[{"scopus_import":"1","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"7902"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"159","oa":1,"article_number":"e61147","file_date_updated":"2020-07-14T12:48:03Z","publication":"Journal of Visual Experiments","date_created":"2020-05-11T08:31:20Z","external_id":{"isi":["000546406600043"]},"project":[{"name":"Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex","call_identifier":"FWF","_id":"264E56E2-B435-11E9-9278-68D0E5697425","grant_number":"M02416"},{"grant_number":"T0101031","_id":"268F8446-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Role of Eed in neural stem cell lineage progression"},{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"name":"Molecular Mechanisms of Radial Neuronal Migration","grant_number":"24812","_id":"2625A13E-B435-11E9-9278-68D0E5697425"},{"_id":"260018B0-B435-11E9-9278-68D0E5697425","grant_number":"725780","call_identifier":"H2020","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development"}],"_id":"7815","month":"05","title":"Lineage tracing and clonal analysis in developing cerebral cortex using mosaic analysis with double markers (MADM)","date_updated":"2024-03-25T23:30:23Z","ec_funded":1,"date_published":"2020-05-08T00:00:00Z","article_processing_charge":"No","citation":{"mla":"Beattie, Robert J., et al. “Lineage Tracing and Clonal Analysis in Developing Cerebral Cortex Using Mosaic Analysis with Double Markers (MADM).” Journal of Visual Experiments, no. 159, e61147, MyJove Corporation, 2020, doi:10.3791/61147.","ista":"Beattie RJ, Streicher C, Amberg N, Cheung GT, Contreras X, Hansen AH, Hippenmeyer S. 2020. Lineage tracing and clonal analysis in developing cerebral cortex using mosaic analysis with double markers (MADM). Journal of Visual Experiments. (159), e61147.","ama":"Beattie RJ, Streicher C, Amberg N, et al. Lineage tracing and clonal analysis in developing cerebral cortex using mosaic analysis with double markers (MADM). Journal of Visual Experiments. 2020;(159). doi:10.3791/61147","chicago":"Beattie, Robert J, Carmen Streicher, Nicole Amberg, Giselle T Cheung, Ximena Contreras, Andi H Hansen, and Simon Hippenmeyer. “Lineage Tracing and Clonal Analysis in Developing Cerebral Cortex Using Mosaic Analysis with Double Markers (MADM).” Journal of Visual Experiments. MyJove Corporation, 2020. https://doi.org/10.3791/61147.","ieee":"R. J. Beattie et al., “Lineage tracing and clonal analysis in developing cerebral cortex using mosaic analysis with double markers (MADM),” Journal of Visual Experiments, no. 159. MyJove Corporation, 2020.","apa":"Beattie, R. J., Streicher, C., Amberg, N., Cheung, G. T., Contreras, X., Hansen, A. H., & Hippenmeyer, S. (2020). Lineage tracing and clonal analysis in developing cerebral cortex using mosaic analysis with double markers (MADM). Journal of Visual Experiments. MyJove Corporation. https://doi.org/10.3791/61147","short":"R.J. Beattie, C. Streicher, N. Amberg, G.T. Cheung, X. Contreras, A.H. Hansen, S. Hippenmeyer, Journal of Visual Experiments (2020)."},"type":"journal_article","file":[{"creator":"rbeattie","date_created":"2020-05-11T08:28:38Z","file_id":"7816","access_level":"open_access","file_name":"jove-protocol-61147-lineage-tracing-clonal-analysis-developing-cerebral-cortex-using.pdf","file_size":1352186,"content_type":"application/pdf","date_updated":"2020-07-14T12:48:03Z","checksum":"3154ea7f90b9fb45e084cd1c2770597d","relation":"main_file"}],"article_type":"original","ddc":["570"],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"PreCl"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","abstract":[{"text":"Beginning from a limited pool of progenitors, the mammalian cerebral cortex forms highly organized functional neural circuits. However, the underlying cellular and molecular mechanisms regulating lineage transitions of neural stem cells (NSCs) and eventual production of neurons and glia in the developing neuroepithelium remains unclear. Methods to trace NSC division patterns and map the lineage of clonally related cells have advanced dramatically. However, many contemporary lineage tracing techniques suffer from the lack of cellular resolution of progeny cell fate, which is essential for deciphering progenitor cell division patterns. Presented is a protocol using mosaic analysis with double markers (MADM) to perform in vivo clonal analysis. MADM concomitantly manipulates individual progenitor cells and visualizes precise division patterns and lineage progression at unprecedented single cell resolution. MADM-based interchromosomal recombination events during the G2-X phase of mitosis, together with temporally inducible CreERT2, provide exact information on the birth dates of clones and their division patterns. Thus, MADM lineage tracing provides unprecedented qualitative and quantitative optical readouts of the proliferation mode of stem cell progenitors at the single cell level. MADM also allows for examination of the mechanisms and functional requirements of candidate genes in NSC lineage progression. This method is unique in that comparative analysis of control and mutant subclones can be performed in the same tissue environment in vivo. Here, the protocol is described in detail, and experimental paradigms to employ MADM for clonal analysis and lineage tracing in the developing cerebral cortex are demonstrated. Importantly, this protocol can be adapted to perform MADM clonal analysis in any murine stem cell niche, as long as the CreERT2 driver is present.","lang":"eng"}],"publication_status":"published","quality_controlled":"1","oa_version":"Published Version","doi":"10.3791/61147","day":"08","publisher":"MyJove Corporation","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"SiHi"}],"publication_identifier":{"issn":["1940-087X"]},"author":[{"full_name":"Beattie, Robert J","orcid":"0000-0002-8483-8753","last_name":"Beattie","id":"2E26DF60-F248-11E8-B48F-1D18A9856A87","first_name":"Robert J"},{"last_name":"Streicher","full_name":"Streicher, Carmen","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen"},{"id":"4CD6AAC6-F248-11E8-B48F-1D18A9856A87","first_name":"Nicole","last_name":"Amberg","full_name":"Amberg, Nicole","orcid":"0000-0002-3183-8207"},{"last_name":"Cheung","full_name":"Cheung, Giselle T","orcid":"0000-0001-8457-2572","id":"471195F6-F248-11E8-B48F-1D18A9856A87","first_name":"Giselle T"},{"last_name":"Contreras","full_name":"Contreras, Ximena","first_name":"Ximena","id":"475990FE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Andi H","id":"38853E16-F248-11E8-B48F-1D18A9856A87","full_name":"Hansen, Andi H","last_name":"Hansen"},{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","first_name":"Simon","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer"}],"isi":1,"year":"2020"},{"abstract":[{"lang":"eng","text":"Water-in-salt electrolytes based on highly concentrated bis(trifluoromethyl)sulfonimide (TFSI) promise aqueous electrolytes with stabilities nearing 3 V. However, especially with an electrode approaching the cathodic (reductive) stability, cycling stability is insufficient. While stability critically relies on a solid electrolyte interphase (SEI), the mechanism behind the cathodic stability limit remains unclear. Here, we reveal two distinct reduction potentials for the chemical environments of 'free' and 'bound' water and that both contribute to SEI formation. Free-water is reduced ~1V above bound water in a hydrogen evolution reaction (HER) and responsible for SEI formation via reactive intermediates of the HER; concurrent LiTFSI precipitation/dissolution establishes a dynamic interface. The free-water population emerges, therefore, as the handle to extend the cathodic limit of aqueous electrolytes and the battery cycling stability. "}],"publication_status":"published","has_accepted_license":"1","status":"public","pmid":1,"language":[{"iso":"eng"}],"quality_controlled":"1","file":[{"access_level":"open_access","success":1,"file_name":"2020_AngChemieINT_Buchal.pdf","file_size":1966184,"content_type":"application/pdf","date_updated":"2020-09-17T08:57:16Z","checksum":"7b6c2fc20e9b0ff4353352f7a7004e2d","relation":"main_file","creator":"dernst","date_created":"2020-09-17T08:57:16Z","file_id":"8400"}],"type":"journal_article","citation":{"ama":"Bouchal R, Li Z, Bongu C, et al. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. 2020;59(37):15913-1591. doi:10.1002/anie.202005378","chicago":"Bouchal, Roza, Zhujie Li, Chandra Bongu, Steven Le Vot, Romain Berthelot, Benjamin Rotenberg, Fréderic Favier, Stefan Alexander Freunberger, Mathieu Salanne, and Olivier Fontaine. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie International Edition. Wiley, 2020. https://doi.org/10.1002/anie.202005378.","mla":"Bouchal, Roza, et al. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie International Edition, vol. 59, no. 37, Wiley, 2020, pp. 15913–1591, doi:10.1002/anie.202005378.","ista":"Bouchal R, Li Z, Bongu C, Le Vot S, Berthelot R, Rotenberg B, Favier F, Freunberger SA, Salanne M, Fontaine O. 2020. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. 59(37), 15913–1591.","short":"R. Bouchal, Z. Li, C. Bongu, S. Le Vot, R. Berthelot, B. Rotenberg, F. Favier, S.A. Freunberger, M. Salanne, O. Fontaine, Angewandte Chemie International Edition 59 (2020) 15913–1591.","apa":"Bouchal, R., Li, Z., Bongu, C., Le Vot, S., Berthelot, R., Rotenberg, B., … Fontaine, O. (2020). Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.202005378","ieee":"R. Bouchal et al., “Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte,” Angewandte Chemie International Edition, vol. 59, no. 37. Wiley, pp. 15913–1591, 2020."},"ddc":["540","546"],"article_type":"original","publication_identifier":{"issn":["1433-7851"],"eissn":["1521-3773"]},"department":[{"_id":"StFr"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"year":"2020","isi":1,"author":[{"first_name":"Roza","last_name":"Bouchal","full_name":"Bouchal, Roza"},{"last_name":"Li","full_name":"Li, Zhujie","first_name":"Zhujie"},{"last_name":"Bongu","full_name":"Bongu, Chandra","first_name":"Chandra"},{"full_name":"Le Vot, Steven","last_name":"Le Vot","first_name":"Steven"},{"first_name":"Romain","last_name":"Berthelot","full_name":"Berthelot, Romain"},{"first_name":"Benjamin","full_name":"Rotenberg, Benjamin","last_name":"Rotenberg"},{"first_name":"Fréderic","last_name":"Favier","full_name":"Favier, Fréderic"},{"first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","orcid":"0000-0003-2902-5319","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger"},{"first_name":"Mathieu","full_name":"Salanne, Mathieu","last_name":"Salanne"},{"first_name":"Olivier","full_name":"Fontaine, Olivier","last_name":"Fontaine"}],"doi":"10.1002/anie.202005378","oa_version":"Published Version","publisher":"Wiley","day":"07","volume":59,"intvolume":" 59","oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","issue":"37","scopus_import":"1","title":"Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte","date_updated":"2023-09-05T16:02:53Z","month":"09","article_processing_charge":"No","date_published":"2020-09-07T00:00:00Z","publication":"Angewandte Chemie International Edition","file_date_updated":"2020-09-17T08:57:16Z","page":"15913-1591","_id":"7847","external_id":{"isi":["000541488700001"],"pmid":["32390281"]},"date_created":"2020-05-14T21:00:30Z"},{"article_processing_charge":"No","date_published":"2020-06-01T00:00:00Z","date_updated":"2023-08-21T06:28:52Z","title":"Precision medicine in clinical oncology: the journey from IgG antibody to IgE","month":"06","_id":"7864","external_id":{"isi":["000561358300010"]},"date_created":"2020-05-17T22:00:44Z","publication":"Current opinion in allergy and clinical immunology","page":"282-289","intvolume":" 20","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"3","volume":20,"scopus_import":"1","year":"2020","author":[{"id":"36432834-F248-11E8-B48F-1D18A9856A87","first_name":"Judit","full_name":"Singer, Judit","orcid":"0000-0002-8777-3502","last_name":"Singer"},{"first_name":"Josef","full_name":"Singer, Josef","last_name":"Singer"},{"first_name":"Erika","last_name":"Jensen-Jarolim","full_name":"Jensen-Jarolim, Erika"}],"isi":1,"department":[{"_id":"Bio"}],"publication_identifier":{"eissn":["14736322"]},"publisher":"Wolters Kluwer","day":"01","doi":"10.1097/ACI.0000000000000637","oa_version":"None","quality_controlled":"1","abstract":[{"text":"Purpose of review: Cancer is one of the leading causes of death and the incidence rates are constantly rising. The heterogeneity of tumors poses a big challenge for the treatment of the disease and natural antibodies additionally affect disease progression. The introduction of engineered mAbs for anticancer immunotherapies has substantially improved progression-free and overall survival of cancer patients, but little efforts have been made to exploit other antibody isotypes than IgG.