[{"doi":"10.1073/pnas.2113046118","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"Bio"}],"article_type":"original","_id":"9887","file_date_updated":"2021-12-15T08:59:40Z","related_material":{"link":[{"relation":"earlier_version","url":"https://doi.org/10.1101/2021.04.26.441441"}],"record":[{"status":"public","relation":"dissertation_contains","id":"14510"},{"relation":"research_data","id":"14988","status":"public"}]},"article_number":"e2113046118","citation":{"ama":"Johnson AJ, Dahhan DA, Gnyliukh N, et al. The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. <i>Proceedings of the National Academy of Sciences</i>. 2021;118(51). doi:<a href=\"https://doi.org/10.1073/pnas.2113046118\">10.1073/pnas.2113046118</a>","ieee":"A. J. Johnson <i>et al.</i>, “The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis,” <i>Proceedings of the National Academy of Sciences</i>, vol. 118, no. 51. National Academy of Sciences, 2021.","short":"A.J. Johnson, D.A. Dahhan, N. Gnyliukh, W. Kaufmann, V. Zheden, T. Costanzo, P. Mahou, M. Hrtyan, J. Wang, J.L. Aguilera Servin, D. van Damme, E. Beaurepaire, M. Loose, S.Y. Bednarek, J. Friml, Proceedings of the National Academy of Sciences 118 (2021).","mla":"Johnson, Alexander J., et al. “The TPLATE Complex Mediates Membrane Bending during Plant Clathrin-Mediated Endocytosis.” <i>Proceedings of the National Academy of Sciences</i>, vol. 118, no. 51, e2113046118, National Academy of Sciences, 2021, doi:<a href=\"https://doi.org/10.1073/pnas.2113046118\">10.1073/pnas.2113046118</a>.","chicago":"Johnson, Alexander J, Dana A Dahhan, Nataliia Gnyliukh, Walter Kaufmann, Vanessa Zheden, Tommaso Costanzo, Pierre Mahou, et al. “The TPLATE Complex Mediates Membrane Bending during Plant Clathrin-Mediated Endocytosis.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2021. <a href=\"https://doi.org/10.1073/pnas.2113046118\">https://doi.org/10.1073/pnas.2113046118</a>.","ista":"Johnson AJ, Dahhan DA, Gnyliukh N, Kaufmann W, Zheden V, Costanzo T, Mahou P, Hrtyan M, Wang J, Aguilera Servin JL, van Damme D, Beaurepaire E, Loose M, Bednarek SY, Friml J. 2021. The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. Proceedings of the National Academy of Sciences. 118(51), e2113046118.","apa":"Johnson, A. J., Dahhan, D. A., Gnyliukh, N., Kaufmann, W., Zheden, V., Costanzo, T., … Friml, J. (2021). The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2113046118\">https://doi.org/10.1073/pnas.2113046118</a>"},"date_created":"2021-08-11T14:11:43Z","year":"2021","acknowledgement":"We gratefully thank Julie Neveu and Dr. Amanda Barranco of the Grégory Vert laboratory for help preparing plants in France, Dr. Zuzana Gelova for help and advice with protoplast generation, Dr. Stéphane Vassilopoulos and Dr. Florian Schur for advice regarding EM tomography, Alejandro Marquiegui Alvaro for help with material generation, and Dr. Lukasz Kowalski for generously gifting us the mWasabi protein. This research was supported by the Scientific Service Units of Institute of Science and Technology Austria (IST Austria) through resources provided by the Electron Microscopy Facility, Lab Support Facility (particularly Dorota Jaworska), and the Bioimaging Facility. We acknowledge the Advanced Microscopy Facility of the Vienna BioCenter Core Facilities for use of the 3D SIM. For the mass spectrometry analysis of proteins, we acknowledge the University of Natural Resources and Life Sciences (BOKU) Core Facility Mass Spectrometry. This work was supported by the following funds: A.J. is supported by funding from the Austrian Science Fund I3630B25 to J.F. P.M. and E.B. are supported by Agence Nationale de la Recherche ANR-11-EQPX-0029 Morphoscope2 and ANR-10-INBS-04 France BioImaging. S.Y.B. is supported by the NSF No. 1121998 and 1614915. J.W. and D.V.D. are supported by the European Research Council Grant 682436 (to D.V.D.), a China Scholarship Council Grant 201508440249 (to J.W.), and by a Ghent University Special Research Co-funding Grant ST01511051 (to J.W.).","quality_controlled":"1","volume":118,"department":[{"_id":"JiFr"},{"_id":"MaLo"},{"_id":"EvBe"},{"_id":"EM-Fac"},{"_id":"NanoFab"}],"date_published":"2021-12-14T00:00:00Z","publisher":"National Academy of Sciences","project":[{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"}],"abstract":[{"text":"Clathrin-mediated endocytosis is the major route of entry of cargos