_name":"Schleiffer","first_name":"Alexander"},{"full_name":"Jovine, Luca","first_name":"Luca","last_name":"Jovine"},{"full_name":"Moran, Yehu","first_name":"Yehu","last_name":"Moran"},{"first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","full_name":"Kondrashov, Fyodor","last_name":"Kondrashov","orcid":"0000-0001-8243-4694"},{"full_name":"Pauli, Andrea","last_name":"Pauli","first_name":"Andrea"}],"external_id":{"isi":["001048208600023"],"pmid":["37316475"]},"department":[{"_id":"FyKo"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"content_type":"application/pdf","file_size":1555006,"file_id":"13172","checksum":"d6165f41c7f1c2c04b04256ec9f003fb","creator":"dernst","date_created":"2023-06-26T10:26:04Z","relation":"main_file","access_level":"open_access","date_updated":"2023-06-26T10:26:04Z","success":1,"file_name":"2023_NatureComm_Gert.pdf"}],"title":"Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries"},{"status":"public","type":"journal_article","publisher":"Elsevier","date_updated":"2025-09-09T12:30:39Z","intvolume":"       199","doi":"10.1016/j.jcta.2023.105776","_id":"13165","year":"2023","article_type":"original","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_created":"2023-06-25T22:00:45Z","arxiv":1,"language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"issn":["0097-3165"],"eissn":["1096-0899"]},"file_date_updated":"2024-01-30T12:03:10Z","date_published":"2023-10-01T00:00:00Z","month":"10","article_processing_charge":"Yes (in subscription journal)","volume":199,"oa":1,"citation":{"ista":"Fang L, Huang H, Pach J, Tardos G, Zuo J. 2023. Successive vertex orderings of fully regular graphs. Journal of Combinatorial Theory. Series A. 199(10), 105776.","short":"L. Fang, H. Huang, J. Pach, G. Tardos, J. Zuo, Journal of Combinatorial Theory. Series A 199 (2023).","ama":"Fang L, Huang H, Pach J, Tardos G, Zuo J. Successive vertex orderings of fully regular graphs. <i>Journal of Combinatorial Theory Series A</i>. 2023;199(10). doi:<a href=\"https://doi.org/10.1016/j.jcta.2023.105776\">10.1016/j.jcta.2023.105776</a>","chicago":"Fang, Lixing, Hao Huang, János Pach, Gábor Tardos, and Junchi Zuo. “Successive Vertex Orderings of Fully Regular Graphs.” <i>Journal of Combinatorial Theory. Series A</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.jcta.2023.105776\">https://doi.org/10.1016/j.jcta.2023.105776</a>.","apa":"Fang, L., Huang, H., Pach, J., Tardos, G., &#38; Zuo, J. (2023). Successive vertex orderings of fully regular graphs. <i>Journal of Combinatorial Theory. Series A</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jcta.2023.105776\">https://doi.org/10.1016/j.jcta.2023.105776</a>","mla":"Fang, Lixing, et al. “Successive Vertex Orderings of Fully Regular Graphs.” <i>Journal of Combinatorial Theory. Series A</i>, vol. 199, no. 10, 105776, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.jcta.2023.105776\">10.1016/j.jcta.2023.105776</a>.","ieee":"L. Fang, H. Huang, J. Pach, G. Tardos, and J. Zuo, “Successive vertex orderings of fully regular graphs,” <i>Journal of Combinatorial Theory. Series A</i>, vol. 199, no. 10. Elsevier, 2023."},"corr_author":"1","publication_status":"published","scopus_import":"1","article_number":"105776","has_accepted_license":"1","oa_version":"Published Version","issue":"10","publication":"Journal of Combinatorial Theory. Series A","abstract":[{"lang":"eng","text":"A graph G=(V, E) is called fully regular if for every independent set I c V, the number of vertices in V\\I  that are not connected to any element of I depends only on the size of I. A linear ordering of the vertices of G is called successive if for every i, the first i vertices induce a connected subgraph of G. We give an explicit formula for the number of successive vertex orderings of a fully regular graph.\r\nAs an application of our results, we give alternative proofs of two theorems of Stanley and Gao & Peng, determining the number of linear edge orderings of complete graphs and complete bipartite graphs, respectively, with the property that the first i edges induce a connected subgraph.\r\nAs another application, we give a simple product formula for the number of linear orderings of the hyperedges of a complete 3-partite 3-uniform hypergraph such that, for every i, the first i hyperedges induce a connected subgraph. We found similar formulas for complete (non-partite) 3-uniform hypergraphs and in another closely related case, but we managed to verify them only when the number of vertices is small."}],"day":"01","ddc":["510"],"external_id":{"isi":["001144487800001"],"arxiv":["2206.13592"]},"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","author":[{"last_name":"Fang","full_name":"Fang, Lixing","first_name":"Lixing"},{"first_name":"Hao","full_name":"Huang, Hao","last_name":"Huang"},{"full_name":"Pach, János","id":"E62E3130-B088-11EA-B919-BF823C25FEA4","first_name":"János","last_name":"Pach"},{"first_name":"Gábor","full_name":"Tardos, Gábor","last_name":"Tardos"},{"last_name":"Zuo","first_name":"Junchi","full_name":"Zuo, Junchi"}],"title":"Successive vertex orderings of fully regular graphs","file":[{"creator":"dernst","file_id":"14902","checksum":"9eebc213b4182a66063a99083ff5bd04","access_level":"open_access","date_updated":"2024-01-30T12:03:10Z","relation":"main_file","date_created":"2024-01-30T12:03:10Z","success":1,"file_name":"2023_JourCombinatiorialTheory_Fang.pdf","content_type":"application/pdf","file_size":352555}],"department":[{"_id":"HeEd"}],"tmp":{"image":"/images/cc_by_nc_sa.png","short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"}},{"date_created":"2023-06-25T22:00:46Z","quality_controlled":"1","publication_identifier":{"eissn":["2045-2322"]},"language":[{"iso":"eng"}],"date_published":"2023-06-09T00:00:00Z","file_date_updated":"2023-06-26T09:58:53Z","citation":{"ista":"Vetrova AA, Kupaeva DM, Kizenko A, Lebedeva TS, Walentek P, Tsikolia N, Kremnyov SV. 2023. The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. Scientific Reports. 13, 9382.","short":"A.A. Vetrova, D.M. Kupaeva, A. Kizenko, T.S. Lebedeva, P. Walentek, N. Tsikolia, S.V. Kremnyov, Scientific Reports 13 (2023).","apa":"Vetrova, A. A., Kupaeva, D. M., Kizenko, A., Lebedeva, T. S., Walentek, P., Tsikolia, N., &#38; Kremnyov, S. V. (2023). The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-023-35979-8\">https://doi.org/10.1038/s41598-023-35979-8</a>","ieee":"A. A. Vetrova <i>et al.</i>, “The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization,” <i>Scientific Reports</i>, vol. 13. Springer Nature, 2023.","mla":"Vetrova, Alexandra A., et al. “The Evolutionary History of Brachyury Genes in Hydrozoa Involves Duplications, Divergence, and Neofunctionalization.” <i>Scientific Reports</i>, vol. 13, 9382, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41598-023-35979-8\">10.1038/s41598-023-35979-8</a>.","ama":"Vetrova AA, Kupaeva DM, Kizenko A, et al. The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization. <i>Scientific Reports</i>. 2023;13. doi:<a href=\"https://doi.org/10.1038/s41598-023-35979-8\">10.1038/s41598-023-35979-8</a>","chicago":"Vetrova, Alexandra A., Daria M. Kupaeva, Alena Kizenko, Tatiana S. Lebedeva, Peter Walentek, Nikoloz Tsikolia, and Stanislav V. Kremnyov. “The Evolutionary History of Brachyury Genes in Hydrozoa Involves Duplications, Divergence, and Neofunctionalization.” <i>Scientific Reports</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41598-023-35979-8\">https://doi.org/10.1038/s41598-023-35979-8</a>."},"oa":1,"article_processing_charge":"No","volume":13,"month":"06","intvolume":"        13","date_updated":"2023-08-02T06:17:18Z","publisher":"Springer Nature","status":"public","type":"journal_article","acknowledgement":"We thank N.A. Pertsov White Sea Biological Station of Moscow State University for the help and support in obtaining samples and providing access to all required facilities and equipment of the “Center of Microscopy WSBS MSU”. We are grateful to Dr. Amro Hamdoun for pCS2+8 plasmid (Addgene plasmid # 34931).\r\nWork in the Walentek lab is supported by the Deutsche Forschungsgemeinschaft (DFG) under the Emmy Noether Programme (grant WA3365/2-2) and under Germany’s Excellence Strategy (CIBSS-EXC-2189-Project ID 390939984). SK is supported by the project No. 0088-2021-0009 of the Koltzov Institute of Developmental Biology of the RAS. The study of molecular patterning of D. pumila colony was funded by RFBR, project number 20-04-00978a (to S.K.).","doi":"10.1038/s41598-023-35979-8","pmid":1,"year":"2023","_id":"13166","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"article_type":"original","external_id":{"pmid":["37296138"],"isi":["001006690200045"]},"author":[{"full_name":"Vetrova, Alexandra A.","last_name":"Vetrova","first_name":"Alexandra A."},{"full_name":"Kupaeva, Daria M.","last_name":"Kupaeva","first_name":"Daria M."},{"full_name":"Kizenko, Alena","id":"a521c60b-0815-11ed-9b02-b8bd522477c8","first_name":"Alena","last_name":"Kizenko"},{"last_name":"Lebedeva","full_name":"Lebedeva, Tatiana S.","first_name":"Tatiana S."},{"first_name":"Peter","full_name":"Walentek, Peter","last_name":"Walentek"},{"full_name":"Tsikolia, Nikoloz","first_name":"Nikoloz","last_name":"Tsikolia"},{"last_name":"Kremnyov","first_name":"Stanislav V.","full_name":"Kremnyov, Stanislav V."