\r\nRecent findings: In order to improve these therapies, ‘next-generation antibodies’ were engineered to enhance a specific feature of classical antibodies and form a group of highly effective and precise therapy compounds. Advanced antibody approaches include among others antibody-drug conjugates, glyco-engineered and Fc-engineered antibodies, antibody fragments, radioimmunotherapy compounds, bispecific antibodies and alternative (non-IgG) immunoglobulin classes, especially IgE.\r\nSummary: The current review describes solutions for the needs of next-generation antibody therapies through different approaches. Careful selection of the best-suited engineering methodology is a key factor in developing personalized, more specific and more efficient mAbs against cancer to improve the outcomes of cancer patients. We highlight here the large evidence of IgE exploiting a highly cytotoxic effector arm as potential next-generation anticancer immunotherapy.","lang":"eng"}],"publication_status":"published","status":"public","language":[{"iso":"eng"}],"article_type":"original","citation":{"ama":"Singer J, Singer J, Jensen-Jarolim E. Precision medicine in clinical oncology: the journey from IgG antibody to IgE. Current opinion in allergy and clinical immunology. 2020;20(3):282-289. doi:10.1097/ACI.0000000000000637","chicago":"Singer, Judit, Josef Singer, and Erika Jensen-Jarolim. “Precision Medicine in Clinical Oncology: The Journey from IgG Antibody to IgE.” Current Opinion in Allergy and Clinical Immunology. Wolters Kluwer, 2020. https://doi.org/10.1097/ACI.0000000000000637.","mla":"Singer, Judit, et al. “Precision Medicine in Clinical Oncology: The Journey from IgG Antibody to IgE.” Current Opinion in Allergy and Clinical Immunology, vol. 20, no. 3, Wolters Kluwer, 2020, pp. 282–89, doi:10.1097/ACI.0000000000000637.","ista":"Singer J, Singer J, Jensen-Jarolim E. 2020. Precision medicine in clinical oncology: the journey from IgG antibody to IgE. Current opinion in allergy and clinical immunology. 20(3), 282–289.","apa":"Singer, J., Singer, J., & Jensen-Jarolim, E. (2020). Precision medicine in clinical oncology: the journey from IgG antibody to IgE. Current Opinion in Allergy and Clinical Immunology. Wolters Kluwer. https://doi.org/10.1097/ACI.0000000000000637","short":"J. Singer, J. Singer, E. Jensen-Jarolim, Current Opinion in Allergy and Clinical Immunology 20 (2020) 282–289.","ieee":"J. Singer, J. Singer, and E. Jensen-Jarolim, “Precision medicine in clinical oncology: the journey from IgG antibody to IgE,” Current opinion in allergy and clinical immunology, vol. 20, no. 3. Wolters Kluwer, pp. 282–289, 2020."},"type":"journal_article"},{"intvolume":" 6","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Open access funding provided by Austrian Science Fund (FWF). The second author has been supported by the International Research Training Group IGDK 1754 “Optimization and Numerical Analysis for Partial Differential Equations with Nonsmooth Structures”, funded by the German Research Council (DFG) and the Austrian Science Fund (FWF) under grant number [W 1244-N18].","volume":6,"scopus_import":"1","article_processing_charge":"No","date_published":"2020-12-01T00:00:00Z","title":"Uniform convergence to equilibrium for a family of drift–diffusion models with trap-assisted recombination and the limiting Shockley–Read–Hall model","date_updated":"2021-01-12T08:15:47Z","month":"12","_id":"7866","project":[{"name":"FWF Open Access Fund","call_identifier":"FWF","_id":"3AC91DDA-15DF-11EA-824D-93A3E7B544D1"}],"date_created":"2020-05-17T22:00:45Z","publication":"Journal of Elliptic and Parabolic Equations","file_date_updated":"2020-11-25T08:59:59Z","page":"529-598","quality_controlled":"1","abstract":[{"text":"In this paper, we establish convergence to equilibrium for a drift–diffusion–recombination system modelling the charge transport within certain semiconductor devices. More precisely, we consider a two-level system for electrons and holes which is augmented by an intermediate energy level for electrons in so-called trapped states. The recombination dynamics use the mass action principle by taking into account this additional trap level. The main part of the paper is concerned with the derivation of an entropy–entropy production inequality, which entails exponential convergence to the equilibrium via the so-called entropy method. The novelty of our approach lies in the fact that the entropy method is applied uniformly in a fast-reaction parameter which governs the lifetime of electrons on the trap level. Thus, the resulting decay estimate for the densities of electrons and holes extends to the corresponding quasi-steady-state approximation.","lang":"eng"}],"publication_status":"published","status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"ddc":["510"],"article_type":"original","file":[{"date_updated":"2020-11-25T08:59:59Z","content_type":"application/pdf","file_size":8408694,"relation":"main_file","checksum":"6bc6832caacddceee1471291e93dcf1d","success":1,"access_level":"open_access","file_name":"2020_JourEllipticParabEquat_Fellner.pdf","file_id":"8802","date_created":"2020-11-25T08:59:59Z","creator":"dernst"}],"type":"journal_article","citation":{"ieee":"K. Fellner and M. Kniely, “Uniform convergence to equilibrium for a family of drift–diffusion models with trap-assisted recombination and the limiting Shockley–Read–Hall model,” Journal of Elliptic and Parabolic Equations, vol. 6. Springer Nature, pp. 529–598, 2020.","apa":"Fellner, K., & Kniely, M. (2020). Uniform convergence to equilibrium for a family of drift–diffusion models with trap-assisted recombination and the limiting Shockley–Read–Hall model. Journal of Elliptic and Parabolic Equations. Springer Nature. https://doi.org/10.1007/s41808-020-00068-8","short":"K. Fellner, M. Kniely, Journal of Elliptic and Parabolic Equations 6 (2020) 529–598.","ista":"Fellner K, Kniely M. 2020. Uniform convergence to equilibrium for a family of drift–diffusion models with trap-assisted recombination and the limiting Shockley–Read–Hall model. Journal of Elliptic and Parabolic Equations. 6, 529–598.","mla":"Fellner, Klemens, and Michael Kniely. “Uniform Convergence to Equilibrium for a Family of Drift–Diffusion Models with Trap-Assisted Recombination and the Limiting Shockley–Read–Hall Model.” Journal of Elliptic and Parabolic Equations, vol. 6, Springer Nature, 2020, pp. 529–98, doi:10.1007/s41808-020-00068-8.","ama":"Fellner K, Kniely M. Uniform convergence to equilibrium for a family of drift–diffusion models with trap-assisted recombination and the limiting Shockley–Read–Hall model. Journal of Elliptic and Parabolic Equations. 2020;6:529-598. doi:10.1007/s41808-020-00068-8","chicago":"Fellner, Klemens, and Michael Kniely. “Uniform Convergence to Equilibrium for a Family of Drift–Diffusion Models with Trap-Assisted Recombination and the Limiting Shockley–Read–Hall Model.” Journal of Elliptic and Parabolic Equations. Springer Nature, 2020. https://doi.org/10.1007/s41808-020-00068-8."},"year":"2020","author":[{"first_name":"Klemens","last_name":"Fellner","full_name":"Fellner, Klemens"},{"last_name":"Kniely","full_name":"Kniely, Michael","orcid":"0000-0001-5645-4333","id":"2CA2C08C-F248-11E8-B48F-1D18A9856A87","first_name":"Michael"}],"department":[{"_id":"JuFi"}],"publication_identifier":{"issn":["22969020"],"eissn":["22969039"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Springer Nature","day":"01","doi":"10.1007/s41808-020-00068-8","oa_version":"Published Version"},{"scopus_import":"1","article_number":"e201907154","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"6","acknowledgement":"The authors thank the Scientific Service Units (Life Sciences, Bioimaging, Preclinical) of the Institute of Science and Technology Austria for excellent support. This work was funded by the European Research Council (ERC StG 281556 and CoG 724373), two grants from the Austrian\r\nScience Fund (FWF; P29911 and DK Nanocell W1250-B20 to M. Sixt) and by the German Research Foundation (DFG SFB1032 project B09) to O. Thorn-Seshold and D. Trauner. J. Renkawitz was supported by ISTFELLOW funding from the People Program (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under the Research Executive Agency grant agreement (291734) and a European Molecular Biology Organization long-term fellowship (ALTF 1396-2014) co-funded by the European Commission (LTFCOFUND2013, GA-2013-609409), E. Kiermaier by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy—EXC 2151—390873048, and H. Hacker by the American Lebanese Syrian Associated ¨Charities. K.-D. Fischer was supported by the Analysis, Imaging and Modelling of Neuronal and Inflammatory Processes graduate school funded by the Ministry of Economics, Science, and Digitisation of the State Saxony-Anhalt and by the European Funds for Social and Regional Development.","intvolume":" 219","oa":1,"volume":219,"project":[{"call_identifier":"FP7","_id":"25A603A2-B435-11E9-9278-68D0E5697425","grant_number":"281556","name":"Cytoskeletal force generation and force transduction of migrating leukocytes"},{"call_identifier":"H2020","grant_number":"724373","_id":"25FE9508-B435-11E9-9278-68D0E5697425","name":"Cellular navigation along spatial gradients"},{"call_identifier":"FWF","_id":"26018E70-B435-11E9-9278-68D0E5697425","grant_number":"P29911","name":"Mechanical adaptation of lamellipodial actin"},{"name":"Nano-Analytics of Cellular Systems","call_identifier":"FWF","_id":"252C3B08-B435-11E9-9278-68D0E5697425","grant_number":"W 1250-B20"},{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"},{"grant_number":"ALTF 1396-2014","_id":"25A48D24-B435-11E9-9278-68D0E5697425","name":"Molecular and system level view of immune cell migration"}],"_id":"7875","date_created":"2020-05-24T22:00:56Z","external_id":{"pmid":["32379884"],"isi":["000538141100020"]},"file_date_updated":"2020-11-24T13:25:13Z","publication":"The Journal of Cell Biology","date_published":"2020-06-01T00:00:00Z","article_processing_charge":"No","ec_funded":1,"title":"Microtubules control cellular shape and coherence in amoeboid migrating cells","date_updated":"2023-08-21T06:28:17Z","month":"06","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"PreCl"}],"ddc":["570"],"article_type":"original","file":[{"file_size":7536712,"content_type":"application/pdf","date_updated":"2020-11-24T13:25:13Z","checksum":"cb0b9c77842ae1214caade7b77e4d82d","relation":"main_file","access_level":"open_access","success":1,"file_name":"2020_JCellBiol_Kopf.pdf","file_id":"8801","creator":"dernst","date_created":"2020-11-24T13:25:13Z"}],"citation":{"short":"A. Kopf, J. Renkawitz, R. Hauschild, I. Girkontaite, K. Tedford, J. Merrin, O. Thorn-Seshold, D. Trauner, H. Häcker, K.D. Fischer, E. Kiermaier, M.K. Sixt, The Journal of Cell Biology 219 (2020).","apa":"Kopf, A., Renkawitz, J., Hauschild, R., Girkontaite, I., Tedford, K., Merrin, J., … Sixt, M. K. (2020). Microtubules control cellular shape and coherence in amoeboid migrating cells. The Journal of Cell Biology. Rockefeller University Press. https://doi.org/10.1083/jcb.201907154","ieee":"A. Kopf et al., “Microtubules control cellular shape and coherence in amoeboid migrating cells,” The Journal of Cell Biology, vol. 219, no. 6. Rockefeller University Press, 2020.","chicago":"Kopf, Aglaja, Jörg Renkawitz, Robert Hauschild, Irute Girkontaite, Kerry Tedford, Jack Merrin, Oliver Thorn-Seshold, et al. “Microtubules Control Cellular Shape and Coherence in Amoeboid Migrating Cells.” The Journal of Cell Biology. Rockefeller University Press, 2020. https://doi.org/10.1083/jcb.201907154.","ama":"Kopf A, Renkawitz J, Hauschild R, et al. Microtubules control cellular shape and coherence in amoeboid migrating cells. The Journal of Cell Biology. 2020;219(6). doi:10.1083/jcb.201907154","ista":"Kopf A, Renkawitz J, Hauschild R, Girkontaite I, Tedford K, Merrin J, Thorn-Seshold O, Trauner D, Häcker H, Fischer KD, Kiermaier E, Sixt MK. 2020. Microtubules control cellular shape and coherence in amoeboid migrating cells. The Journal of Cell Biology. 219(6), e201907154.","mla":"Kopf, Aglaja, et al. “Microtubules Control Cellular Shape and Coherence in Amoeboid Migrating Cells.” The Journal of Cell Biology, vol. 219, no. 6, e201907154, Rockefeller University Press, 2020, doi:10.1083/jcb.201907154."},"type":"journal_article","quality_controlled":"1","abstract":[{"lang":"eng","text":"Cells navigating through complex tissues face a fundamental challenge: while multiple protrusions explore different paths, the cell needs to avoid entanglement. How a cell surveys and then corrects its own shape is poorly understood. Here, we demonstrate that spatially distinct microtubule dynamics regulate amoeboid cell migration by locally promoting the retraction of protrusions. In migrating dendritic cells, local microtubule depolymerization within protrusions remote from the microtubule organizing center triggers actomyosin contractility controlled by RhoA and its exchange factor Lfc. Depletion of Lfc leads to aberrant myosin localization, thereby causing two effects that rate-limit locomotion: (1) impaired cell edge coordination during path finding and (2) defective adhesion resolution. Compromised shape control is particularly hindering in geometrically complex microenvironments, where it leads to entanglement and ultimately fragmentation of the cell body. We thus demonstrate that microtubules can act as a proprioceptive device: they sense cell shape and control actomyosin retraction to sustain cellular coherence."