into cells and thus underpins many physiological processes. During endocytosis, an area of flat membrane is remodeled by proteins to create a spherical vesicle against intracellular forces. The protein machinery which mediates this membrane bending in plants is unknown. However, it is known that plant endocytosis is actin independent, thus indicating that plants utilize a unique mechanism to mediate membrane bending against high-turgor pressure compared to other model systems. Here, we investigate the TPLATE complex, a plant-specific endocytosis protein complex. It has been thought to function as a classical adaptor functioning underneath the clathrin coat. However, by using biochemical and advanced live microscopy approaches, we found that TPLATE is peripherally associated with clathrin-coated vesicles and localizes at the rim of endocytosis events. As this localization is more fitting to the protein machinery involved in membrane bending during endocytosis, we examined cells in which the TPLATE complex was disrupted and found that the clathrin structures present as flat patches. This suggests a requirement of the TPLATE complex for membrane bending during plant clathrin–mediated endocytosis. Next, we used in vitro biophysical assays to confirm that the TPLATE complex possesses protein domains with intrinsic membrane remodeling activity. These results redefine the role of the TPLATE complex and implicate it as a key component of the evolutionarily distinct plant endocytosis mechanism, which mediates endocytic membrane bending against the high-turgor pressure in plant cells.","lang":"eng"}],"external_id":{"isi":["000736417600043"],"pmid":["34907016"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ddc":["580"],"publication_status":"published","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"has_accepted_license":"1","intvolume":"       118","isi":1,"title":"The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis","article_processing_charge":"No","issue":"51","date_updated":"2024-02-19T11:06:09Z","oa":1,"status":"public","type":"journal_article","pmid":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"creator":"cchlebak","file_size":2757340,"access_level":"open_access","relation":"main_file","content_type":"application/pdf","success":1,"checksum":"8d01e72e22c4fb1584e72d8601947069","file_id":"10546","file_name":"2021_PNAS_Johnson.pdf","date_created":"2021-12-15T08:59:40Z","date_updated":"2021-12-15T08:59:40Z"}],"day":"14","oa_version":"Published Version","publication_identifier":{"eissn":["1091-6490"]},"month":"12","author":[{"last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","full_name":"Johnson, Alexander J"},{"last_name":"Dahhan","first_name":"Dana A","full_name":"Dahhan, Dana A"},{"last_name":"Gnyliukh","id":"390C1120-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2198-0509","first_name":"Nataliia","full_name":"Gnyliukh, Nataliia"},{"first_name":"Walter","full_name":"Kaufmann, Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","last_name":"Kaufmann","orcid":"0000-0001-9735-5315"},{"first_name":"Vanessa","full_name":"Zheden, Vanessa","last_name":"Zheden","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9438-4783"},{"full_name":"Costanzo, Tommaso","first_name":"Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","last_name":"Costanzo","orcid":"0000-0001-9732-3815"},{"last_name":"Mahou","full_name":"Mahou, Pierre","first_name":"Pierre"},{"last_name":"Hrtyan","id":"45A71A74-F248-11E8-B48F-1D18A9856A87","first_name":"Mónika","full_name":"Hrtyan, Mónika"},{"last_name":"Wang","first_name":"Jie","full_name":"Wang, Jie"},{"last_name":"Aguilera Servin","id":"2A67C376-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2862-8372","first_name":"Juan L","full_name":"Aguilera Servin, Juan L"},{"first_name":"Daniël","full_name":"van Damme, Daniël","last_name":"van Damme"},{"first_name":"Emmanuel","full_name":"Beaurepaire, Emmanuel","last_name":"Beaurepaire"},{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose","orcid":"0000-0001-7309-9724","full_name":"Loose, Martin","first_name":"Martin"},{"last_name":"Bednarek","full_name":"Bednarek, Sebastian Y","first_name":"Sebastian Y"},{"first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}]},{"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","title":"Stochastic activation and bistability in a Rab GTPase regulatory network","date_updated":"2023-09-07T13:17:06Z","oa":1,"issue":"12","article_processing_charge":"No","intvolume":"       117","scopus_import":"1","isi":1,"status":"public","type":"journal_article","author":[{"full_name":"Bezeljak, Urban","first_name":"Urban","last_name":"Bezeljak","id":"2A58201A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1365-5631"},{"full_name":"Loya, Hrushikesh","first_name":"Hrushikesh","last_name":"Loya"},{"full_name":"Kaczmarek, Beata M","first_name":"Beata M","id":"36FA4AFA-F248-11E8-B48F-1D18A9856A87","last_name":"Kaczmarek"},{"last_name":"Saunders","full_name":"Saunders, Timothy E.","first_name":"Timothy E."