}],"title":"The evolutionary history of Brachyury genes in Hydrozoa involves duplications, divergence, and neofunctionalization","department":[{"_id":"GradSch"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"content_type":"application/pdf","file_size":4844149,"file_name":"2023_ScientificReports_Vetrova.pdf","success":1,"file_id":"13170","creator":"dernst","checksum":"baddf6b2fa9adf88263d4a3b0998f0f2","date_updated":"2023-06-26T09:58:53Z","access_level":"open_access","relation":"main_file","date_created":"2023-06-26T09:58:53Z"}],"scopus_import":"1","publication_status":"published","has_accepted_license":"1","article_number":"9382","oa_version":"Published Version","abstract":[{"text":"Brachyury, a member of T-box gene family, is widely known for its major role in mesoderm specification in bilaterians. It is also present in non-bilaterian metazoans, such as cnidarians, where it acts as a component of an axial patterning system. In this study, we present a phylogenetic analysis of Brachyury genes within phylum Cnidaria, investigate differential expression and address a functional framework of Brachyury paralogs in hydrozoan Dynamena pumila. Our analysis indicates two duplication events of Brachyury within the cnidarian lineage. The first duplication likely appeared in the medusozoan ancestor, resulting in two copies in medusozoans, while the second duplication arose in the hydrozoan ancestor, resulting in three copies in hydrozoans. Brachyury1 and 2 display a conservative expression pattern marking the oral pole of the body axis in D. pumila. On the contrary, Brachyury3 expression was detected in scattered presumably nerve cells of the D. pumila larva. Pharmacological modulations indicated that Brachyury3 is not under regulation of cWnt signaling in contrast to the other two Brachyury genes. Divergence in expression patterns and regulation suggest neofunctionalization of Brachyury3 in hydrozoans.","lang":"eng"}],"ddc":["570"],"day":"09","publication":"Scientific Reports"},{"author":[{"first_name":"Jiayuan","full_name":"Xu, Jiayuan","last_name":"Xu"},{"first_name":"Nana","last_name":"Liu","full_name":"Liu, Nana"},{"full_name":"Polemiti, Elli","first_name":"Elli","last_name":"Polemiti"},{"first_name":"Liliana","last_name":"Garcia-Mondragon","full_name":"Garcia-Mondragon, Liliana"},{"full_name":"Tang, Jie","last_name":"Tang","first_name":"Jie"},{"full_name":"Liu, Xiaoxuan","first_name":"Xiaoxuan","last_name":"Liu"},{"first_name":"Tristram","full_name":"Lett, Tristram","last_name":"Lett"},{"full_name":"Yu, Le","last_name":"Yu","first_name":"Le"},{"last_name":"Nöthen","full_name":"Nöthen, Markus M.","first_name":"Markus M."},{"last_name":"Feng","first_name":"Jianfeng","full_name":"Feng, Jianfeng"},{"last_name":"Yu","full_name":"Yu, Chunshui","first_name":"Chunshui"},{"last_name":"Marquand","first_name":"Andre","full_name":"Marquand, Andre"},{"full_name":"Schumann, Gunter","first_name":"Gunter","last_name":"Schumann"},{"first_name":"Henrik","full_name":"Walter, Henrik","last_name":"Walter"},{"first_name":"Andreas","full_name":"Heinz, Andreas","last_name":"Heinz"},{"last_name":"Ralser","full_name":"Ralser, Markus","first_name":"Markus"},{"full_name":"Twardziok, Sven","last_name":"Twardziok","first_name":"Sven"},{"first_name":"Nilakshi","last_name":"Vaidya","full_name":"Vaidya, Nilakshi"},{"last_name":"Serin","full_name":"Serin, Emin","first_name":"Emin"},{"full_name":"Jentsch, Marcel","last_name":"Jentsch","first_name":"Marcel"},{"full_name":"Hitchen, Esther","first_name":"Esther","last_name":"Hitchen"},{"first_name":"Roland","full_name":"Eils, Roland","last_name":"Eils"},{"last_name":"Taron","first_name":"Ulrike Helene","full_name":"Taron, Ulrike Helene"},{"last_name":"Schütz","full_name":"Schütz, Tatjana","first_name":"Tatjana"},{"full_name":"Schepanski, Kerstin","last_name":"Schepanski","first_name":"Kerstin"},{"first_name":"Jamie","last_name":"Banks","full_name":"Banks, Jamie"},{"first_name":"Tobias","full_name":"Banaschewski, Tobias","last_name":"Banaschewski"},{"full_name":"Jansone, Karina","first_name":"Karina","last_name":"Jansone"},{"full_name":"Christmann, Nina","last_name":"Christmann","first_name":"Nina"},{"last_name":"Meyer-Lindenberg","full_name":"Meyer-Lindenberg, Andreas","first_name":"Andreas"},{"first_name":"Heike","full_name":"Tost, Heike","last_name":"Tost"},{"full_name":"Holz, Nathalie","last_name":"Holz","first_name":"Nathalie"},{"first_name":"Emanuel","last_name":"Schwarz","full_name":"Schwarz, Emanuel"},{"last_name":"Stringaris","first_name":"Argyris","full_name":"Stringaris, Argyris"},{"first_name":"Maja","last_name":"Neidhart","full_name":"Neidhart, Maja"},{"first_name":"Frauke","last_name":"Nees","full_name":"Nees, Frauke"},{"full_name":"Siehl, Sebastian","first_name":"Sebastian","last_name":"Siehl"},{"full_name":"A. Andreassen, Ole","last_name":"A. Andreassen","first_name":"Ole"},{"first_name":"Lars","full_name":"T. Westlye, Lars","last_name":"T. Westlye"},{"last_name":"Van Der Meer","first_name":"Dennis","full_name":"Van Der Meer, Dennis"},{"first_name":"Sara","full_name":"Fernandez, Sara","last_name":"Fernandez"},{"full_name":"Kjelkenes, Rikka","last_name":"Kjelkenes","first_name":"Rikka"},{"full_name":"Ask, Helga","last_name":"Ask","first_name":"Helga"},{"last_name":"Rapp","first_name":"Michael","full_name":"Rapp, Michael"},{"last_name":"Tschorn","full_name":"Tschorn, Mira","first_name":"Mira"},{"first_name":"Sarah Jane","full_name":"Böttger, Sarah Jane","last_name":"Böttger"},{"orcid":"0000-0002-7673-7178","last_name":"Novarino","full_name":"Novarino, Gaia","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Lena","full_name":"Marr, Lena","id":"4406F586-F248-11E8-B48F-1D18A9856A87","last_name":"Marr"},{"first_name":"Mel","last_name":"Slater","full_name":"Slater, Mel"},{"last_name":"Viapiana","full_name":"Viapiana, Guillem Feixas","first_name":"Guillem Feixas"},{"last_name":"Orosa","first_name":"Francisco Eiroa","full_name":"Orosa, Francisco Eiroa"},{"full_name":"Gallego, Jaime","first_name":"Jaime","last_name":"Gallego"},{"last_name":"Pastor","full_name":"Pastor, Alvaro","first_name":"Alvaro"},{"first_name":"Andreas","full_name":"Forstner, Andreas","last_name":"Forstner"},{"full_name":"Hoffmann, Per","first_name":"Per","last_name":"Hoffmann"},{"first_name":"Markus","full_name":"M. Nöthen, Markus","last_name":"M. Nöthen"},{"last_name":"J. Forstner","full_name":"J. Forstner, Andreas","first_name":"Andreas"},{"first_name":"Isabelle","full_name":"Claus, Isabelle","last_name":"Claus"},{"last_name":"Miller","full_name":"Miller, Abbi","first_name":"Abbi"},{"full_name":"Heilmann-Heimbach, Stefanie","last_name":"Heilmann-Heimbach","first_name":"Stefanie"},{"first_name":"Peter","full_name":"Sommer, Peter","last_name":"Sommer"},{"full_name":"Boye, Mona","first_name":"Mona","last_name":"Boye"},{"full_name":"Wilbertz, Johannes","first_name":"Johannes","last_name":"Wilbertz"},{"first_name":"Karen","last_name":"Schmitt","full_name":"Schmitt, Karen"},{"first_name":"Viktor","full_name":"Jirsa, Viktor","last_name":"Jirsa"},{"last_name":"Petkoski","first_name":"Spase","full_name":"Petkoski, Spase"},{"first_name":"Séverine","last_name":"Pitel","full_name":"Pitel, Séverine"},{"last_name":"Otten","full_name":"Otten, Lisa","first_name":"Lisa"},{"first_name":"Anastasios Polykarpos","full_name":"Athanasiadis, Anastasios Polykarpos","last_name":"Athanasiadis"},{"last_name":"Pearmund","full_name":"Pearmund, Charlie","first_name":"Charlie"},{"full_name":"Spanlang, Bernhard","first_name":"Bernhard","last_name":"Spanlang"},{"full_name":"Alvarez, Elena","last_name":"Alvarez","first_name":"Elena"},{"full_name":"Sanchez, Mavi","first_name":"Mavi","last_name":"Sanchez"},{"first_name":"Arantxa","full_name":"Giner, Arantxa","last_name":"Giner"},{"first_name":"Sören","full_name":"Hese, Sören","last_name":"Hese"},{"full_name":"Renner, Paul","first_name":"Paul","last_name":"Renner"},{"full_name":"Jia, Tianye","last_name":"Jia","first_name":"Tianye"},{"last_name":"Gong","full_name":"Gong, Yanting","first_name":"Yanting"},{"first_name":"Yunman","full_name":"Xia, Yunman","last_name":"Xia"},{"full_name":"Chang, Xiao","last_name":"Chang","first_name":"Xiao"},{"first_name":"Vince","full_name":"Calhoun, Vince","last_name":"Calhoun"},{"full_name":"Liu, Jingyu","last_name":"Liu","first_name":"Jingyu"},{"full_name":"Thompson, Paul","first_name":"Paul","last_name":"Thompson"},{"full_name":"Clinton, Nicholas","first_name":"Nicholas","last_name":"Clinton"},{"first_name":"Sylvane","full_name":"Desrivieres, Sylvane","last_name":"Desrivieres"},{"first_name":"Allan","full_name":"H. Young, Allan","last_name":"H. Young"},{"last_name":"Stahl","full_name":"Stahl, Bernd","first_name":"Bernd"},{"full_name":"Ogoh, George","first_name":"George","last_name":"Ogoh"}],"external_id":{"isi":["001013172700001"]},"department":[{"_id":"GaNo"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"success":1,"file_name":"2023_NatureMedicine_Xu.pdf","relation":"main_file","date_updated":"2023-06-26T10:15:44Z","access_level":"open_access","date_created":"2023-06-26T10:15:44Z","checksum":"bcd3225b2731c3442fa98987fd3bd46d","file_id":"13171","creator":"dernst","file_size":7365360,"content_type":"application/pdf"}],"title":"Effects