}],"publication_status":"published","language":[{"iso":"eng"}],"status":"public","pmid":1,"has_accepted_license":"1","publisher":"Rockefeller University Press","day":"01","doi":"10.1083/jcb.201907154","oa_version":"Published Version","author":[{"id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","first_name":"Aglaja","last_name":"Kopf","full_name":"Kopf, Aglaja","orcid":"0000-0002-2187-6656"},{"id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg","full_name":"Renkawitz, Jörg","orcid":"0000-0003-2856-3369","last_name":"Renkawitz"},{"full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"},{"first_name":"Irute","full_name":"Girkontaite, Irute","last_name":"Girkontaite"},{"last_name":"Tedford","full_name":"Tedford, Kerry","first_name":"Kerry"},{"first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack"},{"first_name":"Oliver","last_name":"Thorn-Seshold","full_name":"Thorn-Seshold, Oliver"},{"id":"E8F27F48-3EBA-11E9-92A1-B709E6697425","first_name":"Dirk","full_name":"Trauner, Dirk","last_name":"Trauner"},{"last_name":"Häcker","full_name":"Häcker, Hans","first_name":"Hans"},{"first_name":"Klaus Dieter","last_name":"Fischer","full_name":"Fischer, Klaus Dieter"},{"last_name":"Kiermaier","full_name":"Kiermaier, Eva","orcid":"0000-0001-6165-5738","first_name":"Eva","id":"3EB04B78-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Sixt","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"isi":1,"year":"2020","department":[{"_id":"MiSi"},{"_id":"Bio"},{"_id":"NanoFab"}],"publication_identifier":{"eissn":["1540-8140"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"}},{"abstract":[{"lang":"eng","text":"In contrast to lymph nodes, the lymphoid regions of the spleen—the white pulp—are located deep within the organ, yielding the trafficking paths of T cells in the white pulp largely invisible. In an intravital microscopy tour de force reported in this issue of Immunity, Chauveau et al. show that T cells perform unidirectional, perivascular migration through the enigmatic marginal zone bridging channels. "}],"publication_status":"published","status":"public","language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","citation":{"ama":"Sixt MK, Lämmermann T. T cells: Bridge-and-channel commute to the white pulp. Immunity. 2020;52(5):721-723. doi:10.1016/j.immuni.2020.04.020","chicago":"Sixt, Michael K, and Tim Lämmermann. “T Cells: Bridge-and-Channel Commute to the White Pulp.” Immunity. Elsevier, 2020. https://doi.org/10.1016/j.immuni.2020.04.020.","ista":"Sixt MK, Lämmermann T. 2020. T cells: Bridge-and-channel commute to the white pulp. Immunity. 52(5), 721–723.","mla":"Sixt, Michael K., and Tim Lämmermann. “T Cells: Bridge-and-Channel Commute to the White Pulp.” Immunity, vol. 52, no. 5, Elsevier, 2020, pp. 721–23, doi:10.1016/j.immuni.2020.04.020.","apa":"Sixt, M. K., & Lämmermann, T. (2020). T cells: Bridge-and-channel commute to the white pulp. Immunity. Elsevier. https://doi.org/10.1016/j.immuni.2020.04.020","short":"M.K. Sixt, T. Lämmermann, Immunity 52 (2020) 721–723.","ieee":"M. K. Sixt and T. Lämmermann, “T cells: Bridge-and-channel commute to the white pulp,” Immunity, vol. 52, no. 5. Elsevier, pp. 721–723, 2020."},"article_type":"original","publication_identifier":{"eissn":["10974180"],"issn":["10747613"]},"department":[{"_id":"MiSi"}],"year":"2020","author":[{"last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K"},{"first_name":"Tim","last_name":"Lämmermann","full_name":"Lämmermann, Tim"}],"isi":1,"doi":"10.1016/j.immuni.2020.04.020","oa_version":"Published Version","publisher":"Elsevier","day":"19","main_file_link":[{"open_access":"1","url":"https://pure.mpg.de/pubman/item/item_3265599_2/component/file_3265620/Sixt%20et%20al..pdf"}],"volume":52,"intvolume":" 52","oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"5","scopus_import":"1","title":"T cells: Bridge-and-channel commute to the white pulp","date_updated":"2023-08-21T06:27:18Z","month":"05","article_processing_charge":"No","date_published":"2020-05-19T00:00:00Z","publication":"Immunity","page":"721-723","_id":"7876","external_id":{"isi":["000535371100002"]},"date_created":"2020-05-24T22:00:57Z"},{"quality_controlled":"1","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","publication_status":"published","abstract":[{"text":"The NIPBL/MAU2 heterodimer loads cohesin onto chromatin. Mutations inNIPBLaccount for most cases ofthe rare developmental disorder Cornelia de Lange syndrome (CdLS). Here we report aMAU2 variant causing CdLS, a deletion of seven amino acids that impairs the interaction between MAU2 and the NIPBL N terminus.Investigating this interaction, we discovered that MAU2 and the NIPBL N terminus are largely dispensable fornormal cohesin and NIPBL function in cells with a NIPBL early truncating mutation. Despite a predicted fataloutcome of an out-of-frame single nucleotide duplication inNIPBL, engineered in two different cell lines,alternative translation initiation yields a form of NIPBL missing N-terminal residues. This form cannot interactwith MAU2, but binds DNA and mediates cohesin loading. Altogether, our work reveals that cohesin loading can occur independently of functional NIPBL/MAU2 complexes and highlights a novel mechanism protectiveagainst out-of-frame mutations that is potentially relevant for other genetic conditions.","lang":"eng"}],"article_type":"original","ddc":["570"],"citation":{"ista":"Parenti I, Diab F, Gil SR, Mulugeta E, Casa V, Berutti R, Brouwer RWW, Dupé V, Eckhold J, Graf E, Puisac B, Ramos F, Schwarzmayr T, Gines MM, Van Staveren T, Van Ijcken WFJ, Strom TM, Pié J, Watrin E, Kaiser FJ, Wendt KS. 2020. MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. Cell Reports. 31(7), 107647.","mla":"Parenti, Ilaria, et al. “MAU2 and NIPBL Variants Impair the Heterodimerization of the Cohesin Loader Subunits and Cause Cornelia de Lange Syndrome.” Cell Reports, vol. 31, no. 7, 107647, Elsevier, 2020, doi:10.1016/j.celrep.2020.107647.","chicago":"Parenti, Ilaria, Farah Diab, Sara Ruiz Gil, Eskeatnaf Mulugeta, Valentina Casa, Riccardo Berutti, Rutger W.W. Brouwer, et al. “MAU2 and NIPBL Variants Impair the Heterodimerization of the Cohesin Loader Subunits and Cause Cornelia de Lange Syndrome.” Cell Reports. Elsevier, 2020. https://doi.org/10.1016/j.celrep.2020.107647.","ama":"Parenti I, Diab F, Gil SR, et al. MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. Cell Reports. 2020;31(7). doi:10.1016/j.celrep.2020.107647","ieee":"I. Parenti et al., “MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome,” Cell Reports, vol. 31, no. 7. Elsevier, 2020.","short":"I. Parenti, F. Diab, S.R. Gil, E. Mulugeta, V. Casa, R. Berutti, R.W.W. Brouwer, V. Dupé, J. Eckhold, E. Graf, B. Puisac, F. Ramos, T. Schwarzmayr, M.M. Gines, T. Van Staveren, W.F.J. Van Ijcken, T.M. Strom, J. Pié, E. Watrin, F.J. Kaiser, K.S. Wendt, Cell Reports 31 (2020).","apa":"Parenti, I., Diab, F., Gil, S. R., Mulugeta, E., Casa, V., Berutti, R., … Wendt, K. S. (2020). MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome. Cell Reports. Elsevier. https://doi.org/10.1016/j.celrep.2020.107647"},"type":"journal_article","file":[{"file_name":"2020_CellReports_Parenti.pdf","access_level":"open_access","checksum":"64d8f7467731ee5c166b10b939b8310b","relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:48:04Z","file_size":4695682,"creator":"dernst","date_created":"2020-05-26T11:05:01Z","file_id":"7892"}],"isi":1,"author":[{"full_name":"Parenti, Ilaria","last_name":"Parenti","first_name":"Ilaria","id":"D93538B0-5B71-11E9-AC62-02EBE5697425"},{"first_name":"Farah","last_name":"Diab","full_name":"Diab, Farah"},{"full_name":"Gil, Sara Ruiz","last_name":"Gil","first_name":"Sara Ruiz"},{"first_name":"Eskeatnaf","full_name":"Mulugeta, Eskeatnaf","last_name":"Mulugeta"},{"first_name":"Valentina","last_name":"Casa","full_name":"Casa, Valentina"},{"first_name":"Riccardo","last_name":"Berutti","full_name":"Berutti, Riccardo"},{"first_name":"Rutger W.W.","full_name":"Brouwer, Rutger W.W.","last_name":"Brouwer"},{"full_name":"Dupé, Valerie","last_name":"Dupé","first_name":"Valerie"},{"first_name":"Juliane","full_name":"Eckhold, Juliane","last_name":"Eckhold"},{"first_name":"Elisabeth","last_name":"Graf","full_name":"Graf, Elisabeth"},{"first_name":"Beatriz","full_name":"Puisac, Beatriz","last_name":"Puisac"},{"full_name":"Ramos, Feliciano","last_name":"Ramos","first_name":"Feliciano"},{"last_name":"Schwarzmayr","full_name":"Schwarzmayr, Thomas","first_name":"Thomas"},{"full_name":"Gines, Macarena Moronta","last_name":"Gines","first_name":"Macarena Moronta"},{"first_name":"Thomas","last_name":"Van Staveren","full_name":"Van Staveren, Thomas"},{"first_name":"Wilfred F.J.","last_name":"Van Ijcken","full_name":"Van Ijcken, Wilfred F.J."},{"first_name":"Tim M.","last_name":"Strom","full_name":"Strom, Tim M."},{"full_name":"Pié, Juan","last_name":"Pié","first_name":"Juan"},{"first_name":"Erwan","full_name":"Watrin, Erwan","last_name":"Watrin"},{"last_name":"Kaiser","full_name":"Kaiser, Frank J.","first_name":"Frank J."},{"first_name":"Kerstin S.","full_name":"Wendt, Kerstin S.","last_name":"Wendt"}],"year":"2020","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":"GaNo"}],"publication_identifier":{"eissn":["22111247"]},"day":"19","publisher":"Elsevier","oa_version":"Published Version","doi":"10.1016/j.celrep.2020.107647","issue":"7","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 31","oa":1,"article_number":"107647","volume":31,"scopus_import":"1","date_published":"2020-05-19T00:00:00Z","article_processing_charge":"No","month":"05","date_updated":"2023-08-21T06:27:47Z","title":"MAU2 and NIPBL variants impair the heterodimerization of the cohesin loader subunits and cause Cornelia de Lange syndrome","date_created":"2020-05-24T22:00:57Z","external_id":{"isi":["000535655200005"]},"_id":"7877","file_date_updated":"2020-07-14T12:48:04Z","publication":"Cell Reports"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 9","oa":1,"article_number":"e56839","volume":9,"scopus_import":"1","date_published":"2020-05-13T00:00:00Z","article_processing_charge":"No","month":"05","date_updated":"2023-08-21T06:26:50Z","title":"Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo","date_created":"2020-05-24T22:00:58Z","external_id":{"isi":["000535191600001"],"pmid":["32401196"]},"_id":"7878","file_date_updated":"2020-07-14T12:48:04Z","publication":"eLife","quality_controlled":"1","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","pmid":1,"abstract":[{"lang":"eng","text":"Type 1 metabotropic glutamate receptors (mGluR1s) are key elements in neuronal signaling. While their function is well documented in slices, requirements for their activation in vivo are poorly understood. We examine this question in adult mice in vivo using 2-photon imaging of cerebellar molecular layer interneurons (MLIs) expressing GCaMP. In anesthetized mice, parallel fiber activation evokes beam-like Cai rises in postsynaptic MLIs which depend on co-activation of mGluR1s and ionotropic glutamate receptors (iGluRs). In awake mice, blocking mGluR1 decreases Cai rises associated with locomotion. In vitro studies and freeze-fracture electron microscopy show that the iGluR-mGluR1 interaction is synergistic and favored by close association of the two classes of receptors. Altogether our results suggest that mGluR1s, acting in synergy with iGluRs, potently contribute to processing cerebellar neuronal signaling under physiological conditions."}],"publication_status":"published","article_type":"original","ddc":["570"],"citation":{"ieee":"J. Bao et al., “Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo,” eLife, vol. 9. eLife Sciences Publications, 2020.","apa":"Bao, J., Graupner, M., Astorga, G., Collin, T., Jalil, A., Indriati, D. W., … Llano, I. (2020). Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.56839","short":"J. Bao, M. Graupner, G. Astorga, T. Collin, A. Jalil, D.W. Indriati, J. Bradley, R. Shigemoto, I. Llano, ELife 9 (2020).","ista":"Bao J, Graupner M, Astorga G, Collin T, Jalil A, Indriati DW, Bradley J, Shigemoto R, Llano I. 2020. Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. eLife. 9, e56839.","mla":"Bao, Jin, et al. “Synergism of Type 1 Metabotropic and Ionotropic Glutamate Receptors in Cerebellar Molecular Layer Interneurons in Vivo.” ELife, vol. 9, e56839, eLife Sciences Publications, 2020, doi:10.7554/eLife.56839.","ama":"Bao J, Graupner M, Astorga G, et al. Synergism of type 1 metabotropic and ionotropic glutamate receptors in cerebellar molecular layer interneurons in vivo. eLife. 2020;9. doi:10.7554/eLife.56839","chicago":"Bao, Jin, Michael Graupner, Guadalupe Astorga, Thibault Collin, Abdelali Jalil, Dwi Wahyu Indriati, Jonathan Bradley, Ryuichi Shigemoto, and Isabel Llano. “Synergism of Type 1 Metabotropic and Ionotropic Glutamate Receptors in Cerebellar Molecular Layer Interneurons in Vivo.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/eLife.56839."