},{"full_name":"Loose, Martin","first_name":"Martin","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose"}],"day":"24","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/776567"}],"oa_version":"Preprint","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"03","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"_id":"7580","article_type":"original","doi":"10.1073/pnas.1921027117","date_created":"2020-03-12T05:32:26Z","citation":{"apa":"Bezeljak, U., Loya, H., Kaczmarek, B. M., Saunders, T. E., &#38; Loose, M. (2020). Stochastic activation and bistability in a Rab GTPase regulatory network. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1921027117\">https://doi.org/10.1073/pnas.1921027117</a>","ama":"Bezeljak U, Loya H, Kaczmarek BM, Saunders TE, Loose M. Stochastic activation and bistability in a Rab GTPase regulatory network. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(12):6504-6549. doi:<a href=\"https://doi.org/10.1073/pnas.1921027117\">10.1073/pnas.1921027117</a>","ieee":"U. Bezeljak, H. Loya, B. M. Kaczmarek, T. E. Saunders, and M. Loose, “Stochastic activation and bistability in a Rab GTPase regulatory network,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 12. Proceedings of the National Academy of Sciences, pp. 6504–6549, 2020.","short":"U. Bezeljak, H. Loya, B.M. Kaczmarek, T.E. Saunders, M. Loose, Proceedings of the National Academy of Sciences 117 (2020) 6504–6549.","ista":"Bezeljak U, Loya H, Kaczmarek BM, Saunders TE, Loose M. 2020. Stochastic activation and bistability in a Rab GTPase regulatory network. Proceedings of the National Academy of Sciences. 117(12), 6504–6549.","mla":"Bezeljak, Urban, et al. “Stochastic Activation and Bistability in a Rab GTPase Regulatory Network.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 12, Proceedings of the National Academy of Sciences, 2020, pp. 6504–49, doi:<a href=\"https://doi.org/10.1073/pnas.1921027117\">10.1073/pnas.1921027117</a>.","chicago":"Bezeljak, Urban, Hrushikesh Loya, Beata M Kaczmarek, Timothy E. Saunders, and Martin Loose. “Stochastic Activation and Bistability in a Rab GTPase Regulatory Network.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.1921027117\">https://doi.org/10.1073/pnas.1921027117</a>."},"year":"2020","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/proteins-as-molecular-switches/","relation":"press_release"}],"record":[{"status":"public","relation":"dissertation_contains","id":"8341"}]},"project":[{"grant_number":"RGY0083/2016","_id":"2599F062-B435-11E9-9278-68D0E5697425","name":"Reconstitution of cell polarity and axis determination in a cell-free system"}],"page":"6504-6549","department":[{"_id":"MaLo"},{"_id":"CaBe"}],"volume":117,"quality_controlled":"1","publisher":"Proceedings of the National Academy of Sciences","date_published":"2020-03-24T00:00:00Z","publication_status":"published","external_id":{"isi":["000521821800040"]},"abstract":[{"lang":"eng","text":"The eukaryotic endomembrane system is controlled by small GTPases of the Rab family, which are activated at defined times and locations in a switch-like manner. While this switch is well understood for an individual protein, how regulatory networks produce intracellular activity patterns is currently not known. Here, we combine in vitro reconstitution experiments with computational modeling to study a minimal Rab5 activation network. We find that the molecular interactions in this system give rise to a positive feedback and bistable collective switching of Rab5. Furthermore, we find that switching near the critical point is intrinsically stochastic and provide evidence that controlling the inactive population of Rab5 on the membrane can shape the network response. Notably, we demonstrate that collective switching can spread on the membrane surface as a traveling wave of Rab5 activation. Together, our findings reveal how biochemical signaling networks control vesicle trafficking pathways and how their nonequilibrium properties define the spatiotemporal organization of the cell."