of urban living environments on mental health in adults","has_accepted_license":"1","scopus_import":"1","publication_status":"published","ddc":["570"],"day":"15","abstract":[{"text":"Urban-living individuals are exposed to many environmental factors that may combine and interact to influence mental health. While individual factors of an urban environment have been investigated in isolation, no attempt has been made to model how complex, real-life exposure to living in the city relates to brain and mental health, and how this is moderated by genetic factors. Using the data of 156,075 participants from the UK Biobank, we carried out sparse canonical correlation analyses to investigate the relationships between urban environments and psychiatric symptoms. We found an environmental profile of social deprivation, air pollution, street network and urban land-use density that was positively correlated with an affective symptom group (r = 0.22, Pperm < 0.001), mediated by brain volume differences consistent with reward processing, and moderated by genes enriched for stress response, including CRHR1, explaining 2.01% of the variance in brain volume differences. Protective factors such as greenness and generous destination accessibility were negatively correlated with an anxiety symptom group (r = 0.10, Pperm < 0.001), mediated by brain regions necessary for emotion regulation and moderated by EXD3, explaining 1.65% of the variance. The third urban environmental profile was correlated with an emotional instability symptom group (r = 0.03, Pperm < 0.001). Our findings suggest that different environmental profiles of urban living may influence specific psychiatric symptom groups through distinct neurobiological pathways.","lang":"eng"}],"publication":"Nature Medicine","oa_version":"Published Version","quality_controlled":"1","publication_identifier":{"eissn":["1546-170X"],"issn":["1078-8956"]},"language":[{"iso":"eng"}],"date_created":"2023-06-25T22:00:46Z","citation":{"chicago":"Xu, Jiayuan, Nana Liu, Elli Polemiti, Liliana Garcia-Mondragon, Jie Tang, Xiaoxuan Liu, Tristram Lett, et al. “Effects of Urban Living Environments on Mental Health in Adults.” <i>Nature Medicine</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41591-023-02365-w\">https://doi.org/10.1038/s41591-023-02365-w</a>.","ama":"Xu J, Liu N, Polemiti E, et al. Effects of urban living environments on mental health in adults. <i>Nature Medicine</i>. 2023;29:1456-1467. doi:<a href=\"https://doi.org/10.1038/s41591-023-02365-w\">10.1038/s41591-023-02365-w</a>","ieee":"J. Xu <i>et al.</i>, “Effects of urban living environments on mental health in adults,” <i>Nature Medicine</i>, vol. 29. Springer Nature, pp. 1456–1467, 2023.","mla":"Xu, Jiayuan, et al. “Effects of Urban Living Environments on Mental Health in Adults.” <i>Nature Medicine</i>, vol. 29, Springer Nature, 2023, pp. 1456–67, doi:<a href=\"https://doi.org/10.1038/s41591-023-02365-w\">10.1038/s41591-023-02365-w</a>.","apa":"Xu, J., Liu, N., Polemiti, E., Garcia-Mondragon, L., Tang, J., Liu, X., … Ogoh, G. (2023). Effects of urban living environments on mental health in adults. <i>Nature Medicine</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41591-023-02365-w\">https://doi.org/10.1038/s41591-023-02365-w</a>","short":"J. Xu, N. Liu, E. Polemiti, L. Garcia-Mondragon, J. Tang, X. Liu, T. Lett, L. Yu, M.M. Nöthen, J. Feng, C. Yu, A. Marquand, G. Schumann, H. Walter, A. Heinz, M. Ralser, S. Twardziok, N. Vaidya, E. Serin, M. Jentsch, E. Hitchen, R. Eils, U.H. Taron, T. Schütz, K. Schepanski, J. Banks, T. Banaschewski, K. Jansone, N. Christmann, A. Meyer-Lindenberg, H. Tost, N. Holz, E. Schwarz, A. Stringaris, M. Neidhart, F. Nees, S. Siehl, O. A. Andreassen, L. T. Westlye, D. Van Der Meer, S. Fernandez, R. Kjelkenes, H. Ask, M. Rapp, M. Tschorn, S.J. Böttger, G. Novarino, L. Marr, M. Slater, G.F. Viapiana, F.E. Orosa, J. Gallego, A. Pastor, A. Forstner, P. Hoffmann, M. M. Nöthen, A. J. Forstner, I. Claus, A. Miller, S. Heilmann-Heimbach, P. Sommer, M. Boye, J. Wilbertz, K. Schmitt, V. Jirsa, S. Petkoski, S. Pitel, L. Otten, A.P. Athanasiadis, C. Pearmund, B. Spanlang, E. Alvarez, M. Sanchez, A. Giner, S. Hese, P. Renner, T. Jia, Y. Gong, Y. Xia, X. Chang, V. Calhoun, J. Liu, P. Thompson, N. Clinton, S. Desrivieres, A. H. Young, B. Stahl, G. Ogoh, Nature Medicine 29 (2023) 1456–1467.","ista":"Xu J, Liu N, Polemiti E, Garcia-Mondragon L, Tang J, Liu X, Lett T, Yu L, Nöthen MM, Feng J, Yu C, Marquand A, Schumann G, Walter H, Heinz A, Ralser M, Twardziok S, Vaidya N, Serin E, Jentsch M, Hitchen E, Eils R, Taron UH, Schütz T, Schepanski K, Banks J, Banaschewski T, Jansone K, Christmann N, Meyer-Lindenberg A, Tost H, Holz N, Schwarz E, Stringaris A, Neidhart M, Nees F, Siehl S, A. Andreassen O, T. Westlye L, Van Der Meer D, Fernandez S, Kjelkenes R, Ask H, Rapp M, Tschorn M, Böttger SJ, Novarino G, Marr L, Slater M, Viapiana GF, Orosa FE, Gallego J, Pastor A, Forstner A, Hoffmann P, M. Nöthen M, J. Forstner A, Claus I, Miller A, Heilmann-Heimbach S, Sommer P, Boye M, Wilbertz J, Schmitt K, Jirsa V, Petkoski S, Pitel S, Otten L, Athanasiadis AP, Pearmund C, Spanlang B, Alvarez E, Sanchez M, Giner A, Hese S, Renner P, Jia T, Gong Y, Xia Y, Chang X, Calhoun V, Liu J, Thompson P, Clinton N, Desrivieres S, H. Young A, Stahl B, Ogoh G. 2023. Effects of urban living environments on mental health in adults. Nature Medicine. 29, 1456–1467."},"article_processing_charge":"No","volume":29,"month":"06","oa":1,"date_published":"2023-06-15T00:00:00Z","file_date_updated":"2023-06-26T10:15:44Z","acknowledgement":"This work received support from the European Union-funded Horizon Europe project ‘environMENTAL’ (no. 101057429 to G.S., A.M. and M.M.N.) and cofunding by UK Research and Innovation under the UK Government’s Horizon Europe funding guarantee (nos. 10041392 and 10038599) for study design and data analysis; the Horizon 2020-funded European Research Council Advanced Grant ‘STRATIFY’ (no. 695313 to G.S. for study design and data analysis); the Human Brain Project (HBP SGA3, no. 945539 to G.S. for study design and data analysis); the National Institutes of Health (grant no. R01DA049238 to G.S. for study design and data analysis); the German Research Foundation (COPE; grant no. 675346 to G.S. for study design and data analysis); the National Natural Science Foundation of China (grant no. 82001797 to J.X., grant no. 82030053 to C.Y., grant no. 82202093 to J.T. and grant no. 82150710554 to G.S. for study design, data analysis and preparation of the manuscript); National Key Research and Development Program of China (grant no. 2018YFC1314301 to C.Y. for study design and data analysis); Tianjin Applied Basic Research Diversified Investment Foundation (grant no. 21JCYBJC01360 to J.X. for study design and data analysis); Tianjin Health Technology Project (grant no. TJWJ2021QN002 to J.X. for preparation of the manuscript); Science & Technology Development Fund of the Tianjin Education Commission for Higher Education (grant no. 2019KJ195 to J.X. for preparation of the manuscript); the Tianjin Medical University ‘Clinical Talent Training 123 Climbing Plan’ to J.X. for the preparation of the manuscript; Tianjin Key Medical Discipline (Specialty) Construction Project (grant no. TJYXZDXK-001A to C.Y. for preparation of the manuscript); the National Key R&D Program of China (grant no. 2022YFE0209400 to L.Y. for study design and data analysis); the Tsinghua University Initiative Scientific Research Program (grant no. 2021Z11GHX002 to L.Y. for study design and data analysis); the National Key Scientific and Technological Infrastructure Project ‘Earth System Science Numerical Simulator Facility’ (EarthLab to L.Y. for study design and data analysis); the Chinese National High-end Foreign Expert Recruitment Plan to G.S.; and the Alexander von Humboldt Foundation to G.S. for study design and data analysis.","doi":"10.1038/s41591-023-02365-w","intvolume":"        29","publisher":"Springer Nature","type":"journal_article","status":"public","date_updated":"2023-12-13T11:25:55Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","isi":1,"year":"2023","page":"1456-1467","_id":"13168"},{"date_created":"2023-06-29T13:16:42Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","author":[{"orcid":"0000-0001-8761-9444","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto"}],"file_date_updated":"2024-02-06T07:21:43Z","title":"Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals","date_published":"2023-07-29T00:00:00Z","oa":1,"file":[{"file_size":542873672,"content_type":"application/x-zip-compressed","title":"Outdated Version","description":"After review an updated version of the data is provided","relation":"main_file","access_level":"closed","date_updated":"2023-11-17T14:30:44Z","date_created":"2023-06-29T13:11:22Z","creator":"shigemot","checksum":"ed59170869ba621f89f7c1894092192f","file_id":"13174","file_name":"Raw data for Koppensteiner et al.zip"},{"content_type":"application/vnd.openxmlformats-officedocument.spreadsheetml.sheet","file_size":915079,"success":1,"file_name":"11-17-23 Updated Koppensteiner et al. raw data.xlsx","file_id":"14550","creator":"patrickd","checksum":"c07860eb82b4d367245f1b589fe5c250","relation":"main_file","date_updated":"2023-11-17T14:13:02Z","access_level":"open_access","date_created":"2023-11-17T14:13:02Z"},{"creator":"dernst","file_id":"14942","checksum":"abf84b1699edac4349dc3a92d466fb7b","date_updated":"2024-02-06T07:21:43Z","access_level":"open_access","relation":"main_file","date_created":"2024-02-06T07:21:43Z","success":1,"file_name":"EM_Images.zip","content_type":"application/x-zip-compressed","file_size":544868924}],"article_processing_charge":"No","month":"07","citation":{"apa":"Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">https://doi.org/10.15479/AT:ISTA:13173</a>","mla":"Shigemoto, Ryuichi. <i>Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>.","ieee":"R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals.” Institute of Science and Technology Austria, 2023.","ama":"Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>","chicago":"Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">https://doi.org/10.15479/AT:ISTA:13173</a>.","ista":"Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release by presynaptic GABAB receptor activation in medial habenula terminals, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:13173\">10.15479/AT:ISTA:13173</a>.","short":"R. Shigemoto, (2023)."