},"type":"journal_article","file":[{"file_id":"7891","creator":"dernst","date_created":"2020-05-26T09:34:54Z","content_type":"application/pdf","date_updated":"2020-07-14T12:48:04Z","file_size":4832050,"checksum":"8ea99bb6660cc407dbdb00c173b01683","relation":"main_file","access_level":"open_access","file_name":"2020_eLife_Bao.pdf"}],"author":[{"first_name":"Jin","full_name":"Bao, Jin","last_name":"Bao"},{"first_name":"Michael","full_name":"Graupner, Michael","last_name":"Graupner"},{"full_name":"Astorga, Guadalupe","last_name":"Astorga","first_name":"Guadalupe"},{"last_name":"Collin","full_name":"Collin, Thibault","first_name":"Thibault"},{"full_name":"Jalil, Abdelali","last_name":"Jalil","first_name":"Abdelali"},{"full_name":"Indriati, Dwi Wahyu","last_name":"Indriati","first_name":"Dwi Wahyu"},{"full_name":"Bradley, Jonathan","last_name":"Bradley","first_name":"Jonathan"},{"id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","first_name":"Ryuichi","orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto"},{"last_name":"Llano","full_name":"Llano, Isabel","first_name":"Isabel"}],"isi":1,"year":"2020","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"eissn":["2050084X"]},"department":[{"_id":"RySh"}],"day":"13","publisher":"eLife Sciences Publications","oa_version":"Published Version","doi":"10.7554/eLife.56839"},{"type":"journal_article","citation":{"ieee":"R. R. Fagan et al., “Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and in vivo impact,” Journal of Biological Chemistry, vol. 295, no. 16. ASBMB Publications, pp. 5229–5244, 2020.","apa":"Fagan, R. R., Kearney, P. J., Sweeney, C. G., Luethi, D., Schoot Uiterkamp, F. E., Schicker, K., … Melikian, H. E. (2020). Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of Biological Chemistry. ASBMB Publications. https://doi.org/10.1074/jbc.RA120.012628","short":"R.R. Fagan, P.J. Kearney, C.G. Sweeney, D. Luethi, F.E. Schoot Uiterkamp, K. Schicker, B.S. Alejandro, L.C. O’Connor, H.H. Sitte, H.E. Melikian, Journal of Biological Chemistry 295 (2020) 5229–5244.","ista":"Fagan RR, Kearney PJ, Sweeney CG, Luethi D, Schoot Uiterkamp FE, Schicker K, Alejandro BS, O’Connor LC, Sitte HH, Melikian HE. 2020. Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of Biological Chemistry. 295(16), 5229–5244.","mla":"Fagan, Rita R., et al. “Dopamine Transporter Trafficking and Rit2 GTPase: Mechanism of Action and in Vivo Impact.” Journal of Biological Chemistry, vol. 295, no. 16, ASBMB Publications, 2020, pp. 5229–44, doi:10.1074/jbc.RA120.012628.","ama":"Fagan RR, Kearney PJ, Sweeney CG, et al. Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and in vivo impact. Journal of Biological Chemistry. 2020;295(16):5229-5244. doi:10.1074/jbc.RA120.012628","chicago":"Fagan, Rita R., Patrick J. Kearney, Carolyn G. Sweeney, Dino Luethi, Florianne E Schoot Uiterkamp, Klaus Schicker, Brian S. Alejandro, Lauren C. O’Connor, Harald H. Sitte, and Haley E. Melikian. “Dopamine Transporter Trafficking and Rit2 GTPase: Mechanism of Action and in Vivo Impact.” Journal of Biological Chemistry. ASBMB Publications, 2020. https://doi.org/10.1074/jbc.RA120.012628."},"article_type":"original","pmid":1,"status":"public","language":[{"iso":"eng"}],"abstract":[{"text":"Following its evoked release, dopamine (DA) signaling is rapidly terminated by presynaptic reuptake, mediated by the cocaine-sensitive DA transporter (DAT). DAT surface availability is dynamically regulated by endocytic trafficking, and direct protein kinase C (PKC) activation acutely diminishes DAT surface expression by accelerating DAT internalization. Previous cell line studies demonstrated that PKC-stimulated DAT endocytosis requires both Ack1 inactivation, which releases a DAT-specific endocytic brake, and the neuronal GTPase, Rit2, which binds DAT. However, it is unknown whether Rit2 is required for PKC-stimulated DAT endocytosis in DAergic terminals or whether there are region- and/or sex-dependent differences in PKC-stimulated DAT trafficking. Moreover, the mechanisms by which Rit2 controls PKC-stimulated DAT endocytosis are unknown. Here, we directly examined these important questions. Ex vivo studies revealed that PKC activation acutely decreased DAT surface expression selectively in ventral, but not dorsal, striatum. AAV-mediated, conditional Rit2 knockdown in DAergic neurons impacted baseline DAT surface:intracellular distribution in DAergic terminals from female ventral, but not dorsal, striatum. Further, Rit2 was required for PKC-stimulated DAT internalization in both male and female ventral striatum. FRET and surface pulldown studies in cell lines revealed that PKC activation drives DAT-Rit2 surface dissociation and that the DAT N terminus is required for both PKC-mediated DAT-Rit2 dissociation and DAT internalization. Finally, we found that Rit2 and Ack1 independently converge on DAT to facilitate PKC-stimulated DAT endocytosis. Together, our data provide greater insight into mechanisms that mediate PKC-regulated DAT internalization and reveal unexpected region-specific differences in PKC-stimulated DAT trafficking in bona fide DAergic terminals. ","lang":"eng"}],"publication_status":"published","quality_controlled":"1","oa_version":"Submitted Version","doi":"10.1074/jbc.RA120.012628","day":"17","publisher":"ASBMB Publications","publication_identifier":{"eissn":["1083351X"],"issn":["00219258"]},"department":[{"_id":"SaSi"}],"year":"2020","author":[{"first_name":"Rita R.","full_name":"Fagan, Rita R.","last_name":"Fagan"},{"first_name":"Patrick J.","last_name":"Kearney","full_name":"Kearney, Patrick J."},{"first_name":"Carolyn G.","full_name":"Sweeney, Carolyn G.","last_name":"Sweeney"},{"first_name":"Dino","last_name":"Luethi","full_name":"Luethi, Dino"},{"first_name":"Florianne E","id":"3526230C-F248-11E8-B48F-1D18A9856A87","last_name":"Schoot Uiterkamp","full_name":"Schoot Uiterkamp, Florianne E"},{"full_name":"Schicker, Klaus","last_name":"Schicker","first_name":"Klaus"},{"full_name":"Alejandro, Brian S.","last_name":"Alejandro","first_name":"Brian S."},{"full_name":"O'Connor, Lauren C.","last_name":"O'Connor","first_name":"Lauren C."},{"full_name":"Sitte, Harald H.","last_name":"Sitte","first_name":"Harald H."},{"full_name":"Melikian, Haley E.","last_name":"Melikian","first_name":"Haley E."}],"isi":1,"scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://escholarship.umassmed.edu/oapubs/4187"}],"volume":295,"oa":1,"intvolume":" 295","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"16","page":"5229-5244","publication":"Journal of Biological Chemistry","external_id":{"pmid":["32132171"],"isi":["000530288000006"]},"date_created":"2020-05-24T22:00:59Z","_id":"7880","month":"04","title":"Dopamine transporter trafficking and Rit2 GTPase: Mechanism of action and in vivo impact","date_updated":"2023-08-21T06:26:22Z","article_processing_charge":"No","date_published":"2020-04-17T00:00:00Z"},{"abstract":[{"lang":"eng","text":"A few-body cluster is a building block of a many-body system in a gas phase provided the temperature at most is of the order of the binding energy of this cluster. Here we illustrate this statement by considering a system of tubes filled with dipolar distinguishable particles. We calculate the partition function, which determines the probability to find a few-body cluster at a given temperature. The input for our calculations—the energies of few-body clusters—is estimated using the harmonic approximation. We first describe and demonstrate the validity of our numerical procedure. Then we discuss the results featuring melting of the zero-temperature many-body state into a gas of free particles and few-body clusters. For temperature higher than its binding energy threshold, the dimers overwhelmingly dominate the ensemble, where the remaining probability is in free particles. At very high temperatures free (harmonic oscillator trap-bound) particle dominance is eventually reached. This structure evolution appears both for one and two particles in each layer providing crucial information about the behavior of ultracold dipolar gases. The investigation addresses the transition region between few- and many-body physics as a function of temperature using a system of ten dipoles in five tubes."}],"publication_status":"published","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","quality_controlled":"1","file":[{"relation":"main_file","checksum":"a05a7df724522203d079673a0d4de4bc","date_updated":"2020-07-14T12:48:04Z","content_type":"application/pdf","file_size":990540,"file_name":"2020_Mathematics_Armstrong.pdf","access_level":"open_access","file_id":"7887","date_created":"2020-05-25T14:42:22Z","creator":"dernst"}],"type":"journal_article","citation":{"short":"J.R. Armstrong, A.S. Jensen, A. Volosniev, N.T. Zinner, Mathematics 8 (2020).","apa":"Armstrong, J. R., Jensen, A. S., Volosniev, A., & Zinner, N. T. (2020). Clusters in separated tubes of tilted dipoles. Mathematics. MDPI. https://doi.org/10.3390/math8040484","ieee":"J. R. Armstrong, A. S. Jensen, A. Volosniev, and N. T. Zinner, “Clusters in separated tubes of tilted dipoles,” Mathematics, vol. 8, no. 4. MDPI, 2020.","chicago":"Armstrong, Jeremy R., Aksel S. Jensen, Artem Volosniev, and Nikolaj T. Zinner. “Clusters in Separated Tubes of Tilted Dipoles.” Mathematics. MDPI, 2020. https://doi.org/10.3390/math8040484.","ama":"Armstrong JR, Jensen AS, Volosniev A, Zinner NT. Clusters in separated tubes of tilted dipoles. Mathematics. 2020;8(4). doi:10.3390/math8040484","mla":"Armstrong, Jeremy R., et al. “Clusters in Separated Tubes of Tilted Dipoles.” Mathematics, vol. 8, no. 4, 484, MDPI, 2020, doi:10.3390/math8040484.","ista":"Armstrong JR, Jensen AS, Volosniev A, Zinner NT. 2020. Clusters in separated tubes of tilted dipoles. Mathematics. 8(4), 484."},"ddc":["510"],"article_type":"original","publication_identifier":{"eissn":["22277390"]},"department":[{"_id":"MiLe"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"author":[{"first_name":"Jeremy R.","last_name":"Armstrong","full_name":"Armstrong, Jeremy R."},{"first_name":"Aksel S.","last_name":"Jensen","full_name":"Jensen, Aksel S."},{"last_name":"Volosniev","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem","first_name":"Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Nikolaj T.","last_name":"Zinner","full_name":"Zinner, Nikolaj T."}],"year":"2020","doi":"10.3390/math8040484","oa_version":"Published Version","publisher":"MDPI","day":"01","volume":8,"article_number":"484","issue":"4","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"intvolume":" 8","scopus_import":"1","title":"Clusters in separated tubes of tilted dipoles","date_updated":"2023-08-21T06:23:36Z","month":"04","date_published":"2020-04-01T00:00:00Z","article_processing_charge":"No","ec_funded":1,"file_date_updated":"2020-07-14T12:48:04Z","publication":"Mathematics","_id":"7882","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"date_created":"2020-05-24T22:01:00Z","external_id":{"isi":["000531824100024"]}},{"acknowledgement":"We thank A. Leithner and J. Renkawitz for discussion and critical reading of the manuscript; J. Schwarz and M. Mehling for establishing the microfluidic setups; the Bioimaging Facility of IST Austria for excellent support, as well as the Life Science Facility and the Miba Machine Shop of IST Austria; and F. N. Arslan, L. E. Burnett and L. Li for their work during their rotation in the IST PhD programme. This work was supported by the European Research Council (ERC StG 281556 and CoG 724373) to M.S. and grants from the Austrian Science Fund (FWF P29911) and the WWTF to M.S. M.H. was supported by the European Regional Development Fund Project (CZ.02.1.01/0.0/0.0/15_003/0000476). F.G. received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 747687.","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 582","volume":582,"related_material":{"record":[{"id":"14697","status":"public","relation":"dissertation_contains"},{"status":"public","relation":"dissertation_contains","id":"12401"}],"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/off-road-mode-enables-mobile-cells-to-move-freely/","description":"News on IST Homepage"}]},"scopus_import":"1","date_published":"2020-06-25T00:00:00Z","article_processing_charge":"No","ec_funded":1,"date_updated":"2024-03-25T23:30:12Z","title":"Cellular locomotion using environmental topography","month":"06","_id":"7885","project":[{"name":"Cytoskeletal force generation and force transduction of migrating leukocytes","_id":"25A603A2-B435-11E9-9278-68D0E5697425","grant_number":"281556","call_identifier":"FP7"},{"call_identifier":"H2020","_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373","name":"Cellular navigation along spatial gradients"},{"name":"Mechanical adaptation of lamellipodial actin","call_identifier":"FWF","grant_number":"P29911","_id":"26018E70-B435-11E9-9278-68D0E5697425"},{"name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","call_identifier":"H2020","_id":"260AA4E2-B435-11E9-9278-68D0E5697425","grant_number":"747687"}],"date_created":"2020-05-24T22:01:01Z","external_id":{"isi":["000532688300008"]},"publication":"Nature","page":"582–585","quality_controlled":"1","publication_status":"published","abstract":[{"text":"Eukaryotic