}]},{"scopus_import":"1","has_accepted_license":"1","intvolume":"       117","isi":1,"title":"Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots","oa":1,"date_updated":"2024-03-25T23:30:06Z","article_processing_charge":"No","issue":"26","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"day":"30","oa_version":"None","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"creator":"dernst","content_type":"application/pdf","file_size":2407102,"relation":"main_file","access_level":"open_access","file_id":"8009","file_name":"2020_PNAS_Hoermayer.pdf","checksum":"908b09437680181de9990915f2113aca","date_created":"2020-06-23T11:30:53Z","date_updated":"2020-07-14T12:48:07Z"}],"month":"06","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"author":[{"last_name":"Hörmayer","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8295-2926","full_name":"Hörmayer, Lukas","first_name":"Lukas"},{"first_name":"Juan C","full_name":"Montesinos López, Juan C","orcid":"0000-0001-9179-6099","last_name":"Montesinos López","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Marhavá","id":"44E59624-F248-11E8-B48F-1D18A9856A87","first_name":"Petra","full_name":"Marhavá, Petra"},{"orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","first_name":"Eva","full_name":"Benková, Eva"},{"first_name":"Saiko","full_name":"Yoshida, Saiko","id":"2E46069C-F248-11E8-B48F-1D18A9856A87","last_name":"Yoshida"},{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"pmid":1,"type":"journal_article","status":"public","ec_funded":1,"article_number":"202003346","related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/how-wounded-plants-coordinate-their-healing/","description":"News on IST Homepage"}],"record":[{"id":"9992","relation":"dissertation_contains","status":"public"}]},"citation":{"apa":"Hörmayer, L., Montesinos López, J. C., Marhavá, P., Benková, E., Yoshida, S., &#38; Friml, J. (2020). Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2003346117\">https://doi.org/10.1073/pnas.2003346117</a>","mla":"Hörmayer, Lukas, et al. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 26, 202003346, Proceedings of the National Academy of Sciences, 2020, doi:<a href=\"https://doi.org/10.1073/pnas.2003346117\">10.1073/pnas.2003346117</a>.","ista":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. 2020. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. Proceedings of the National Academy of Sciences. 117(26), 202003346.","chicago":"Hörmayer, Lukas, Juan C Montesinos López, Petra Marhavá, Eva Benková, Saiko Yoshida, and Jiří Friml. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.2003346117\">https://doi.org/10.1073/pnas.2003346117</a>.","ama":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(26). doi:<a href=\"https://doi.org/10.1073/pnas.2003346117\">10.1073/pnas.2003346117</a>","ieee":"L. Hörmayer, J. C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, and J. Friml, “Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 26. Proceedings of the National Academy of Sciences, 2020.","short":"L. Hörmayer, J.C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, J. Friml, Proceedings of the National Academy of Sciences 117 (2020)."},"date_created":"2020-06-22T13:33:52Z","year":"2020","doi":"10.1073/pnas.2003346117","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"file_date_updated":"2020-07-14T12:48:07Z","article_type":"original","_id":"8002","external_id":{"isi":["000565729700033"],"pmid":["32541049"]},"abstract":[{"text":"Wound healing in plant tissues, consisting of rigid cell wall-encapsulated cells, represents a considerable challenge and occurs through largely unknown mechanisms distinct from those in animals. Owing to their inability to migrate, plant cells rely on targeted cell division and expansion to regenerate wounds. Strict coordination of these wound-induced responses is essential to ensure efficient, spatially restricted wound healing. Single-cell tracking by live imaging allowed us to gain mechanistic insight into the wound perception and coordination of wound responses after laser-based wounding in Arabidopsis root. We revealed a crucial contribution