},"department":[{"_id":"RySh"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"date_updated":"2025-09-04T12:16:24Z","publisher":"Institute of Science and Technology Austria","keyword":["medial habenula","GABAB receptor","vesicle release","Flash and Freeze","Flash and Freeze-fracture"],"status":"public","type":"research_data","corr_author":"1","doi":"10.15479/AT:ISTA:13173","related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"15084"}]},"has_accepted_license":"1","_id":"13173","oa_version":"Published Version","year":"2023","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"29","abstract":[{"text":"GABAB receptor (GBR) activation inhibits neurotransmitter release in axon terminals in the brain, except in medial habenula (MHb) terminals, which show robust potentiation. However, mechanisms underlying this enigmatic potentiation remain elusive. Here, we report that GBR activation on MHb terminals induces an activity-dependent transition from a facilitating, tonic to a depressing, phasic neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic release exhibit distinct coupling distances and are selectively affected by deletion of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation, the short-term plasticity associated with tonic release, and CAPS2 retains the increased RRP for initial responses in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes. Overall, these results indicate that GBR activation translocates CAPS2 to the AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent RRP increase. Thus, we discovered structural and molecular mechanisms underlying tonic and phasic neurotransmitter release and their transition by GBR activation in MHb terminals.","lang":"eng"}],"ddc":["571"]},{"publication":"Proceedings of the American Mathematical Society","issue":"8","abstract":[{"lang":"eng","text":"In this note we study the eigenvalue growth of infinite graphs with discrete spectrum. We assume that the corresponding Dirichlet forms satisfy certain Sobolev-type inequalities and that the total measure is finite. In this sense, the associated operators on these graphs display similarities to elliptic operators on bounded domains in the continuum. Specifically, we prove lower bounds on the eigenvalue growth and show by examples that corresponding upper bounds cannot be established."}],"day":"01","oa_version":"Preprint","publication_status":"published","corr_author":"1","scopus_import":"1","main_file_link":[{"open_access":"1","url":" https://doi.org/10.48550/arXiv.1804.08353"}],"department":[{"_id":"JaMa"}],"title":"Sobolev-type inequalities and eigenvalue growth on graphs with finite measure","author":[{"full_name":"Hua, Bobo","last_name":"Hua","first_name":"Bobo"},{"first_name":"Matthias","last_name":"Keller","full_name":"Keller, Matthias"},{"first_name":"Michael","full_name":"Schwarz, Michael","last_name":"Schwarz"},{"first_name":"Melchior","full_name":"Wirth, Melchior","last_name":"Wirth","id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","orcid":"0000-0002-0519-4241"}],"external_id":{"isi":["000988204400001"],"arxiv":["1804.08353"]},"isi":1,"article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13177","page":"3401-3414","year":"2023","acknowledgement":"The second author was supported by the priority program SPP2026 of the German Research Foundation (DFG). The fourth author was supported by the German Academic Scholarship Foundation (Studienstiftung des deutschen Volkes) and by the German Research Foundation (DFG) via RTG 1523/2.","doi":"10.1090/proc/14361","date_updated":"2024-10-09T21:05:50Z","type":"journal_article","status":"public","publisher":"American Mathematical Society","intvolume":"       151","oa":1,"volume":151,"month":"08","article_processing_charge":"No","citation":{"short":"B. Hua, M. Keller, M. Schwarz, M. Wirth, Proceedings of the American Mathematical Society 151 (2023) 3401–3414.","ista":"Hua B, Keller M, Schwarz M, Wirth M. 2023. Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. Proceedings of the American Mathematical Society. 151(8), 3401–3414.","chicago":"Hua, Bobo, Matthias Keller, Michael Schwarz, and Melchior Wirth. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” <i>Proceedings of the American Mathematical Society</i>. American Mathematical Society, 2023. <a href=\"https://doi.org/10.1090/proc/14361\">https://doi.org/10.1090/proc/14361</a>.","ama":"Hua B, Keller M, Schwarz M, Wirth M. Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. <i>Proceedings of the American Mathematical Society</i>. 2023;151(8):3401-3414. doi:<a href=\"https://doi.org/10.1090/proc/14361\">10.1090/proc/14361</a>","mla":"Hua, Bobo, et al. “Sobolev-Type Inequalities and Eigenvalue Growth on Graphs with Finite Measure.” <i>Proceedings of the American Mathematical Society</i>, vol. 151, no. 8, American Mathematical Society, 2023, pp. 3401–14, doi:<a href=\"https://doi.org/10.1090/proc/14361\">10.1090/proc/14361</a>.","ieee":"B. Hua, M. Keller, M. Schwarz, and M. Wirth, “Sobolev-type inequalities and eigenvalue growth on graphs with finite measure,” <i>Proceedings of the American Mathematical Society</i>, vol. 151, no. 8. American Mathematical Society, pp. 3401–3414, 2023.","apa":"Hua, B., Keller, M., Schwarz, M., &#38; Wirth, M. (2023). Sobolev-type inequalities and eigenvalue growth on graphs with finite measure. <i>Proceedings of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/proc/14361\">https://doi.org/10.1090/proc/14361</a>"},"date_published":"2023-08-01T00:00:00Z","language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"eissn":["1088-6826"],"issn":["0002-9939"]},"arxiv":1,"date_created":"2023-07-02T22:00:43Z"},{"oa_version":"Published Version","ec_funded":1,"project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Analysis of quantum many-body systems","grant_number":"694227"}],"day":"13","abstract":[{"text":"We consider the large polaron described by the Fröhlich Hamiltonian and study its energy-momentum relation defined as the lowest possible energy as a function of the total momentum. Using a suitable family of trial states, we derive an optimal parabolic upper bound for the energy-momentum relation in the limit of strong coupling. The upper bound consists of a momentum independent term that agrees with the predicted two-term expansion for the ground state energy of the strongly coupled polaron at rest and a term that is quadratic in the momentum with coefficient given by the inverse of twice the classical effective mass introduced by Landau and Pekar.","lang":"eng"}],"ddc":["500"],"publication":"Forum of Mathematics","scopus_import":"1","corr_author":"1","publication_status":"published","has_accepted_license":"1","title":"Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron","department":[{"_id":"RoSe"}],"tmp":{"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)","image":"/images/cc_by.png"},"file":[{"date_updated":"2023-07-03T10:36:25Z","access_level":"open_access","relation":"main_file","date_created":"2023-07-03T10:36:25Z","creator":"alisjak","file_id":"13186","checksum":"f672eb7dd015c472c9a04f1b9bf9df7d","file_name":"2023_ForumofMathematics.Sigma_Mitrouskas.pdf","success":1,"file_size":943192,"content_type":"application/pdf"}],"external_id":{"isi":["001005008800001"],"arxiv":["2203.02454"]},"author":[{"full_name":"Mitrouskas, David Johannes","first_name":"David Johannes","last_name":"Mitrouskas","id":"cbddacee-2b11-11eb-a02e-a2e14d04e52d"},{"full_name":"Mysliwy, Krzysztof","last_name":"Mysliwy","id":"316457FC-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof"},{"last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521"}],"year":"2023","page":"1-52","_id":"13178","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","article_type":"original","isi":1,"intvolume":"        11","type":"journal_article","publisher":"Cambridge University Press","status":"public","date_updated":"2025-04-14T07:26:58Z","acknowledgement":"This research was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme grant agreement No. 694227 (R.S.) and the Maria Skłodowska-Curie grant agreement No. 665386 (K.M.).","doi":"10.1017/fms.2023.45","date_published":"2023-06-13T00:00:00Z","file_date_updated":"2023-07-03T10:36:25Z","citation":{"short":"D.J. Mitrouskas, K. Mysliwy, R. Seiringer, Forum of Mathematics 11 (2023) 1–52.","ista":"Mitrouskas DJ, Mysliwy K, Seiringer R. 2023. Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. Forum of Mathematics. 11, 1–52.","mla":"Mitrouskas, David Johannes, et al. “Optimal Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.” <i>Forum of Mathematics</i>, vol. 11, Cambridge University Press, 2023, pp. 1–52, doi:<a href=\"https://doi.org/10.1017/fms.2023.45\">10.1017/fms.2023.45</a>.","ieee":"D. J. Mitrouskas, K. Mysliwy, and R. Seiringer, “Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron,” <i>Forum of Mathematics</i>, vol. 11. Cambridge University Press, pp. 1–52, 2023.","apa":"Mitrouskas, D. J., Mysliwy, K., &#38; Seiringer, R. (2023). Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. <i>Forum of Mathematics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2023.45\">https://doi.org/10.1017/fms.2023.45</a>","chicago":"Mitrouskas, David Johannes, Krzysztof Mysliwy, and Robert Seiringer. “Optimal Parabolic Upper Bound for the Energy-Momentum Relation of a Strongly Coupled Polaron.” <i>Forum of Mathematics</i>. Cambridge University Press, 2023. <a href=\"https://doi.org/10.1017/fms.2023.45\">https://doi.org/10.1017/fms.2023.45</a>.","ama":"Mitrouskas DJ, Mysliwy K, Seiringer R. Optimal parabolic upper bound for the energy-momentum relation of a strongly coupled polaron. <i>Forum of Mathematics</i>. 2023;11:1-52. doi:<a href=\"https://doi.org/10.1017/fms.2023.45\">10.1017/fms.2023.45</a>"},"article_processing_charge":"Yes","month":"06","volume":11,"oa":1,"date_created":"2023-07-02T22:00:43Z","arxiv":1,"quality_controlled":"1","publication_identifier":{"eissn":["2050-5094"]},"language":[{"iso":"eng"}]},{"publication":"Proceedings of the ACM on Programming Languages","abstract":[{"lang":"eng","text":"Writing concurrent code that is both correct and efficient is notoriously difficult. Thus, programmers often prefer to use synchronization abstractions, which render code simpler and easier to reason about. Despite a wealth of work on this topic, there is still a gap between the rich semantics provided by synchronization abstractions in modern programming languages—specifically, fair FIFO ordering of synchronization requests and support for abortable operations—and frameworks for implementing it correctly and efficiently. Supporting such semantics is critical given the rising popularity of constructs for asynchronous programming, such as coroutines, which abort frequently and are cheaper to suspend and resume compared to native threads.\r\n\r\nThis paper introduces a new framework called CancellableQueueSynchronizer (CQS), which enables simple yet efficient implementations of a wide range of fair and abortable synchronization primitives: mutexes, semaphores, barriers, count-down latches, and blocking pools. Our main contribution is algorithmic, as implementing both fairness and abortability efficiently at this level of generality is non-trivial. Importantly, all our algorithms, including the CQS framework and the primitives built on top of it, come with formal proofs in the Iris framework for Coq for many of their properties. These proofs are modular, so it is easy to show correctness for new primitives implemented on top of CQS. From a practical perspective, implementation of CQS for native threads on the JVM improves throughput by up to two orders of magnitude over Java’s AbstractQueuedSynchronizer, the only practical abstraction offering similar semantics. Further, we successfully integrated CQS as a core component of the popular Kotlin Coroutines library, validating the framework’s practical impact and expressiveness in a real-world environment. In sum, CancellableQueueSynchronizer is the first framework to combine expressiveness with formal guarantees and solid practical performance. Our approach should be extensible to other languages and families of synchronization primitives."}],"day":"06","ddc":["000"],"oa_version":"Published Version","article_number":"116","has_accepted_license":"1","publication_status":"published","corr_author":"1","scopus_import":"1","file":[{"content_type":"application/pdf","file_size":1266773,"file_id":"13187","creator":"alisjak","checksum":"5dba6e73f0ed79adbdae14d165bc2f68","date_updated":"2023-07-03T13:09:39Z","relation":"main_file","access_level":"open_access","date_created":"2023-07-03T13:09:39Z","file_name":"2023_ACMProgram.Lang._Koval.pdf","success":1}],"tmp":{"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)","image":"/images/cc_by.png"},"department":[{"_id":"DaAl"}],"title":"CQS: A formally-verified framework for fair and abortable synchronization","author":[{"last_name":"Koval","full_name":"Koval, Nikita","first_name":"Nikita","id":"2F4DB10C-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Khalanskiy, Dmitry","first_name":"Dmitry","last_name":"Khalanskiy"},{"orcid":"0000-0003-3650-940X","last_name":"Alistarh","first_name":"Dan-Adrian","full_name":"Alistarh, Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87"}],"article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13179","year":"2023","doi":"10.1145/3591230","publisher":"Association for Computing Machinery ","status":"public","type":"journal_article","date_updated":"2024-10-09T21:05:51Z","intvolume":"         7","article_processing_charge":"No","volume":7,"month":"06","oa":1,"citation":{"apa":"Koval, N., Khalanskiy, D., &#38; Alistarh, D.-A. (2023). CQS: A formally-verified framework for fair and abortable synchronization. <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery . <a href=\"https://doi.org/10.1145/3591230\">https://doi.org/10.1145/3591230</a>","ieee":"N. Koval, D. Khalanskiy, and D.-A. Alistarh, “CQS: A formally-verified framework for fair and abortable synchronization,” <i>Proceedings of the ACM on Programming Languages</i>, vol. 7. Association for Computing Machinery , 2023.","mla":"Koval, Nikita, et al. “CQS: A Formally-Verified Framework for Fair and Abortable Synchronization.” <i>Proceedings of the ACM on Programming Languages</i>, vol. 7, 116, Association for Computing Machinery , 2023, doi:<a href=\"https://doi.org/10.1145/3591230\">10.1145/3591230</a>.","ama":"Koval N, Khalanskiy D, Alistarh D-A. CQS: A formally-verified framework for fair and abortable synchronization. <i>Proceedings of the ACM on Programming Languages</i>. 2023;7. doi:<a href=\"https://doi.org/10.1145/3591230\">10.1145/3591230</a>","chicago":"Koval, Nikita, Dmitry Khalanskiy, and Dan-Adrian Alistarh. “CQS: A Formally-Verified Framework for Fair and Abortable Synchronization.” <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery , 2023. <a href=\"https://doi.org/10.1145/3591230\">https://doi.org/10.1145/3591230</a>.","ista":"Koval N, Khalanskiy D, Alistarh D-A. 2023. CQS: A formally-verified framework for fair and abortable synchronization. Proceedings of the ACM on Programming Languages. 7, 116.","short":"N. Koval, D. Khalanskiy, D.-A. Alistarh, Proceedings of the ACM on Programming Languages 7 (2023)."},"file_date_updated":"2023-07-03T13:09:39Z","date_published":"2023-06-06T00:00:00Z","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2475-1421"]},"quality_controlled":"1","date_created":"2023-07-02T22:00:43Z"},{"page":"331-342","_id":"13180","year":"2023","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","status":"public","publisher":"Mathematical Sciences Publishers","date_updated":"2024-10-09T21:05:51Z","intvolume":"        16","doi":"10.2140/involve.2023.16.331","date_published":"2023-05-26T00:00:00Z","volume":16,"month":"05","article_processing_charge":"No","oa":1,"citation":{"ieee":"T. D. Browning, J. Lyczak, and R. Sarapin, “Local solubility for a family of quadrics over a split quadric surface,” <i>Involve</i>, vol. 16, no. 2. Mathematical Sciences Publishers, pp. 331–342, 2023.","mla":"Browning, Timothy D., et al. “Local Solubility for a Family of Quadrics over a Split Quadric Surface.” <i>Involve</i>, vol. 16, no. 2, Mathematical Sciences Publishers, 2023, pp. 331–42, doi:<a href=\"https://doi.org/10.2140/involve.2023.16.331\">10.2140/involve.2023.16.331</a>.","apa":"Browning, T. D., Lyczak, J., &#38; Sarapin, R. (2023). Local solubility for a family of quadrics over a split quadric surface. <i>Involve</i>. Mathematical Sciences Publishers. <a href=\"https://doi.org/10.2140/involve.2023.16.331\">https://doi.org/10.2140/involve.2023.16.331</a>","ama":"Browning TD, Lyczak J, Sarapin R. Local solubility for a family of quadrics over a split quadric surface. <i>Involve</i>. 2023;16(2):331-342. doi:<a href=\"https://doi.org/10.2140/involve.2023.16.331\">10.2140/involve.2023.16.331</a>","chicago":"Browning, Timothy D, Julian Lyczak, and Roman Sarapin. “Local Solubility for a Family of Quadrics over a Split Quadric Surface.” <i>Involve</i>. Mathematical Sciences Publishers, 2023. <a href=\"https://doi.org/10.2140/involve.2023.16.331\">https://doi.org/10.2140/involve.2023.16.331</a>.","short":"T.D. Browning, J. Lyczak, R. Sarapin, Involve 16 (2023) 331–342.","ista":"Browning TD, Lyczak J, Sarapin R. 2023. Local solubility for a family of quadrics over a split quadric surface. Involve. 