cells migrate by coupling the intracellular force of the actin cytoskeleton to the environment. While force coupling is usually mediated by transmembrane adhesion receptors, especially those of the integrin family, amoeboid cells such as leukocytes can migrate extremely fast despite very low adhesive forces1. Here we show that leukocytes cannot only migrate under low adhesion but can also transmit forces in the complete absence of transmembrane force coupling. When confined within three-dimensional environments, they use the topographical features of the substrate to propel themselves. Here the retrograde flow of the actin cytoskeleton follows the texture of the substrate, creating retrograde shear forces that are sufficient to drive the cell body forwards. Notably, adhesion-dependent and adhesion-independent migration are not mutually exclusive, but rather are variants of the same principle of coupling retrograde actin flow to the environment and thus can potentially operate interchangeably and simultaneously. As adhesion-free migration is independent of the chemical composition of the environment, it renders cells completely autonomous in their locomotive behaviour.","lang":"eng"}],"language":[{"iso":"eng"}],"status":"public","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"}],"article_type":"original","citation":{"ieee":"A. Reversat et al., “Cellular locomotion using environmental topography,” Nature, vol. 582. Springer Nature, pp. 582–585, 2020.","short":"A. Reversat, F.R. Gärtner, J. Merrin, J.A. Stopp, S. Tasciyan, J.L. Aguilera Servin, I. de Vries, R. Hauschild, M. Hons, M. Piel, A. Callan-Jones, R. Voituriez, M.K. Sixt, Nature 582 (2020) 582–585.","apa":"Reversat, A., Gärtner, F. R., Merrin, J., Stopp, J. A., Tasciyan, S., Aguilera Servin, J. L., … Sixt, M. K. (2020). Cellular locomotion using environmental topography. Nature. Springer Nature. https://doi.org/10.1038/s41586-020-2283-z","ista":"Reversat A, Gärtner FR, Merrin J, Stopp JA, Tasciyan S, Aguilera Servin JL, de Vries I, Hauschild R, Hons M, Piel M, Callan-Jones A, Voituriez R, Sixt MK. 2020. Cellular locomotion using environmental topography. Nature. 582, 582–585.","mla":"Reversat, Anne, et al. “Cellular Locomotion Using Environmental Topography.” Nature, vol. 582, Springer Nature, 2020, pp. 582–585, doi:10.1038/s41586-020-2283-z.","chicago":"Reversat, Anne, Florian R Gärtner, Jack Merrin, Julian A Stopp, Saren Tasciyan, Juan L Aguilera Servin, Ingrid de Vries, et al. “Cellular Locomotion Using Environmental Topography.” Nature. Springer Nature, 2020. https://doi.org/10.1038/s41586-020-2283-z.","ama":"Reversat A, Gärtner FR, Merrin J, et al. Cellular locomotion using environmental topography. Nature. 2020;582:582–585. doi:10.1038/s41586-020-2283-z"},"type":"journal_article","author":[{"last_name":"Reversat","full_name":"Reversat, Anne","orcid":"0000-0003-0666-8928","id":"35B76592-F248-11E8-B48F-1D18A9856A87","first_name":"Anne"},{"last_name":"Gärtner","full_name":"Gärtner, Florian R","orcid":"0000-0001-6120-3723","id":"397A88EE-F248-11E8-B48F-1D18A9856A87","first_name":"Florian R"},{"first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack","last_name":"Merrin"},{"id":"489E3F00-F248-11E8-B48F-1D18A9856A87","first_name":"Julian A","full_name":"Stopp, Julian A","last_name":"Stopp"},{"first_name":"Saren","id":"4323B49C-F248-11E8-B48F-1D18A9856A87","full_name":"Tasciyan, Saren","orcid":"0000-0003-1671-393X","last_name":"Tasciyan"},{"id":"2A67C376-F248-11E8-B48F-1D18A9856A87","first_name":"Juan L","orcid":"0000-0002-2862-8372","full_name":"Aguilera Servin, Juan L","last_name":"Aguilera Servin"},{"full_name":"De Vries, Ingrid","last_name":"De Vries","first_name":"Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hauschild","orcid":"0000-0001-9843-3522","full_name":"Hauschild, Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"},{"last_name":"Hons","full_name":"Hons, Miroslav","orcid":"0000-0002-6625-3348","first_name":"Miroslav","id":"4167FE56-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Piel","full_name":"Piel, Matthieu","first_name":"Matthieu"},{"first_name":"Andrew","full_name":"Callan-Jones, Andrew","last_name":"Callan-Jones"},{"full_name":"Voituriez, Raphael","last_name":"Voituriez","first_name":"Raphael"},{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","last_name":"Sixt"}],"isi":1,"year":"2020","department":[{"_id":"NanoFab"},{"_id":"Bio"},{"_id":"MiSi"}],"publication_identifier":{"eissn":["14764687"],"issn":["00280836"]},"publisher":"Springer Nature","day":"25","doi":"10.1038/s41586-020-2283-z","oa_version":"None"},{"oa_version":"Published Version","doi":"10.7554/elife.55190","day":"06","publisher":"eLife Sciences Publications","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"issn":["2050-084X"]},"department":[{"_id":"CaHe"},{"_id":"Bio"}],"author":[{"last_name":"Schauer","orcid":"0000-0001-7659-9142","full_name":"Schauer, Alexandra","id":"30A536BA-F248-11E8-B48F-1D18A9856A87","first_name":"Alexandra"},{"first_name":"Diana C","id":"2E839F16-F248-11E8-B48F-1D18A9856A87","last_name":"Nunes Pinheiro","full_name":"Nunes Pinheiro, Diana C","orcid":"0000-0003-4333-7503"},{"last_name":"Hauschild","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"isi":1,"year":"2020","type":"journal_article","citation":{"chicago":"Schauer, Alexandra, Diana C Nunes Pinheiro, Robert Hauschild, and Carl-Philipp J Heisenberg. “Zebrafish Embryonic Explants Undergo Genetically Encoded Self-Assembly.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.55190.","ama":"Schauer A, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. Zebrafish embryonic explants undergo genetically encoded self-assembly. eLife. 2020;9. doi:10.7554/elife.55190","mla":"Schauer, Alexandra, et al. “Zebrafish Embryonic Explants Undergo Genetically Encoded Self-Assembly.” ELife, vol. 9, e55190, eLife Sciences Publications, 2020, doi:10.7554/elife.55190.","ista":"Schauer A, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. 2020. Zebrafish embryonic explants undergo genetically encoded self-assembly. eLife. 9, e55190.","short":"A. Schauer, D.C. Nunes Pinheiro, R. Hauschild, C.-P.J. Heisenberg, ELife 9 (2020).","apa":"Schauer, A., Nunes Pinheiro, D. C., Hauschild, R., & Heisenberg, C.-P. J. (2020). Zebrafish embryonic explants undergo genetically encoded self-assembly. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.55190","ieee":"A. Schauer, D. C. Nunes Pinheiro, R. Hauschild, and C.-P. J. Heisenberg, “Zebrafish embryonic explants undergo genetically encoded self-assembly,” eLife, vol. 9. eLife Sciences Publications, 2020."},"file":[{"date_created":"2020-05-25T15:15:43Z","creator":"dernst","file_id":"7890","file_name":"2020_eLife_Schauer.pdf","access_level":"open_access","relation":"main_file","checksum":"f6aad884cf706846ae9357fcd728f8b5","date_updated":"2020-07-14T12:48:04Z","content_type":"application/pdf","file_size":7744848}],"article_type":"original","ddc":["570"],"language":[{"iso":"eng"}],"pmid":1,"status":"public","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Embryonic stem cell cultures are thought to self-organize into embryoid bodies, able to undergo symmetry-breaking, germ layer specification and even morphogenesis. Yet, it is unclear how to reconcile this remarkable self-organization capacity with classical experiments demonstrating key roles for extrinsic biases by maternal factors and/or extraembryonic tissues in embryogenesis. Here, we show that zebrafish embryonic tissue explants, prepared prior to germ layer induction and lacking extraembryonic tissues, can specify all germ layers and form a seemingly complete mesendoderm anlage. Importantly, explant organization requires polarized inheritance of maternal factors from dorsal-marginal regions of the blastoderm. Moreover, induction of endoderm and head-mesoderm, which require peak Nodal-signaling levels, is highly variable in explants, reminiscent of embryos with reduced Nodal signals from the extraembryonic tissues. Together, these data suggest that zebrafish explants do not undergo bona fide self-organization, but rather display features of genetically encoded self-assembly, where intrinsic genetic programs control the emergence of order."}],"publication_status":"published","quality_controlled":"1","file_date_updated":"2020-07-14T12:48:04Z","publication":"eLife","date_created":"2020-05-25T15:01:40Z","external_id":{"isi":["000531544400001"],"pmid":["32250246"]},"_id":"7888","project":[{"name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573","call_identifier":"H2020"},{"grant_number":"25239","_id":"26B1E39C-B435-11E9-9278-68D0E5697425","name":"Mesendoderm specification in zebrafish: The role of extraembryonic tissues"},{"name":"Coordination of mesendoderm cell fate specification and internalization during zebrafish gastrulation","grant_number":"ALTF 850-2017","_id":"26520D1E-B435-11E9-9278-68D0E5697425"},{"grant_number":"LT000429","_id":"266BC5CE-B435-11E9-9278-68D0E5697425","name":"Coordination of mesendoderm fate specification and internalization during zebrafish gastrulation"}],"month":"04","title":"Zebrafish embryonic explants undergo genetically encoded self-assembly","date_updated":"2023-08-21T06:25:49Z","ec_funded":1,"date_published":"2020-04-06T00:00:00Z","article_processing_charge":"No","scopus_import":"1","volume":9,"related_material":{"record":[{"id":"12891","status":"public","relation":"dissertation_contains"}]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"intvolume":" 9","article_number":"e55190"},{"date_updated":"2023-09-05T15:30:34Z","title":"Plants with genetically encoded autoluminescence","month":"04","article_processing_charge":"No","date_published":"2020-04-27T00:00:00Z","ec_funded":1,"publication":"Nature Biotechnology","file_date_updated":"2021-03-02T23:30:03Z","page":"944-946","_id":"7889","project":[{"name":"Characterizing the fitness landscape on population and global scales","grant_number":"771209","_id":"26580278-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"external_id":{"pmid":["32341562"],"isi":["000529298800003"]},"date_created":"2020-05-25T15:02:00Z","related_material":{"link":[{"url":"https://doi.org/10.1038/s41587-020-0578-0","relation":"erratum"}]},"volume":38,"oa":1,"intvolume":" 38","acknowledgement":"This study was designed, performed and funded by Planta LLC. We thank K. Wood for assisting in manuscript development. Planta acknowledges support from the Skolkovo Innovation Centre. We thank D. Bolotin and the Milaboratory (milaboratory.com) for access to computing and storage infrastructure. We thank S. Shakhov for providing\r\nphotography equipment. The Synthetic Biology Group is funded by the MRC London Institute of Medical Sciences (UKRI MC-A658-5QEA0, K.S.S.). K.S.S. is supported by an Imperial College Research Fellowship. Experiments were partially carried out using equipment provided by the Institute of Bioorganic Chemistry of the Russian Academy\r\nof Sciences Сore Facility (CKP IBCH; supported by the Russian Ministry of Education and Science Grant RFMEFI62117X0018). The F.A.K. lab is supported by ERC grant agreement 771209—CharFL. This project received funding from the European Union’s Horizon 2020 Research and Innovation Programme under Marie Skłodowska-Curie\r\nGrant Agreement 665385. K.S.S. acknowledges support by President’s Grant 075-15-2019-411. Design and assembly of some of the plasmids was supported by Russian Science Foundation grant 19-74-10102. Imaging experiments were partially supported by Russian Science Foundation grant 17-14-01169p. LC-MS/MS analyses of extracts were\r\nsupported by Russian Science Foundation grant 16-14-00052p. Design and assembly of plasmids was partially supported by grant 075-15-2019-1789 from the Ministry of Science and Higher Education of the Russian Federation allocated to the Center for Precision Genome Editing and Genetic Technologies for Biomedicine. The authors\r\nwould like to acknowledge the work of Genomics Core Facility of the Skolkovo Institute of Science and Technology, which performed the sequencing and bioinformatic analysis.","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","department":[{"_id":"FyKo"}],"publication_identifier":{"eissn":["1546-1696"],"issn":["1087-0156"]},"year":"2020","isi":1,"author":[{"full_name":"Mitiouchkina, Tatiana","last_name":"Mitiouchkina","first_name":"Tatiana"},{"first_name":"Alexander S.","last_name":"Mishin","full_name":"Mishin, Alexander S."},{"last_name":"Gonzalez Somermeyer","orcid":"0000-0001-9139-5383","full_name":"Gonzalez Somermeyer, Louisa","id":"4720D23C-F248-11E8-B48F-1D18A9856A87","first_name":"Louisa"},{"full_name":"Markina, Nadezhda M.","last_name":"Markina","first_name":"Nadezhda M."},{"full_name":"Chepurnyh, Tatiana V.","last_name":"Chepurnyh","first_name":"Tatiana V."},{"last_name":"Guglya","full_name":"Guglya, Elena B.","first_name":"Elena B."},{"full_name":"Karataeva, Tatiana A.","last_name":"Karataeva","first_name":"Tatiana A."