of the collapse of damaged cells in wound perception and detected an auxin increase specific to cells immediately adjacent to the wound. This localized auxin increase balances wound-induced cell expansion and restorative division rates in a dose-dependent manner, leading to tumorous overproliferation when the canonical TIR1 auxin signaling is disrupted. Auxin and wound-induced turgor pressure changes together also spatially define the activation of key components of regeneration, such as the transcription regulator ERF115. Our observations suggest that the wound signaling involves the sensing of collapse of damaged cells and a local auxin signaling activation to coordinate the downstream transcriptional responses in the immediate wound vicinity.","lang":"eng"}],"ddc":["580"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"publication_status":"published","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"volume":117,"quality_controlled":"1","publisher":"Proceedings of the National Academy of Sciences","date_published":"2020-06-30T00:00:00Z","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"name":"RNA-directed DNA methylation in plant development","call_identifier":"FWF","_id":"262EF96E-B435-11E9-9278-68D0E5697425","grant_number":"P29988"}]},{"author":[{"full_name":"Pinotsis, Nikos","first_name":"Nikos","last_name":"Pinotsis"},{"full_name":"Zielinska, Karolina","first_name":"Karolina","last_name":"Zielinska"},{"last_name":"Babuta","first_name":"Mrigya","full_name":"Babuta, Mrigya"},{"last_name":"Arolas","full_name":"Arolas, Joan L.","first_name":"Joan L."},{"full_name":"Kostan, Julius","first_name":"Julius","last_name":"Kostan"},{"last_name":"Khan","full_name":"Khan, Muhammad Bashir","first_name":"Muhammad Bashir"},{"first_name":"Claudia","full_name":"Schreiner, Claudia","last_name":"Schreiner"},{"id":"41F1F098-F248-11E8-B48F-1D18A9856A87","last_name":"Testa Salmazo","full_name":"Testa Salmazo, Anita P","first_name":"Anita P"},{"first_name":"Luciano","full_name":"Ciccarelli, Luciano","last_name":"Ciccarelli"},{"full_name":"Puchinger, Martin","first_name":"Martin","last_name":"Puchinger"},{"full_name":"Gkougkoulia, Eirini A.","first_name":"Eirini A.","last_name":"Gkougkoulia"},{"full_name":"Ribeiro, Euripedes de Almeida","first_name":"Euripedes de Almeida","last_name":"Ribeiro"},{"last_name":"Marlovits","full_name":"Marlovits, Thomas C.","first_name":"Thomas C."},{"first_name":"Alok","full_name":"Bhattacharya, Alok","last_name":"Bhattacharya"},{"last_name":"Djinovic-Carugo","full_name":"Djinovic-Carugo, Kristina","first_name":"Kristina"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"08","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.191726911"}],"oa_version":"Published Version","month":"09","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"status":"public","type":"journal_article","pmid":1,"title":"Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin","issue":"36","article_processing_charge":"No","date_updated":"2024-03-04T10:14:44Z","oa":1,"intvolume":"       117","language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","publication_status":"published","abstract":[{"text":"The actin cytoskeleton, a dynamic network of actin filaments and associated F-actin–binding proteins, is fundamentally important in eukaryotes. α-Actinins are major F-actin bundlers that are inhibited by Ca2+ in nonmuscle cells. Here we report the mechanism of Ca2+-mediated regulation of Entamoeba histolytica α-actinin-2 (EhActn2) with features expected for the common ancestor of Entamoeba and higher eukaryotic α-actinins. Crystal structures of Ca2+-free and Ca2+-bound EhActn2 reveal a calmodulin-like domain (CaMD) uniquely inserted within the rod domain. Integrative studies reveal an exceptionally high affinity of the EhActn2 CaMD for Ca2+, binding of which can only be regulated in the presence of physiological concentrations of Mg2+. Ca2+ binding triggers an increase in protein multidomain rigidity, reducing conformational flexibility of F-actin–binding domains via interdomain cross-talk and consequently inhibiting F-actin bundling. In vivo studies uncover that EhActn2 plays an important role in phagocytic cup formation and might constitute a new drug target for amoebic dysentery.","lang":"eng"}],"external_id":{"pmid":["32848067"]},"volume":117,"quality_controlled":"1","department":[{"_id":"CaBe"}],"page":"22101-22112","date_published":"2020-09-08T00:00:00Z","publisher":"Proceedings of the National Academy of Sciences","date_created":"2024-03-04T10:03:52Z","citation":{"mla":"Pinotsis, Nikos, et al. “Calcium Modulates the Domain Flexibility and Function of an α-Actinin Similar to the Ancestral α-Actinin.