16(2), 331–342."},"date_created":"2023-07-02T22:00:43Z","arxiv":1,"language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"eissn":["1944-4184"],"issn":["1944-4176"]},"oa_version":"Preprint","publication":"Involve","issue":"2","day":"26","abstract":[{"text":"We study the density of everywhere locally soluble diagonal quadric surfaces, parameterised by rational points that lie on a split quadric surface","lang":"eng"}],"corr_author":"1","publication_status":"published","scopus_import":"1","title":"Local solubility for a family of quadrics over a split quadric surface","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2203.06881"}],"department":[{"_id":"TiBr"}],"external_id":{"arxiv":["2203.06881"]},"author":[{"orcid":"0000-0002-8314-0177","first_name":"Timothy D","full_name":"Browning, Timothy D","last_name":"Browning","id":"35827D50-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Julian","full_name":"Lyczak, Julian","id":"3572849A-F248-11E8-B48F-1D18A9856A87","last_name":"Lyczak"},{"full_name":"Sarapin, Roman","last_name":"Sarapin","first_name":"Roman"}]},{"title":"Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts","file":[{"file_size":1127040,"content_type":"application/pdf","date_created":"2023-07-07T12:49:51Z","date_updated":"2023-07-07T12:49:51Z","relation":"main_file","access_level":"open_access","file_id":"13198","checksum":"75584730d9cdd50eeccb4c52c509776d","creator":"ggrosjea","file_name":"Mosaic_asymmetries.pdf","success":1}],"department":[{"_id":"ScWa"}],"external_id":{"arxiv":["2304.12861"],"isi":["001019565900002"]},"author":[{"first_name":"Galien M","id":"0C5FDA4A-9CF6-11E9-8939-FF05E6697425","last_name":"Grosjean","full_name":"Grosjean, Galien M","orcid":"0000-0001-5154-417X"},{"orcid":"0000-0002-2299-3176","last_name":"Waitukaitis","full_name":"Waitukaitis, Scott R","first_name":"Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"}],"ec_funded":1,"oa_version":"Submitted Version","publication":"Physical Review Materials","issue":"6","project":[{"grant_number":"949120","_id":"0aa60e99-070f-11eb-9043-a6de6bdc3afa","name":"Tribocharge: a multi-scale approach to an enduring problem in physics","call_identifier":"H2020"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411"}],"ddc":["537"],"day":"13","abstract":[{"text":"Nominally identical materials exchange net electric charge during contact through a mechanism that is still debated. ‘Mosaic models’, in which surfaces are presumed to consist of a random patchwork of microscopic donor/acceptor sites, offer an appealing explanation for this phenomenon. However, recent experiments have shown that global differences persist even between same-material samples, which the standard mosaic framework does not account for. Here, we expand the mosaic framework by incorporating global differences in the densities of donor/acceptor sites. We develop\r\nan analytical model, backed by numerical simulations, that smoothly connects the global and deterministic charge transfer of different materials to the local and stochastic mosaic picture normally associated with identical materials. Going further, we extend our model to explain the effect of contact asymmetries during sliding, providing a plausible explanation for reversal of charging sign that has been observed experimentally.","lang":"eng"}],"publication_status":"published","corr_author":"1","scopus_import":"1","article_number":"065601","has_accepted_license":"1","file_date_updated":"2023-07-07T12:49:51Z","date_published":"2023-06-13T00:00:00Z","month":"06","article_processing_charge":"No","volume":7,"oa":1,"citation":{"ista":"Grosjean GM, Waitukaitis SR. 2023. Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. Physical Review Materials. 7(6), 065601.","short":"G.M. Grosjean, S.R. Waitukaitis, Physical Review Materials 7 (2023).","apa":"Grosjean, G. M., &#38; Waitukaitis, S. R. (2023). Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. <i>Physical Review Materials</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">https://doi.org/10.1103/physrevmaterials.7.065601</a>","mla":"Grosjean, Galien M., and Scott R. Waitukaitis. “Asymmetries in Triboelectric Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding Contacts.” <i>Physical Review Materials</i>, vol. 7, no. 6, 065601, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">10.1103/physrevmaterials.7.065601</a>.","ieee":"G. M. Grosjean and S. R. Waitukaitis, “Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts,” <i>Physical Review Materials</i>, vol. 7, no. 6. American Physical Society, 2023.","chicago":"Grosjean, Galien M, and Scott R Waitukaitis. “Asymmetries in Triboelectric Charging: Generalizing Mosaic Models to Different-Material Samples and Sliding Contacts.” <i>Physical Review Materials</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">https://doi.org/10.1103/physrevmaterials.7.065601</a>.","ama":"Grosjean GM, Waitukaitis SR. Asymmetries in triboelectric charging: Generalizing mosaic models to different-material samples and sliding contacts. <i>Physical Review Materials</i>. 2023;7(6). doi:<a href=\"https://doi.org/10.1103/physrevmaterials.7.065601\">10.1103/physrevmaterials.7.065601</a>"},"date_created":"2023-07-07T12:48:01Z","arxiv":1,"language":[{"iso":"eng"}],"publication_identifier":{"issn":["2475-9953"]},"quality_controlled":"1","_id":"13197","year":"2023","article_type":"original","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"American Physical Society","type":"journal_article","keyword":["Physics and Astronomy (miscellaneous)","General Materials Science"],"status":"public","date_updated":"2025-04-14T07:43:55Z","intvolume":"         7","doi":"10.1103/physrevmaterials.7.065601","acknowledgement":"This project has received funding from the European Research Council Grant Agreement No. 949120 and from\r\nthe European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant\r\nAgreement No. 754411. "},{"publication_status":"published","corr_author":"1","scopus_import":"1","has_accepted_license":"1","ec_funded":1,"oa_version":"Published Version","issue":"23","publication":"The Journal of Neuroscience","abstract":[{"text":"Phosphatidylinositol-4,5-bisphosphate (PI(4,5)P2) plays an essential role in neuronal activities through interaction with various proteins involved in signaling at membranes. However, the distribution pattern of PI(4,5)P2 and the association with these proteins on the neuronal cell membranes remain elusive. In this study, we established a method for visualizing PI(4,5)P2 by SDS-digested freeze-fracture replica labeling (SDS-FRL) to investigate the quantitative nanoscale distribution of PI(4,5)P2 in cryo-fixed brain. We demonstrate that PI(4,5)P2 forms tiny clusters with a mean size of ∼1000 nm2 rather than randomly distributed in cerebellar neuronal membranes in male C57BL/6J mice. These clusters show preferential accumulation in specific membrane compartments of different cell types, in particular, in Purkinje cell (PC) spines and granule cell (GC) presynaptic active zones. Furthermore, we revealed extensive association of PI(4,5)P2 with CaV2.1 and GIRK3 across different membrane compartments, whereas its association with mGluR1α was compartment specific. These results suggest that our SDS-FRL method provides valuable insights into the physiological functions of PI(4,5)P2 in neurons.","lang":"eng"}],"day":"07","ddc":["570"],"project":[{"grant_number":"793482","name":"Ultrastructural analysis of phosphoinositides in nerve terminals: distribution, dynamics and physiological roles in synaptic transmission","call_identifier":"H2020","_id":"2659CC84-B435-11E9-9278-68D0E5697425"},{"grant_number":"694539","_id":"25CA28EA-B435-11E9-9278-68D0E5697425","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","call_identifier":"H2020"}],"external_id":{"isi":["001020132100005"],"pmid":["37160366"]},"author":[{"full_name":"Eguchi, Kohgaku","last_name":"Eguchi","first_name":"Kohgaku","id":"2B7846DC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6170-2546"},{"full_name":"Le Monnier, Elodie","id":"3B59276A-F248-11E8-B48F-1D18A9856A87","last_name":"Le Monnier","first_name":"Elodie"},{"orcid":"0000-0001-8761-9444","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"}],"title":"Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons","file":[{"date_created":"2023-07-10T09:04:58Z","relation":"main_file","access_level":"open_access","date_updated":"2023-07-10T09:04:58Z","file_id":"13205","checksum":"70b2141870e0bf1c94fd343e18fdbc32","creator":"alisjak","file_name":"2023_JN_Eguchi.pdf","success":1,"file_size":7794425,"content_type":"application/pdf"}],"department":[{"_id":"RySh"}],"tmp":{"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)","image":"/images/cc_by.png"},"date_updated":"2025-04-14T07:27:15Z","status":"public","type":"journal_article","publisher":"Society for Neuroscience","intvolume":"        43","doi":"10.1523/JNEUROSCI.1514-22.2023","acknowledgement":"This work was supported by The Institute of Science and Technology (IST) Austria, the European Union's Horizon 2020 Research and Innovation Program under the Marie Skłodowska-Curie Grant Agreement No. 793482 (to K.E.) and by the European Research Council (ERC) Grant Agreement No. 694539 (to R.S.). We thank Nicoleta Condruz (IST Austria, Klosterneuburg, Austria) for technical assistance with sample preparation, the Electron Microscopy Facility of IST Austria (Klosterneuburg, Austria) for technical support with EM works, Natalia Baranova (University of Vienna, Vienna, Austria) and Martin Loose (IST Austria, Klosterneuburg, Austria) for advice on liposome preparation, and Yugo Fukazawa (University of Fukui, Fukui, Japan) for comments.","_id":"13202","page":"4197-4216","acknowledged_ssus":[{"_id":"EM-Fac"}],"year":"2023","pmid":1,"isi":1,"article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-07-09T22:01:12Z","language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"issn":["0270-6474"],"eissn":["1529-2401"]},"file_date_updated":"2023-07-10T09:04:58Z","date_published":"2023-06-07T00:00:00Z","oa":1,"volume":43,"month":"06","article_processing_charge":"No","citation":{"chicago":"Eguchi, Kohgaku, Elodie Le Monnier, and Ryuichi Shigemoto. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>. Society for Neuroscience, 2023. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>.","ama":"Eguchi K, Le Monnier E, Shigemoto R. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. 2023;43(23):4197-4216. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>","apa":"Eguchi, K., Le Monnier, E., &#38; Shigemoto, R. (2023). Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>","mla":"Eguchi, Kohgaku, et al. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>, vol. 43, no. 23, Society for Neuroscience, 2023, pp. 4197–216, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>.","ieee":"K. Eguchi, E. Le Monnier, and R. Shigemoto, “Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons,” <i>The Journal of Neuroscience</i>, vol. 43, no. 23. Society for Neuroscience, pp. 4197–4216, 2023.","ista":"Eguchi K, Le Monnier E, Shigemoto R. 2023. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. The Journal of Neuroscience. 43(23), 4197–4216.","short":"K. Eguchi, E. Le Monnier, R. Shigemoto, The Journal of Neuroscience 43 (2023) 4197–4216."}},{"file_date_updated":"2024-01-30T10:54:40Z","date_published":"2023-11-13T00:00:00Z","month":"11","volume":4,"article_processing_charge":"Yes","oa":1,"citation":{"chicago":"Xia, Jing, Mengjuan Kong, Zhisen Yang, Lianghanxiao Sun, Yakun Peng, Yanbo Mao, Hong Wei, et al. “Chemical Inhibition of Arabidopsis PIN-FORMED Auxin Transporters by the Anti-Inflammatory Drug Naproxen.” <i>Plant Communications</i>. Elsevier , 2023. <a href=\"https://doi.org/10.1016/j.xplc.2023.100632\">https://doi.org/10.1016/j.xplc.2023.100632</a>.","ama":"Xia J, Kong M, Yang Z, et al. Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory drug naproxen. <i>Plant Communications</i>. 2023;4(6). doi:<a href=\"https://doi.org/10.1016/j.xplc.2023.100632\">10.1016/j.xplc.2023.100632</a>","mla":"Xia, Jing, et al. “Chemical Inhibition of Arabidopsis PIN-FORMED Auxin Transporters by the Anti-Inflammatory Drug Naproxen.” <i>Plant Communications</i>, vol. 4, no. 6, 100632, Elsevier , 2023, doi:<a href=\"https://doi.org/10.1016/j.xplc.2023.100632\">10.1016/j.xplc.2023.100632</a>.","ieee":"J. Xia <i>et al.</i>, “Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory drug naproxen,” <i>Plant Communications</i>, vol. 4, no. 6. Elsevier , 2023.","apa":"Xia, J., Kong, M., Yang, Z., Sun, L., Peng, Y., Mao, Y., … Tan, S. (2023). Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory drug naproxen. <i>Plant Communications</i>. Elsevier . <a href=\"https://doi.org/10.1016/j.xplc.2023.100632\">https://doi.org/10.1016/j.xplc.2023.100632</a>","short":"J. Xia, M. Kong, Z. Yang, L. Sun, Y. Peng, Y. Mao, H. Wei, W. Ying, Y. Gao, J. Friml, J. Weng, X. Liu, L. Sun, S. Tan, Plant Communications 4 (2023).","ista":"Xia J, Kong M, Yang Z, Sun L, Peng Y, Mao Y, Wei H, Ying W, Gao Y, Friml J, Weng J, Liu X, Sun L, Tan S. 2023. Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory drug naproxen. Plant Communications. 4(6), 100632."},"date_created":"2023-07-12T07:32:00Z","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2590-3462"]},"quality_controlled":"1","_id":"13209","pmid":1,"year":"2023","article_type":"original","isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","status":"public","publisher":"Elsevier ","date_updated":"2024-10-21T06:01:37Z","intvolume":"         4","doi":"10.1016/j.xplc.2023.100632","acknowledgement":"This work was supported by the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB37020103 to Linfeng Sun); research funds from the Center for Advanced Interdisciplinary Science\r\nand Biomedicine of IHM, Division of Life Sciences and Medicine, University of Science and Technology of China (QYPY20220012 to S.T.); start-up funding from the University of Science and Technology of China and the\r\nChinese Academy of Sciences (GG9100007007, KY9100000026,KY9100000051, and KJ2070000079 to S.T.); the National Natural Science Foundation of China (31900885 to X.L. and 31870732 to Linfeng Sun); the Natural Science Foundation of Anhui Province (2008085MC90 to X.L. and 2008085J15 to Linfeng Sun); the Fundamental Research Funds for the Central Universities (WK9100000021 to S.T. and WK9100000031 to Linfeng Sun); and the USTC Research Funds of the Double First-Class Initiative (YD9100002016 to S.T. and YD9100002004 to Linfeng Sun). Linfeng Sun is supported by an Outstanding Young Scholar Award from the Qiu Shi Science and Technologies Foundation and a Young Scholar Award from the Cyrus Tang Foundation.We thank Dr. Yang Zhao for sharing published materials (Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences) and the Cryo-EM Center of the University of Science and Technology of China for the EM facility support. We are grateful to Y. Gao and all other staff members for their technical support on cryo-EM data collection. ","title":"Chemical inhibition of Arabidopsis PIN-FORMED auxin transporters by the anti-inflammatory drug naproxen","file":[{"file_name":"2023_PlantCommunications_Xia.pdf","success":1,"file_id":"14900","checksum":"f8ef92af6096834f91ce38587fb1db9f","creator":"dernst","date_created":"2024-01-30T10:54:40Z","date_updated":"2024-01-30T10:54:40Z","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_size":1434862}],"tmp":{"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)","image":"/images/cc_by_nc_nd.png"},"department":[{"_id":"JiFr"}],"external_id":{"isi":["001113003000001"],"pmid":["37254481"]},"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","author":[{"full_name":"Xia, Jing","first_name":"Jing","last_name":"Xia"},{"first_name":"Mengjuan","full_name":"Kong, Mengjuan","last_name":"Kong"},{"full_name":"Yang, Zhisen","last_name":"Yang","first_name":"Zhisen"},{"full_name":"Sun, Lianghanxiao","first_name":"Lianghanxiao","last_name":"Sun"},{"last_name":"Peng","first_name":"Yakun","full_name":"Peng, Yakun"},{"full_name":"Mao, Yanbo","first_name":"Yanbo","last_name":"Mao"},{"full_name":"Wei, Hong","first_name":"Hong","last_name":"Wei"},{"last_name":"Ying","full_name":"Ying, Wei","first_name":"Wei"},{"full_name":"Gao, Yongxiao","last_name":"Gao","first_name":"Yongxiao"},{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596"},{"first_name":"Jianping","full_name":"Weng, Jianping","last_name":"Weng"},{"last_name":"Liu","full_name":"Liu, Xin","first_name":"Xin"},{"full_name":"Sun, Linfeng","first_name":"Linfeng","last_name":"Sun"},{"last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang"}],"oa_version":"Published Version","issue":"6","publication":"Plant Communications","abstract":[{"lang":"eng","text":"The phytohormone auxin plays central roles in many growth and developmental processes in plants. Development of chemical tools targeting the auxin pathway is useful for both plant biology and agriculture. Here we reveal that naproxen, a synthetic compound with anti-inflammatory activity in humans, acts as an auxin transport inhibitor targeting PIN-FORMED (PIN) transporters in plants. Physiological experiments indicate that exogenous naproxen treatment affects pleiotropic auxin-regulated developmental processes. Additional cellular and biochemical evidence indicates that naproxen suppresses auxin transport, specifically PIN-mediated auxin efflux. Moreover, biochemical and structural analyses confirm that naproxen binds directly to PIN1 protein via the same binding cavity as the indole-3-acetic acid substrate. Thus, by combining cellular, biochemical, and structural approaches, this study clearly establishes that naproxen is a PIN inhibitor and elucidates the underlying mechanisms. Further use of this compound may advance our understanding of the molecular mechanisms of PIN-mediated auxin transport and expand our toolkit in auxin biology and agriculture."}],"ddc":["580"],"day":"13","publication_status":"published","scopus_import":"1","article_number":"100632","has_accepted_license":"1"},{"citation":{"apa":"Chen, C., Zhang, Y., Cai, J., Qiu, Y., Li, L., Gao, C., … Gao, Z. (2023). Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>","mla":"Chen, C., et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>, vol. 192, no. 3, American Society of Plant Biologists, 2023, pp. 2243–60, doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>.","ieee":"C. Chen <i>et al.