},{"last_name":"Palkina","full_name":"Palkina, Kseniia A.","first_name":"Kseniia A."},{"first_name":"Ekaterina S.","full_name":"Shakhova, Ekaterina S.","last_name":"Shakhova"},{"first_name":"Liliia I.","last_name":"Fakhranurova","full_name":"Fakhranurova, Liliia I."},{"full_name":"Chekova, Sofia V.","last_name":"Chekova","first_name":"Sofia V."},{"first_name":"Aleksandra S.","last_name":"Tsarkova","full_name":"Tsarkova, Aleksandra S."},{"full_name":"Golubev, Yaroslav V.","last_name":"Golubev","first_name":"Yaroslav V."},{"full_name":"Negrebetsky, Vadim V.","last_name":"Negrebetsky","first_name":"Vadim V."},{"first_name":"Sergey A.","last_name":"Dolgushin","full_name":"Dolgushin, Sergey A."},{"first_name":"Pavel V.","last_name":"Shalaev","full_name":"Shalaev, Pavel V."},{"first_name":"Dmitry","full_name":"Shlykov, Dmitry","last_name":"Shlykov"},{"first_name":"Olesya A.","last_name":"Melnik","full_name":"Melnik, Olesya A."},{"full_name":"Shipunova, Victoria O.","last_name":"Shipunova","first_name":"Victoria O."},{"first_name":"Sergey M.","full_name":"Deyev, Sergey M.","last_name":"Deyev"},{"full_name":"Bubyrev, Andrey I.","last_name":"Bubyrev","first_name":"Andrey I."},{"last_name":"Pushin","full_name":"Pushin, Alexander S.","first_name":"Alexander S."},{"first_name":"Vladimir V.","last_name":"Choob","full_name":"Choob, Vladimir V."},{"full_name":"Dolgov, Sergey V.","last_name":"Dolgov","first_name":"Sergey V."},{"first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694","full_name":"Kondrashov, Fyodor","last_name":"Kondrashov"},{"first_name":"Ilia V.","last_name":"Yampolsky","full_name":"Yampolsky, Ilia V."},{"full_name":"Sarkisyan, Karen S.","last_name":"Sarkisyan","first_name":"Karen S."}],"doi":"10.1038/s41587-020-0500-9","oa_version":"Submitted Version","publisher":"Springer Nature","day":"27","publication_status":"published","abstract":[{"text":"Autoluminescent plants engineered to express a bacterial bioluminescence gene cluster in plastids have not been widely adopted because of low light output. We engineered tobacco plants with a fungal bioluminescence system that converts caffeic acid (present in all plants) into luciferin and report self-sustained luminescence that is visible to the naked eye. Our findings could underpin development of a suite of imaging tools for plants.","lang":"eng"}],"status":"public","pmid":1,"has_accepted_license":"1","language":[{"iso":"eng"}],"quality_controlled":"1","file":[{"embargo":"2021-03-01","creator":"dernst","date_created":"2020-08-28T08:57:07Z","file_id":"8316","access_level":"open_access","file_name":"2020_NatureBiotech_Mitiouchkina.pdf","file_size":1180086,"content_type":"application/pdf","date_updated":"2021-03-02T23:30:03Z","checksum":"1b30467500ec6277229a875b06e196d0","relation":"main_file"}],"type":"journal_article","citation":{"ista":"Mitiouchkina T, Mishin AS, Gonzalez Somermeyer L, Markina NM, Chepurnyh TV, Guglya EB, Karataeva TA, Palkina KA, Shakhova ES, Fakhranurova LI, Chekova SV, Tsarkova AS, Golubev YV, Negrebetsky VV, Dolgushin SA, Shalaev PV, Shlykov D, Melnik OA, Shipunova VO, Deyev SM, Bubyrev AI, Pushin AS, Choob VV, Dolgov SV, Kondrashov F, Yampolsky IV, Sarkisyan KS. 2020. Plants with genetically encoded autoluminescence. Nature Biotechnology. 38, 944–946.","mla":"Mitiouchkina, Tatiana, et al. “Plants with Genetically Encoded Autoluminescence.” Nature Biotechnology, vol. 38, Springer Nature, 2020, pp. 944–46, doi:10.1038/s41587-020-0500-9.","ama":"Mitiouchkina T, Mishin AS, Gonzalez Somermeyer L, et al. Plants with genetically encoded autoluminescence. Nature Biotechnology. 2020;38:944-946. doi:10.1038/s41587-020-0500-9","chicago":"Mitiouchkina, Tatiana, Alexander S. Mishin, Louisa Gonzalez Somermeyer, Nadezhda M. Markina, Tatiana V. Chepurnyh, Elena B. Guglya, Tatiana A. Karataeva, et al. “Plants with Genetically Encoded Autoluminescence.” Nature Biotechnology. Springer Nature, 2020. https://doi.org/10.1038/s41587-020-0500-9.","ieee":"T. Mitiouchkina et al., “Plants with genetically encoded autoluminescence,” Nature Biotechnology, vol. 38. Springer Nature, pp. 944–946, 2020.","apa":"Mitiouchkina, T., Mishin, A. S., Gonzalez Somermeyer, L., Markina, N. M., Chepurnyh, T. V., Guglya, E. B., … Sarkisyan, K. S. (2020). Plants with genetically encoded autoluminescence. Nature Biotechnology. Springer Nature. https://doi.org/10.1038/s41587-020-0500-9","short":"T. Mitiouchkina, A.S. Mishin, L. Gonzalez Somermeyer, N.M. Markina, T.V. Chepurnyh, E.B. Guglya, T.A. Karataeva, K.A. Palkina, E.S. Shakhova, L.I. Fakhranurova, S.V. Chekova, A.S. Tsarkova, Y.V. Golubev, V.V. Negrebetsky, S.A. Dolgushin, P.V. Shalaev, D. Shlykov, O.A. Melnik, V.O. Shipunova, S.M. Deyev, A.I. Bubyrev, A.S. Pushin, V.V. Choob, S.V. Dolgov, F. Kondrashov, I.V. Yampolsky, K.S. Sarkisyan, Nature Biotechnology 38 (2020) 944–946."},"ddc":["570"],"article_type":"original"},{"oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","related_material":{"record":[{"id":"6677","status":"public","relation":"part_of_dissertation"}]},"alternative_title":["ISTA Thesis"],"ec_funded":1,"article_processing_charge":"No","date_published":"2020-05-25T00:00:00Z","month":"05","title":"On the average-case hardness of total search problems","date_updated":"2023-09-07T13:15:55Z","date_created":"2020-05-26T14:08:55Z","project":[{"_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","call_identifier":"FP7","name":"Provable Security for Physical Cryptography"},{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","grant_number":"682815"}],"_id":"7896","page":"126","supervisor":[{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z","full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","last_name":"Pietrzak"}],"file_date_updated":"2020-07-14T12:48:04Z","has_accepted_license":"1","status":"public","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"A search problem lies in the complexity class FNP if a solution to the given instance of the problem can be verified efficiently. The complexity class TFNP consists of all search problems in FNP that are total in the sense that a solution is guaranteed to exist. TFNP contains a host of interesting problems from fields such as algorithmic game theory, computational topology, number theory and combinatorics. Since TFNP is a semantic class, it is unlikely to have a complete problem. Instead, one studies its syntactic subclasses which are defined based on the combinatorial principle used to argue totality. Of particular interest is the subclass PPAD, which contains important problems\r\nlike computing Nash equilibrium for bimatrix games and computational counterparts of several fixed-point theorems as complete. In the thesis, we undertake the study of averagecase hardness of TFNP, and in particular its subclass PPAD.\r\nAlmost nothing was known about average-case hardness of PPAD before a series of recent results showed how to achieve it using a cryptographic primitive called program obfuscation.\r\nHowever, it is currently not known how to construct program obfuscation from standard cryptographic assumptions. Therefore, it is desirable to relax the assumption under which average-case hardness of PPAD can be shown. In the thesis we take a step in this direction. First, we show that assuming the (average-case) hardness of a numbertheoretic\r\nproblem related to factoring of integers, which we call Iterated-Squaring, PPAD is hard-on-average in the random-oracle model. Then we strengthen this result to show that the average-case hardness of PPAD reduces to the (adaptive) soundness of the Fiat-Shamir Transform, a well-known technique used to compile a public-coin interactive protocol into a non-interactive one. As a corollary, we obtain average-case hardness for PPAD in the random-oracle model assuming the worst-case hardness of #SAT. Moreover, the above results can all be strengthened to obtain average-case hardness for the class CLS ⊆ PPAD.\r\nOur main technical contribution is constructing incrementally-verifiable procedures for computing Iterated-Squaring and #SAT. By incrementally-verifiable, we mean that every intermediate state of the computation includes a proof of its correctness, and the proof can be updated and verified in polynomial time. Previous constructions of such procedures relied on strong, non-standard assumptions. Instead, we introduce a technique called recursive proof-merging to obtain the same from weaker assumptions. "}],"publication_status":"published","ddc":["000"],"citation":{"ieee":"C. Kamath Hosdurg, “On the average-case hardness of total search problems,” Institute of Science and Technology Austria, 2020.","short":"C. Kamath Hosdurg, On the Average-Case Hardness of Total Search Problems, Institute of Science and Technology Austria, 2020.","apa":"Kamath Hosdurg, C. (2020). On the average-case hardness of total search problems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7896","ista":"Kamath Hosdurg C. 2020. On the average-case hardness of total search problems. Institute of Science and Technology Austria.","mla":"Kamath Hosdurg, Chethan. On the Average-Case Hardness of Total Search Problems. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7896.","chicago":"Kamath Hosdurg, Chethan. “On the Average-Case Hardness of Total Search Problems.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7896.","ama":"Kamath Hosdurg C. On the average-case hardness of total search problems. 2020. doi:10.15479/AT:ISTA:7896"},"type":"dissertation","file":[{"access_level":"open_access","file_name":"2020_Thesis_Kamath.pdf","date_updated":"2020-07-14T12:48:04Z","content_type":"application/pdf","file_size":1622742,"relation":"main_file","checksum":"b39e2e1c376f5819b823fb7077491c64","date_created":"2020-05-26T14:08:13Z","creator":"dernst","file_id":"7897"},{"creator":"dernst","date_created":"2020-05-26T14:08:23Z","file_id":"7898","file_name":"Thesis_Kamath.zip","access_level":"closed","relation":"source_file","checksum":"8b26ba729c1a85ac6bea775f5d73cdc7","file_size":15301529,"date_updated":"2020-07-14T12:48:04Z","content_type":"application/x-zip-compressed"}],"year":"2020","author":[{"id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87","first_name":"Chethan","last_name":"Kamath Hosdurg","full_name":"Kamath Hosdurg, Chethan"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"issn":["2663-337X"]},"department":[{"_id":"KrPi"}],"degree_awarded":"PhD","day":"25","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","doi":"10.15479/AT:ISTA:7896"},{"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"6830","status":"public","relation":"dissertation_contains"},{"id":"28","status":"public","relation":"dissertation_contains"},{"status":"public","relation":"dissertation_contains","id":"7815"}]},"alternative_title":["ISTA Thesis"],"ec_funded":1,"article_processing_charge":"No","date_published":"2020-06-05T00:00:00Z","month":"06","title":"Genetic dissection of neural development in health and disease at single cell resolution","date_updated":"2023-10-18T08:45:16Z","date_created":"2020-05-29T08:27:32Z","project":[{"call_identifier":"H2020","_id":"260018B0-B435-11E9-9278-68D0E5697425","grant_number":"725780","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development"}],"_id":"7902","page":"214","supervisor":[{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon"}],"file_date_updated":"2021-06-07T22:30:03Z","has_accepted_license":"1","status":"public","language":[{"iso":"eng"}],"publication_status":"published","abstract":[{"text":"Mosaic genetic analysis has been widely used in different model organisms such as the fruit fly to study gene-function in a cell-autonomous or tissue-specific fashion. More recently, and less easily conducted, mosaic genetic analysis in mice has also been enabled with the ambition to shed light on human gene function and disease. These genetic tools are of particular interest, but not restricted to, the study of the brain. Notably, the MADM technology offers a genetic approach in mice to visualize and concomitantly manipulate small subsets of genetically defined cells at a clonal level and single cell resolution. MADM-based analysis has already advanced the study of genetic mechanisms regulating brain development and is expected that further MADM-based analysis of genetic alterations will continue to reveal important insights on the fundamental principles of development and disease to potentially assist in the development of new therapies or treatments.\r\nIn summary, this work completed and characterized the necessary genome-wide genetic tools to perform MADM-based analysis at single cell level of the vast majority of mouse genes in virtually any cell type and provided a protocol to perform lineage tracing using the novel MADM resource. Importantly, this work also explored and revealed novel aspects of biologically relevant events in an in vivo context, such as the chromosome-specific bias of chromatid sister segregation pattern, the generation of cell-type diversity in the cerebral cortex and in the cerebellum and finally, the relevance of the interplay between the cell-autonomous gene function and cell-non-autonomous (community) effects in radial glial progenitor lineage progression.