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 36, Proceedings of the National Academy of Sciences, 2020, pp. 22101–12, doi:<a href=\"https://doi.org/10.1073/pnas.1917269117\">10.1073/pnas.1917269117</a>.","ista":"Pinotsis N, Zielinska K, Babuta M, Arolas JL, Kostan J, Khan MB, Schreiner C, Testa Salmazo AP, Ciccarelli L, Puchinger M, Gkougkoulia EA, Ribeiro E de A, Marlovits TC, Bhattacharya A, Djinovic-Carugo K. 2020. Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. Proceedings of the National Academy of Sciences. 117(36), 22101–22112.","chicago":"Pinotsis, Nikos, Karolina Zielinska, Mrigya Babuta, Joan L. Arolas, Julius Kostan, Muhammad Bashir Khan, Claudia Schreiner, et al. “Calcium Modulates the Domain Flexibility and Function of an α-Actinin Similar to the Ancestral α-Actinin.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.1917269117\">https://doi.org/10.1073/pnas.1917269117</a>.","ieee":"N. Pinotsis <i>et al.</i>, “Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 36. Proceedings of the National Academy of Sciences, pp. 22101–22112, 2020.","ama":"Pinotsis N, Zielinska K, Babuta M, et al. Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(36):22101-22112. doi:<a href=\"https://doi.org/10.1073/pnas.1917269117\">10.1073/pnas.1917269117</a>","short":"N. Pinotsis, K. Zielinska, M. Babuta, J.L. Arolas, J. Kostan, M.B. Khan, C. Schreiner, A.P. Testa Salmazo, L. Ciccarelli, M. Puchinger, E.A. Gkougkoulia, E. de A. Ribeiro, T.C. Marlovits, A. Bhattacharya, K. Djinovic-Carugo, Proceedings of the National Academy of Sciences 117 (2020) 22101–22112.","apa":"Pinotsis, N., Zielinska, K., Babuta, M., Arolas, J. L., Kostan, J., Khan, M. B., … Djinovic-Carugo, K. (2020). Calcium modulates the domain flexibility and function of an α-actinin similar to the ancestral α-actinin. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1917269117\">https://doi.org/10.1073/pnas.1917269117</a>"},"year":"2020","acknowledgement":"We thank the staff of the macromolecular crystallography (MX) and SAXS beamlines at the European Synchrotron Radiation facility, Diamond, and Swiss Light Source for excellent support, and the Life Sciences Facility of the Institute of Science and Technology Austria for usage of the rheometer. We thank Life Sciences editors for editing assistance. EM data were\r\nrecorded at the EM Facility of the Vienna BioCenter Core Facilities (Austria). Confocal microscopy was carried out at the Advanced Instrument Research Facility, Jawaharlal Nehru University. K.D.-C.’s research was supported by the Initial Training Network MUZIC (ITN-MUZIC) (N°238423), Austrian Science Fund (FWF) Projects I525, I1593, P22276, P19060, and W1221, Laura Bassi Centre of Optimized Structural Studies (N°253275), a Wellcome Trust Collaborative Award (201543/Z/16/Z), COST Action BM1405, Vienna Science and Technology Fund (WWTF) Chemical Biology Project LS17-008, and Christian Doppler Laboratory for High-Content Structural Biology and Biotechnology. K.Z., J.L.A., C.S., E.A.G., and A.S. were supported by the University of Vienna, J.K. by a Wellcome Trust Collaborative Award and by the Centre of Optimized Structural Studies, M.P. by FWF Project I1593, E.d.A.R. ITN-MUZIC, and FWF Projects I525 and I1593, and T.C.M. and L.C. by FWF Project I 2408-B22. E.A.G. acknowledges the PhD program Structure and Interaction of Biological Macromolecules. M.B. acknowledges the University Grant Commission, India, for a senior research fellowship. A.B. acknowledges a JC Bose Fellowship from the Science Engineering Research Council. ","acknowledged_ssus":[{"_id":"LifeSc"}],"_id":"15061","article_type":"original","doi":"10.1073/pnas.1917269117"},{"title":"Physical mechanisms of amyloid nucleation on fluid membranes","issue":"52","article_processing_charge":"No","oa":1,"date_updated":"2021-11-25T15:35:58Z","intvolume":"       117","scopus_import":"1","language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","author":[{"full_name":"Krausser, Johannes","first_name":"Johannes","last_name":"Krausser"},{"last_name":"Knowles","first_name":"Tuomas P. J.","full_name":"Knowles, Tuomas P. J."