</i>, “Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots,” <i>Plant Physiology</i>, vol. 192, no. 3. American Society of Plant Biologists, pp. 2243–2260, 2023.","chicago":"Chen, C, Y Zhang, J Cai, Y Qiu, L Li, C Gao, Y Gao, et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2023. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>.","ama":"Chen C, Zhang Y, Cai J, et al. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. 2023;192(3):2243-2260. doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>","ista":"Chen C, Zhang Y, Cai J, Qiu Y, Li L, Gao C, Gao Y, Ke M, Wu S, Wei C, Chen J, Xu T, Friml J, Wang J, Li R, Chao D, Zhang B, Chen X, Gao Z. 2023. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. Plant Physiology. 192(3), 2243–2260.","short":"C. Chen, Y. Zhang, J. Cai, Y. Qiu, L. Li, C. Gao, Y. Gao, M. Ke, S. Wu, C. Wei, J. Chen, T. Xu, J. Friml, J. Wang, R. Li, D. Chao, B. Zhang, X. Chen, Z. Gao, Plant Physiology 192 (2023) 2243–2260."},"month":"07","article_processing_charge":"No","volume":192,"oa":1,"date_published":"2023-07-01T00:00:00Z","file_date_updated":"2023-07-13T13:26:33Z","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"quality_controlled":"1","language":[{"iso":"eng"}],"date_created":"2023-07-12T07:32:58Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_type":"original","isi":1,"pmid":1,"year":"2023","page":"2243-2260","_id":"13213","acknowledgement":"We thank Dong liu for offering iron staining technique; ZhiChang Chen and Zhenbiao Yang for discussion; Dandan Zheng for earlier attempt; Liwen Jiang and Dingquan Huang for initial tests of the TEM experiment; John C. Sedbrook for a donation of sku5 and pSKU5::SKU5-GFP seeds; Catherine Perrot-Rechenmann and Ke Zhou for the donation of sks1, sks2, and sku5 sks1 seeds; Zengyu Liu and Zhongquan Lin for live-imaging microscopy assistance. We are grateful to Can Peng, and Xixia Li for helping with sample preparation, and taking TEM images, at the Center for Biological Imaging (CBI), Institute of Biophysics, Chinese Academy of Science.","doi":"10.1093/plphys/kiad207","intvolume":"       192","status":"public","type":"journal_article","publisher":"American Society of Plant Biologists","date_updated":"2024-10-21T06:01:27Z","tmp":{"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)","image":"/images/cc_by.png"},"department":[{"_id":"JiFr"}],"file":[{"content_type":"application/pdf","file_size":2076977,"file_name":"2023_PlantPhys_Chen.pdf","success":1,"file_id":"13220","checksum":"5492e1d18ac3eaf202633d210fa0fb75","creator":"cchlebak","date_created":"2023-07-13T13:26:33Z","relation":"main_file","date_updated":"2023-07-13T13:26:33Z","access_level":"open_access"}],"title":"Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots","author":[{"full_name":"Chen, C","last_name":"Chen","first_name":"C"},{"first_name":"Y","full_name":"Zhang, Y","last_name":"Zhang"},{"last_name":"Cai","full_name":"Cai, J","first_name":"J"},{"last_name":"Qiu","first_name":"Y","full_name":"Qiu, Y"},{"full_name":"Li, L","last_name":"Li","first_name":"L"},{"last_name":"Gao","full_name":"Gao, C","first_name":"C"},{"first_name":"Y","full_name":"Gao, Y","last_name":"Gao"},{"first_name":"M","last_name":"Ke","full_name":"Ke, M"},{"last_name":"Wu","first_name":"S","full_name":"Wu, S"},{"first_name":"C","full_name":"Wei, C","last_name":"Wei"},{"first_name":"J","last_name":"Chen","full_name":"Chen, J"},{"first_name":"T","full_name":"Xu, T","last_name":"Xu"},{"last_name":"Friml","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596"},{"first_name":"J","full_name":"Wang, J","last_name":"Wang"},{"last_name":"Li","first_name":"R","full_name":"Li, R"},{"full_name":"Chao, D","first_name":"D","last_name":"Chao"},{"last_name":"Zhang","first_name":"B","full_name":"Zhang, B"},{"first_name":"X","last_name":"Chen","full_name":"Chen, X"},{"full_name":"Gao, Z","last_name":"Gao","first_name":"Z"}],"external_id":{"isi":["000971795800001"],"pmid":["37010107"]},"abstract":[{"text":"The primary cell wall is a fundamental plant constituent that is flexible but sufficiently rigid to support the plant cell shape. Although many studies have demonstrated that reactive oxygen species (ROS) serve as important signaling messengers to modify the cell wall structure and affect cellular growth, the regulatory mechanism underlying the spatial-temporal regulation of ROS activity for cell wall maintenance remains largely unclear. Here, we demonstrate the role of the Arabidopsis (Arabidopsis thaliana) multicopper oxidase-like protein skewed 5 (SKU5) and its homolog SKU5-similar 1 (SKS1) in root cell wall formation through modulating ROS homeostasis. Loss of SKU5 and SKS1 function resulted in aberrant division planes, protruding cell walls, ectopic deposition of iron, and reduced nicotinamide adeninedinucleotide phosphate (NADPH) oxidase-dependent ROS overproduction in the root epidermis–cortex and cortex–endodermis junctions. A decrease in ROS level or inhibition of NADPH oxidase activity rescued the cell wall defects of sku5 sks1 double mutants. SKU5 and SKS1 proteins were activated by iron treatment, and iron over-accumulated in the walls between the root epidermis and cortex cell layers of sku5 sks1. The glycosylphosphatidylinositol-anchored motif was crucial for membrane association and functionality of SKU5 and SKS1. Overall, our results identified SKU5 and SKS1 as regulators of ROS at the cell surface for regulation of cell wall structure and root cell growth.","lang":"eng"}],"day":"01","ddc":["575"],"publication":"Plant Physiology","issue":"3","oa_version":"Published Version","has_accepted_license":"1","scopus_import":"1","publication_status":"published"},{"article_number":"1613","has_accepted_license":"1","corr_author":"1","publication_status":"published","scopus_import":"1","publication":"Cells","issue":"12","project":[{"grant_number":"26130","name":"Functional asymmetry of medial habenula outputs in mice","_id":"62883ed7-2b32-11ec-9570-93580204e56b"}],"day":"13","abstract":[{"text":"Nitrogen is an important macronutrient required for plant growth and development, thus directly impacting agricultural productivity. In recent years, numerous studies have shown that nitrogen-driven growth depends on pathways that control nitrate/nitrogen homeostasis and hormonal networks that act both locally and systemically to coordinate growth and development of plant organs. In this review, we will focus on recent advances in understanding the role of the plant hormones auxin and cytokinin and their crosstalk in nitrate-regulated growth and discuss the significance of novel findings and possible missing links.","lang":"eng"}],"ddc":["570"],"oa_version":"Published Version","author":[{"full_name":"Abualia, R","last_name":"Abualia","first_name":"R"},{"id":"FF6018E0-D806-11E9-8E43-0B14E6697425","first_name":"Stefan","full_name":"Riegler, Stefan","last_name":"Riegler","orcid":"0000-0003-3413-1343"},{"orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva"}],"external_id":{"pmid":["37371083"],"isi":["001017033600001"]},"file":[{"file_name":"2023_cells_Abualia.pdf","success":1,"access_level":"open_access","date_updated":"2023-07-12T10:01:54Z","relation":"main_file","date_created":"2023-07-12T10:01:54Z","creator":"alisjak","file_id":"13218","checksum":"6dc9df5f4f59fc27c509c275060354a5","file_size":1066802,"content_type":"application/pdf"}],"department":[{"_id":"EvBe"}],"tmp":{"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)","image":"/images/cc_by.png"},"title":"Nitrate, auxin and cytokinin - a trio to tango","acknowledgement":"This work was supported by the Austrian Academy of Sciences ÖAW: Doc fellowship (26130) to Stefan Riegler.","doi":"10.3390/cells12121613","publisher":"MDPI","status":"public","type":"journal_article","date_updated":"2025-04-15T06:27:18Z","intvolume":"        12","article_type":"review","isi":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"13214","pmid":1,"year":"2023","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2073-4409"]},"quality_controlled":"1","date_created":"2023-07-12T07:41:25Z","volume":12,"month":"06","article_processing_charge":"Yes","oa":1,"citation":{"ama":"Abualia R, Riegler S, Benková E. Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. 2023;12(12). doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>","chicago":"Abualia, R, Stefan Riegler, and Eva Benková. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>.","apa":"Abualia, R., Riegler, S., &#38; Benková, E. (2023). Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. MDPI. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>","mla":"Abualia, R., et al. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>, vol. 12, no. 12, 1613, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>.","ieee":"R. Abualia, S. Riegler, and E. Benková, “Nitrate, auxin and cytokinin - a trio to tango,” <i>Cells</i>, vol. 12, no. 12. MDPI, 2023.","ista":"Abualia R, Riegler S, Benková E. 2023. Nitrate, auxin and cytokinin - a trio to tango. Cells. 12(12), 1613.","short":"R. Abualia, S. Riegler, E. Benková, Cells 12 (2023)."},"file_date_updated":"2023-07-12T10:01:54Z","date_published":"2023-06-13T00:00:00Z"}]