\r\nThis work provides a foundation and opens the door to further elucidating the molecular mechanisms underlying neuronal diversity and astrocyte generation.","lang":"eng"}],"ddc":["570"],"acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"}],"citation":{"mla":"Contreras, Ximena. Genetic Dissection of Neural Development in Health and Disease at Single Cell Resolution. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7902.","ista":"Contreras X. 2020. Genetic dissection of neural development in health and disease at single cell resolution. Institute of Science and Technology Austria.","chicago":"Contreras, Ximena. “Genetic Dissection of Neural Development in Health and Disease at Single Cell Resolution.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7902.","ama":"Contreras X. Genetic dissection of neural development in health and disease at single cell resolution. 2020. doi:10.15479/AT:ISTA:7902","ieee":"X. Contreras, “Genetic dissection of neural development in health and disease at single cell resolution,” Institute of Science and Technology Austria, 2020.","apa":"Contreras, X. (2020). Genetic dissection of neural development in health and disease at single cell resolution. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7902","short":"X. Contreras, Genetic Dissection of Neural Development in Health and Disease at Single Cell Resolution, Institute of Science and Technology Austria, 2020."},"type":"dissertation","file":[{"date_updated":"2021-06-07T22:30:03Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":53134142,"relation":"source_file","checksum":"43c172bf006c95b65992d473c7240d13","access_level":"closed","file_name":"PhDThesis_Contreras.docx","embargo_to":"open_access","file_id":"7927","date_created":"2020-06-05T08:18:08Z","creator":"xcontreras"},{"embargo":"2021-06-06","date_created":"2020-06-05T08:18:07Z","creator":"xcontreras","file_id":"7928","access_level":"open_access","file_name":"PhDThesis_Contreras.pdf","date_updated":"2021-06-07T22:30:03Z","content_type":"application/pdf","file_size":35117191,"checksum":"addfed9128271be05cae3608e03a6ec0","relation":"main_file"}],"year":"2020","author":[{"last_name":"Contreras","full_name":"Contreras, Ximena","first_name":"Ximena","id":"475990FE-F248-11E8-B48F-1D18A9856A87"}],"publication_identifier":{"issn":["2663-337X"]},"department":[{"_id":"SiHi"}],"degree_awarded":"PhD","day":"05","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","doi":"10.15479/AT:ISTA:7902"},{"file":[{"file_name":"2020_JourNeuroscience_Wang.pdf","access_level":"open_access","relation":"main_file","checksum":"6571607ea9036154b67cc78e848a7f7d","date_updated":"2020-07-14T12:48:05Z","content_type":"application/pdf","file_size":3817360,"creator":"dernst","date_created":"2020-06-02T09:12:16Z","file_id":"7912"}],"citation":{"mla":"Wang, Han Ying, et al. “Frequency-Dependent Block of Excitatory Neurotransmission by Isoflurane via Dual Presynaptic Mechanisms.” Journal of Neuroscience, vol. 40, no. 21, Society for Neuroscience, 2020, pp. 4103–15, doi:10.1523/JNEUROSCI.2946-19.2020.","ista":"Wang HY, Eguchi K, Yamashita T, Takahashi T. 2020. Frequency-dependent block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms. Journal of Neuroscience. 40(21), 4103–4115.","chicago":"Wang, Han Ying, Kohgaku Eguchi, Takayuki Yamashita, and Tomoyuki Takahashi. “Frequency-Dependent Block of Excitatory Neurotransmission by Isoflurane via Dual Presynaptic Mechanisms.” Journal of Neuroscience. Society for Neuroscience, 2020. https://doi.org/10.1523/JNEUROSCI.2946-19.2020.","ama":"Wang HY, Eguchi K, Yamashita T, Takahashi T. Frequency-dependent block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms. Journal of Neuroscience. 2020;40(21):4103-4115. doi:10.1523/JNEUROSCI.2946-19.2020","ieee":"H. Y. Wang, K. Eguchi, T. Yamashita, and T. Takahashi, “Frequency-dependent block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms,” Journal of Neuroscience, vol. 40, no. 21. Society for Neuroscience, pp. 4103–4115, 2020.","short":"H.Y. Wang, K. Eguchi, T. Yamashita, T. Takahashi, Journal of Neuroscience 40 (2020) 4103–4115.","apa":"Wang, H. Y., Eguchi, K., Yamashita, T., & Takahashi, T. (2020). Frequency-dependent block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.2946-19.2020"},"type":"journal_article","ddc":["570"],"article_type":"original","publication_status":"published","abstract":[{"text":"Volatile anesthetics are widely used for surgery, but neuronal mechanisms of anesthesia remain unidentified. At the calyx of Held in brainstem slices from rats of either sex, isoflurane at clinical doses attenuated EPSCs by decreasing the release probability and the number of readily releasable vesicles. In presynaptic recordings of Ca2+ currents and exocytic capacitance changes, isoflurane attenuated exocytosis by inhibiting Ca2+ currents evoked by a short presynaptic depolarization, whereas it inhibited exocytosis evoked by a prolonged depolarization via directly blocking exocytic machinery downstream of Ca2+ influx. Since the length of presynaptic depolarization can simulate the frequency of synaptic inputs, isoflurane anesthesia is likely mediated by distinct dual mechanisms, depending on input frequencies. In simultaneous presynaptic and postsynaptic action potential recordings, isoflurane impaired the fidelity of repetitive spike transmission, more strongly at higher frequencies. Furthermore, in the cerebrum of adult mice, isoflurane inhibited monosynaptic corticocortical spike transmission, preferentially at a higher frequency. We conclude that dual presynaptic mechanisms operate for the anesthetic action of isoflurane, of which direct inhibition of exocytic machinery plays a low-pass filtering role in spike transmission at central excitatory synapses.","lang":"eng"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","quality_controlled":"1","doi":"10.1523/JNEUROSCI.2946-19.2020","oa_version":"Published Version","publisher":"Society for Neuroscience","day":"20","publication_identifier":{"eissn":["15292401"]},"department":[{"_id":"RySh"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"author":[{"first_name":"Han Ying","full_name":"Wang, Han Ying","last_name":"Wang"},{"last_name":"Eguchi","orcid":"0000-0002-6170-2546","full_name":"Eguchi, Kohgaku","first_name":"Kohgaku","id":"2B7846DC-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Yamashita, Takayuki","last_name":"Yamashita","first_name":"Takayuki"},{"first_name":"Tomoyuki","full_name":"Takahashi, Tomoyuki","last_name":"Takahashi"}],"year":"2020","scopus_import":"1","volume":40,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"21","intvolume":" 40","oa":1,"file_date_updated":"2020-07-14T12:48:05Z","publication":"Journal of Neuroscience","page":"4103-4115","_id":"7908","date_created":"2020-05-31T22:00:48Z","external_id":{"isi":["000535694700004"]},"date_updated":"2023-08-21T06:31:25Z","title":"Frequency-dependent block of excitatory neurotransmission by isoflurane via dual presynaptic mechanisms","month":"05","date_published":"2020-05-20T00:00:00Z","article_processing_charge":"No"},{"quality_controlled":"1","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","publication_status":"published","abstract":[{"text":"Cell migration entails networks and bundles of actin filaments termed lamellipodia and microspikes or filopodia, respectively, as well as focal adhesions, all of which recruit Ena/VASP family members hitherto thought to antagonize efficient cell motility. However, we find these proteins to act as positive regulators of migration in different murine cell lines. CRISPR/Cas9-mediated loss of Ena/VASP proteins reduced lamellipodial actin assembly and perturbed lamellipodial architecture, as evidenced by changed network geometry as well as reduction of filament length and number that was accompanied by abnormal Arp2/3 complex and heterodimeric capping protein accumulation. Loss of Ena/VASP function also abolished the formation of microspikes normally embedded in lamellipodia, but not of filopodia capable of emanating without lamellipodia. Ena/VASP-deficiency also impaired integrin-mediated adhesion accompanied by reduced traction forces exerted through these structures. Our data thus uncover novel Ena/VASP functions of these actin polymerases that are fully consistent with their promotion of cell migration.","lang":"eng"}],"article_type":"original","ddc":["570"],"type":"journal_article","citation":{"ama":"Damiano-Guercio J, Kurzawa L, Müller J, et al. Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. eLife. 2020;9. doi:10.7554/eLife.55351","chicago":"Damiano-Guercio, Julia, Laëtitia Kurzawa, Jan Müller, Georgi A Dimchev, Matthias Schaks, Maria Nemethova, Thomas Pokrant, et al. “Loss of Ena/VASP Interferes with Lamellipodium Architecture, Motility and Integrin-Dependent Adhesion.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/eLife.55351.","ista":"Damiano-Guercio J, Kurzawa L, Müller J, Dimchev GA, Schaks M, Nemethova M, Pokrant T, Brühmann S, Linkner J, Blanchoin L, Sixt MK, Rottner K, Faix J. 2020. Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. eLife. 9, e55351.","mla":"Damiano-Guercio, Julia, et al. “Loss of Ena/VASP Interferes with Lamellipodium Architecture, Motility and Integrin-Dependent Adhesion.” ELife, vol. 9, e55351, eLife Sciences Publications, 2020, doi:10.7554/eLife.55351.","short":"J. Damiano-Guercio, L. Kurzawa, J. Müller, G.A. Dimchev, M. Schaks, M. Nemethova, T. Pokrant, S. Brühmann, J. Linkner, L. Blanchoin, M.K. Sixt, K. Rottner, J. Faix, ELife 9 (2020).","apa":"Damiano-Guercio, J., Kurzawa, L., Müller, J., Dimchev, G. A., Schaks, M., Nemethova, M., … Faix, J. (2020). Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.55351","ieee":"J. Damiano-Guercio et al., “Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion,” eLife, vol. 9. eLife Sciences Publications, 2020."},"file":[{"file_id":"7914","date_created":"2020-06-02T10:35:37Z","creator":"dernst","content_type":"application/pdf","date_updated":"2020-07-14T12:48:05Z","file_size":10535713,"relation":"main_file","checksum":"d33bd4441b9a0195718ce1ba5d2c48a6","access_level":"open_access","file_name":"2020_eLife_Damiano_Guercio.pdf"}],"isi":1,"author":[{"first_name":"Julia","last_name":"Damiano-Guercio","full_name":"Damiano-Guercio, Julia"},{"full_name":"Kurzawa, Laëtitia","last_name":"Kurzawa","first_name":"Laëtitia"},{"last_name":"Müller","full_name":"Müller, Jan","first_name":"Jan","id":"AD07FDB4-0F61-11EA-8158-C4CC64CEAA8D"},{"first_name":"Georgi A","id":"38C393BE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8370-6161","full_name":"Dimchev, Georgi A","last_name":"Dimchev"},{"first_name":"Matthias","last_name":"Schaks","full_name":"Schaks, Matthias"},{"last_name":"Nemethova","full_name":"Nemethova, Maria","id":"34E27F1C-F248-11E8-B48F-1D18A9856A87","first_name":"Maria"},{"last_name":"Pokrant","full_name":"Pokrant, Thomas","first_name":"Thomas"},{"first_name":"Stefan","full_name":"Brühmann, Stefan","last_name":"Brühmann"},{"first_name":"Joern","last_name":"Linkner","full_name":"Linkner, Joern"},{"first_name":"Laurent","last_name":"Blanchoin","full_name":"Blanchoin, Laurent"},{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K"},{"full_name":"Rottner, Klemens","last_name":"Rottner","first_name":"Klemens"},{"last_name":"Faix","full_name":"Faix, Jan","first_name":"Jan"}],"year":"2020","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"MiSi"}],"publication_identifier":{"eissn":["2050084X"]},"day":"11","publisher":"eLife Sciences Publications","oa_version":"Published Version","doi":"10.7554/eLife.55351","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 9","oa":1,"article_number":"e55351","volume":9,"scopus_import":"1","ec_funded":1,"date_published":"2020-05-11T00:00:00Z","article_processing_charge":"No","month":"05","date_updated":"2023-08-21T06:32:25Z","title":"Loss of Ena/VASP interferes with lamellipodium architecture, motility and integrin-dependent adhesion","date_created":"2020-05-31T22:00:49Z","external_id":{"isi":["000537208000001"]},"_id":"7909","project":[{"call_identifier":"H2020","grant_number":"724373","_id":"25FE9508-B435-11E9-9278-68D0E5697425","name":"Cellular navigation along spatial gradients"}],"file_date_updated":"2020-07-14T12:48:05Z","publication":"eLife"},{"scopus_import":"1","related_material":{"link":[{"url":"https://ist.ac.at/en/news/scientists-demonstrate-quantum-radar-prototype/","description":"News on IST Homepage","relation":"press_release"}],"record":[{"status":"public","relation":"later_version","id":"9001"}]},"volume":6,"article_number":"eabb0451","oa":1,"intvolume":" 6","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"19","publication":"Science Advances","file_date_updated":"2020-07-14T12:48:05Z","_id":"7910","project":[{"call_identifier":"H2020","_id":"26336814-B435-11E9-9278-68D0E5697425","grant_number":"758053","name":"A Fiber Optic Transceiver for Superconducting Qubits"},{"call_identifier":"H2020","_id":"237CBA6C-32DE-11EA-91FC-C7463DDC885E","grant_number":"862644","name":"Quantum readout techniques and technologies"},{"_id":"258047B6-B435-11E9-9278-68D0E5697425","grant_number":"707438","call_identifier":"H2020","name":"Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination with cavity Optomechanics SUPEREOM"},{"name":"Hybrid Optomechanical Technologies","call_identifier":"H2020","grant_number":"732894","_id":"257EB838-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"26927A52-B435-11E9-9278-68D0E5697425","grant_number":"F07105","name":"Integrating superconducting quantum circuits"}],"external_id":{"isi":["000531171100045"],"arxiv":["1908.03058"]},"date_created":"2020-05-31T22:00:49Z","date_updated":"2024-09-10T12:23:52Z","title":"Microwave quantum illumination using a digital receiver","month":"05","article_processing_charge":"No","date_published":"2020-05-06T00:00:00Z","ec_funded":1,"file":[{"checksum":"16fa61cc1951b444ee74c07188cda9da","relation":"main_file","file_size":795822,"content_type":"application/pdf","date_updated":"2020-07-14T12:48:05Z","file_name":"2020_ScienceAdvances_Barzanjeh.pdf","access_level":"open_access","file_id":"7913","creator":"dernst","date_created":"2020-06-02T09:18:36Z"}],"type":"journal_article","citation":{"ieee":"S. Barzanjeh, S. Pirandola, D. Vitali, and J. M. Fink, “Microwave quantum illumination using a digital receiver,” Science Advances, vol. 6, no. 19. AAAS, 2020.","short":"S. Barzanjeh, S. Pirandola, D. Vitali, J.M. Fink, Science Advances 6 (2020).","apa":"Barzanjeh, S., Pirandola, S., Vitali, D., & Fink, J. M. (2020). Microwave quantum illumination using a digital receiver. Science Advances. AAAS. https://doi.org/10.1126/sciadv.abb0451","ista":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. 2020. Microwave quantum illumination using a digital receiver. Science Advances. 6(19), eabb0451.","mla":"Barzanjeh, Shabir, et al. “Microwave Quantum Illumination Using a Digital Receiver.” Science Advances, vol. 6, no. 19, eabb0451, AAAS, 2020, doi:10.1126/sciadv.abb0451.","chicago":"Barzanjeh, Shabir, S. Pirandola, D Vitali, and Johannes M Fink. “Microwave Quantum Illumination Using a Digital Receiver.” Science Advances. AAAS, 2020. https://doi.org/10.1126/sciadv.abb0451.","ama":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. Microwave quantum illumination using a digital receiver. Science Advances. 2020;6(19). doi:10.1126/sciadv.abb0451"},"ddc":["530"],"article_type":"original","publication_status":"published","abstract":[{"text":"Quantum illumination uses entangled signal-idler photon pairs to boost the detection efficiency of low-reflectivity objects in environments with bright thermal noise. Its advantage is particularly evident at low signal powers, a promising feature for applications such as noninvasive biomedical scanning or low-power short-range radar. Here, we experimentally investigate the concept of quantum illumination at microwave frequencies. We generate entangled fields to illuminate a room-temperature object at a distance of 1 m in a free-space detection setup. We implement a digital phase-conjugate receiver based on linear quadrature measurements that outperforms a symmetric classical noise radar in the same conditions, despite the entanglement-breaking signal path. Starting from experimental data, we also simulate the case of perfect idler photon number detection, which results in a quantum advantage compared with the relative classical benchmark. Our results highlight the opportunities and challenges in the way toward a first room-temperature application of microwave quantum circuits.","lang":"eng"}],"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"quality_controlled":"1","doi":"10.1126/sciadv.abb0451","arxiv":1,"oa_version":"Published Version","publisher":"AAAS","day":"06","publication_identifier":{"eissn":["23752548"]},"department":[{"_id":"JoFi"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"year":"2020","author":[{"id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","first_name":"Shabir","last_name":"Barzanjeh","orcid":"0000-0003-0415-1423","full_name":"Barzanjeh, Shabir"},{"first_name":"S.","last_name":"Pirandola","full_name":"Pirandola, S."},{"full_name":"Vitali, D","last_name":"Vitali","first_name":"D"},{"last_name":"Fink","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"}],"isi":1},{"author":[{"last_name":"Mistakidis","full_name":"Mistakidis, S. I.","first_name":"S. I."},{"id":"37D278BC-F248-11E8-B48F-1D18A9856A87","first_name":"Artem","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem","last_name":"Volosniev"},{"last_name":"Schmelcher","full_name":"Schmelcher, P.","first_name":"P."}],"year":"2020","publication_identifier":{"issn":["2643-1564"]},"department":[{"_id":"MiLe"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"American Physical Society","day":"11","doi":"10.1103/physrevresearch.2.023154","oa_version":"Published Version","quality_controlled":"1","abstract":[{"lang":"eng","text":"We explore the time evolution of two impurities in a trapped one-dimensional Bose gas that follows a change of the boson-impurity interaction. We study the induced impurity-impurity interactions and their effect on the quench dynamics. In particular, we report on the size of the impurity cloud, the impurity-impurity entanglement, and the impurity-impurity correlation function. The presented numerical simulations are based upon the variational multilayer multiconfiguration time-dependent Hartree method for bosons. To analyze and quantify induced impurity-impurity correlations, we employ an effective two-body Hamiltonian with a contact interaction. We show that the effective model consistent with the mean-field attraction of two heavy impurities explains qualitatively our results for weak interactions. Our findings suggest that the quench dynamics in cold-atom systems can be a tool for studying impurity-impurity correlations."}],"publication_status":"published","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","ddc":["530"],"article_type":"original","file":[{"creator":"dernst","date_created":"2020-06-04T13:51:59Z","file_id":"7926","file_name":"2020_PhysRevResearch_Mistakidis.pdf","access_level":"open_access","relation":"main_file","checksum":"e1c362fe094d6b246b3cd4a49722e78b","date_updated":"2020-07-14T12:48:05Z","content_type":"application/pdf","file_size":1741098}],"citation":{"ieee":"S. I. Mistakidis, A. Volosniev, and P. Schmelcher, “Induced correlations between impurities in a one-dimensional quenched Bose gas,” Physical Review Research, vol. 2. American Physical Society, 2020.","apa":"Mistakidis, S. I., Volosniev, A., & Schmelcher, P. (2020). Induced correlations between impurities in a one-dimensional quenched Bose gas. Physical Review Research. American Physical Society. https://doi.org/10.1103/physrevresearch.2.023154","short":"S.I. Mistakidis, A. Volosniev, P. Schmelcher, Physical Review Research 2 (2020).","mla":"Mistakidis, S. I., et al. “Induced Correlations between Impurities in a One-Dimensional Quenched Bose Gas.” Physical Review Research, vol. 2, 023154, American Physical Society, 2020, doi:10.1103/physrevresearch.2.023154.","ista":"Mistakidis SI, Volosniev A, Schmelcher P. 2020. Induced correlations between impurities in a one-dimensional quenched Bose gas. Physical Review Research. 2, 023154.","ama":"Mistakidis SI, Volosniev A, Schmelcher P. Induced correlations between impurities in a one-dimensional quenched Bose gas. Physical Review Research. 2020;2. doi:10.1103/physrevresearch.2.023154","chicago":"Mistakidis, S. I., Artem Volosniev, and P. Schmelcher. “Induced Correlations between Impurities in a One-Dimensional Quenched Bose Gas.” Physical Review Research. American Physical Society, 2020. https://doi.org/10.1103/physrevresearch.2.023154."},"type":"journal_article","date_published":"2020-05-11T00:00:00Z","article_processing_charge":"No","ec_funded":1,"date_updated":"2023-02-23T13:20:16Z","title":"Induced correlations between impurities in a one-dimensional quenched Bose gas","month":"05","_id":"7919","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"date_created":"2020-06-03T11:30:10Z","file_date_updated":"2020-07-14T12:48:05Z","publication":"Physical Review Research","article_number":"023154 ","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"intvolume":" 2","volume":2},{"file_date_updated":"2020-07-14T12:48:05Z","publication":"Scientific Reports","_id":"7931","date_created":"2020-06-07T22:00:51Z","external_id":{"isi":["000560774200007"]},"title":"A method for identification of the methylation level of CpG islands from NGS data","date_updated":"2023-08-21T07:00:17Z","month":"05","date_published":"2020-05-25T00:00:00Z","article_processing_charge":"No","scopus_import":"1","volume":10,"article_number":"8635","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 10","oa":1,"doi":"10.1038/s41598-020-65406-1","oa_version":"Published Version","publisher":"Springer Nature","day":"25","publication_identifier":{"eissn":["20452322"]},"department":[{"_id":"FyKo"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"author":[{"first_name":"Leonid A.","last_name":"Uroshlev","full_name":"Uroshlev, Leonid A."},{"full_name":"Abdullaev, Eldar T.","last_name":"Abdullaev","first_name":"Eldar T."},{"last_name":"Umarova","full_name":"Umarova, Iren R.","first_name":"Iren R."},{"full_name":"Il’Icheva, Irina A.","last_name":"Il’Icheva","first_name":"Irina A."},{"last_name":"Panchenko","full_name":"Panchenko, Larisa A.","first_name":"Larisa A."},{"first_name":"Robert V.","last_name":"Polozov","full_name":"Polozov, Robert V."},{"first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","full_name":"Kondrashov, Fyodor","orcid":"0000-0001-8243-4694","last_name":"Kondrashov"},{"full_name":"Nechipurenko, Yury D.","last_name":"Nechipurenko","first_name":"Yury D."},{"full_name":"Grokhovsky, Sergei L.","last_name":"Grokhovsky","first_name":"Sergei L."}],"year":"2020","file":[{"file_id":"7947","creator":"dernst","date_created":"2020-06-08T06:27:32Z","content_type":"application/pdf","date_updated":"2020-07-14T12:48:05Z","file_size":1001724,"relation":"main_file","checksum":"099e51611a5b7ca04244d03b2faddf33","access_level":"open_access","file_name":"2020_ScientificReports_Uroshlev.pdf"}],"type":"journal_article","citation":{"ista":"Uroshlev LA, Abdullaev ET, Umarova IR, Il’Icheva IA, Panchenko LA, Polozov RV, Kondrashov F, Nechipurenko YD, Grokhovsky SL. 2020. A method for identification of the methylation level of CpG islands from NGS data. Scientific Reports. 10, 8635.","mla":"Uroshlev, Leonid A., et al. “A Method for Identification of the Methylation Level of CpG Islands from NGS Data.” Scientific Reports, vol. 10, 8635, Springer Nature, 2020, doi:10.1038/s41598-020-65406-1.","chicago":"Uroshlev, Leonid A., Eldar T. Abdullaev, Iren R. Umarova, Irina A. Il’Icheva, Larisa A. Panchenko, Robert V. Polozov, Fyodor Kondrashov, Yury D. Nechipurenko, and Sergei L. Grokhovsky. “A Method for Identification of the Methylation Level of CpG Islands from NGS Data.” Scientific Reports. Springer Nature, 2020. https://doi.org/10.1038/s41598-020-65406-1.","ama":"Uroshlev LA, Abdullaev ET, Umarova IR, et al. A method for identification of the methylation level of CpG islands from NGS data. Scientific Reports. 2020;10. doi:10.1038/s41598-020-65406-1","ieee":"L. A. Uroshlev et al., “A method for identification of the methylation level of CpG islands from NGS data,” Scientific Reports, vol. 10. Springer Nature, 2020.","short":"L.A. Uroshlev, E.T. Abdullaev, I.R. Umarova, I.A. Il’Icheva, L.A. Panchenko, R.V. Polozov, F. Kondrashov, Y.D. Nechipurenko, S.L. Grokhovsky, Scientific Reports 10 (2020).","apa":"Uroshlev, L. A., Abdullaev, E. T., Umarova, I. R., Il’Icheva, I. A., Panchenko, L. A., Polozov, R. V., … Grokhovsky, S. L. (2020). A method for identification of the methylation level of CpG islands from NGS data. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-020-65406-1"},"ddc":["570"],"article_type":"original","abstract":[{"text":"In the course of sample preparation for Next Generation Sequencing (NGS), DNA is fragmented by various methods. Fragmentation shows a persistent bias with regard to the cleavage rates of various dinucleotides. With the exception of CpG dinucleotides the previously described biases were consistent with results of the DNA cleavage in solution. Here we computed cleavage rates of all dinucleotides including the methylated CpG and unmethylated CpG dinucleotides using data of the Whole Genome Sequencing datasets of the 1000 Genomes project. We found that the cleavage rate of CpG is significantly higher for the methylated CpG dinucleotides. Using this information, we developed a classifier for distinguishing cancer and healthy tissues based on their CpG islands statuses of the fragmentation. A simple Support Vector Machine classifier based on this algorithm shows an accuracy of 84%. The proposed method allows the detection of epigenetic markers purely based on mechanochemical DNA fragmentation, which can be detected by a simple analysis of the NGS sequencing data.","lang":"eng"}],"publication_status":"published","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","quality_controlled":"1"}]