},{"orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","last_name":"Šarić","full_name":"Šarić, Anđela","first_name":"Anđela"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/2019.12.22.886267v2"}],"day":"16","month":"12","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"status":"public","type":"journal_article","pmid":1,"date_created":"2021-11-25T15:07:09Z","citation":{"apa":"Krausser, J., Knowles, T. P. J., &#38; Šarić, A. (2020). Physical mechanisms of amyloid nucleation on fluid membranes. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2007694117\">https://doi.org/10.1073/pnas.2007694117</a>","chicago":"Krausser, Johannes, Tuomas P. J. Knowles, and Anđela Šarić. “Physical Mechanisms of Amyloid Nucleation on Fluid Membranes.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.2007694117\">https://doi.org/10.1073/pnas.2007694117</a>.","ista":"Krausser J, Knowles TPJ, Šarić A. 2020. Physical mechanisms of amyloid nucleation on fluid membranes. Proceedings of the National Academy of Sciences. 117(52), 33090–33098.","mla":"Krausser, Johannes, et al. “Physical Mechanisms of Amyloid Nucleation on Fluid Membranes.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 52, National Academy of Sciences, 2020, pp. 33090–98, doi:<a href=\"https://doi.org/10.1073/pnas.2007694117\">10.1073/pnas.2007694117</a>.","short":"J. Krausser, T.P.J. Knowles, A. Šarić, Proceedings of the National Academy of Sciences 117 (2020) 33090–33098.","ieee":"J. Krausser, T. P. J. Knowles, and A. Šarić, “Physical mechanisms of amyloid nucleation on fluid membranes,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 52. National Academy of Sciences, pp. 33090–33098, 2020.","ama":"Krausser J, Knowles TPJ, Šarić A. Physical mechanisms of amyloid nucleation on fluid membranes. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(52):33090-33098. doi:<a href=\"https://doi.org/10.1073/pnas.2007694117\">10.1073/pnas.2007694117</a>"},"year":"2020","acknowledgement":"We thank T. C. T. Michaels for reading the manuscript. This work was supported by the Academy of Medical Science (J.K. and A.Š.), the Cambridge Center for Misfolding Diseases (T.P.J.K.), the Biotechnology and Biological Sciences Research Council (T.P.J.K.), the Frances and Augustus Newman Foundation (T.P.J.K.), the European Research Council Grant PhysProt Agreement 337969, the Wellcome Trust (A.Š. and T.P.J.K.), the Royal Society (A.Š.), the Medical Research Council (J.K. and A.Š.), and the UK Materials and Molecular Modeling Hub for computational resources, which is partially funded by Engineering and Physical Sciences Research Council Grant EP/P020194/1.","article_type":"original","_id":"10336","doi":"10.1073/pnas.2007694117","publication_status":"published","abstract":[{"text":"Biological membranes can dramatically accelerate the aggregation of normally soluble protein molecules into amyloid fibrils and alter the fibril morphologies, yet the molecular mechanisms through which this accelerated nucleation takes place are not yet understood. Here, we develop a coarse-grained model to systematically explore the effect that the structural properties of the lipid membrane and the nature of protein–membrane interactions have on the nucleation rates of amyloid fibrils. We identify two physically distinct nucleation pathways—protein-rich and lipid-rich—and quantify how the membrane fluidity and protein–membrane affinity control the relative importance of those molecular pathways. We find that the membrane’s susceptibility to reshaping and being incorporated into the fibrillar aggregates is a key determinant of its ability to promote protein aggregation. We then characterize the rates and the free-energy profile associated with this heterogeneous nucleation process, in which the surface itself participates in the aggregate structure. Finally, we compare quantitatively our data to experiments on membrane-catalyzed amyloid aggregation of α-synuclein, a protein implicated in Parkinson’s disease that predominately nucleates on membranes. More generally, our results provide a framework for understanding macromolecular aggregation on lipid membranes in a broad biological and biotechnological context.","lang":"eng"}],"external_id":{"pmid":["33328273"]},"volume":117,"quality_controlled":"1","page":"33090-33098","extern":"1","date_published":"2020-12-16T00:00:00Z","publisher":"National Academy of Sciences"},{"doi":"10.1073/pnas.2006684117","_id":"10347","article_type":"original","keyword":["multidisciplinary"],"citation":{"short":"T.C.T. Michaels, A. Šarić, G. Meisl, G.T. Heller, S. Curk, P. Arosio, S. Linse, C.M. Dobson, M. Vendruscolo, T.P.J. Knowles, Proceedings of the National Academy of Sciences 117 (2020) 24251–24257.","ama":"Michaels TCT, Šarić A, Meisl G, et al. Thermodynamic and kinetic design principles for amyloid-aggregation inhibitors. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(39):24251-24257. doi:<a href=\"https://doi.org/10.1073/pnas.2006684117\">10.1073/pnas.2006684117</a>","ieee":"T. C. T. Michaels <i>et al.</i>, “Thermodynamic and kinetic design principles for amyloid-aggregation inhibitors,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 39. National Academy of Sciences, pp. 24251–24257, 2020.","mla":"Michaels, Thomas C. T., et al. “Thermodynamic and Kinetic Design Principles for Amyloid-Aggregation Inhibitors.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 39, National Academy of Sciences, 2020, pp. 24251–57, doi:<a href=\"https://doi.org/10.1073/pnas.2006684117\">10.1073/pnas.2006684117</a>.","chicago":"Michaels, Thomas C. T., Anđela Šarić, Georg Meisl, Gabriella T. Heller, Samo Curk, Paolo Arosio, Sara Linse, Christopher M. Dobson, Michele Vendruscolo, and Tuomas P. J. Knowles. “Thermodynamic and Kinetic Design Principles for Amyloid-Aggregation Inhibitors.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.2006684117\">https://doi.org/10.1073/pnas.2006684117</a>.","ista":"Michaels TCT, Šarić A, Meisl G, Heller GT, Curk S, Arosio P, Linse S, Dobson CM, Vendruscolo M, Knowles TPJ. 2020. Thermodynamic and kinetic design principles for amyloid-aggregation inhibitors. Proceedings of the National Academy of Sciences. 117(39), 24251–24257.","apa":"Michaels, T. C. T., Šarić, A., Meisl, G., Heller, G. T., Curk, S., Arosio, P., … Knowles, T. P. J. (2020). Thermodynamic and kinetic design principles for amyloid-aggregation inhibitors. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2006684117\">https://doi.org/10.1073/pnas.2006684117</a>"},"date_created":"2021-11-26T07:48:27Z","year":"2020","acknowledgement":"We acknowledge support from Peterhouse, Cambridge (T.C.T.M.); the Swiss National Science Foundation (T.C.T.M.); the Royal Society (A.S. and S.C.); the Academy of Medical Sciences (A.S.); Sidney Sussex College, Cambridge (G.M.); Newnham College, Cambridge (G.T.H.); the Wellcome Trust (T.P.J.K.); the Cambridge Center for Misfolding Diseases (T.P.J.K. and M.V.); the Biotechnology and Biological Sciences Research Council (T.P.J.K.); the Frances and Augustus Newman Foundation (T.P.J.K.); and the Synapsis Foundation for Alzheimer’s disease (P.A.). The research leading to these results has received funding from the European Research Council (ERC) under the European Union’s Seventh Framework Program (FP7/2007-2013) through the ERC Grant PhysProt (Agreement 337969).","quality_controlled":"1","volume":117,"extern":"1","page":"24251-24257","date_published":"2020-09-14T00:00:00Z","publisher":"National Academy of Sciences","abstract":[{"text":"Understanding the mechanism of action of compounds capable of inhibiting amyloid-fibril formation is critical to the development of potential therapeutics against protein-misfolding diseases. A fundamental challenge for progress is the range of possible target species and the disparate timescales involved, since the aggregating proteins are simultaneously the reactants, products, intermediates, and catalysts of the reaction. It is a complex problem, therefore, to choose the states of the aggregating proteins that should be bound by the compounds to achieve the most potent inhibition. We present here a comprehensive kinetic theory of amyloid-aggregation inhibition that reveals the fundamental thermodynamic and kinetic signatures characterizing effective inhibitors by identifying quantitative relationships between the aggregation and binding rate constants. These results provide general physical laws to guide the design and optimization of inhibitors of amyloid-fibril formation, revealing in particular the important role of on-rates in the binding of the inhibitors.","lang":"eng"}],"external_id":{"pmid":["32929030"]},"publication_status":"published","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"intvolume":"       117","scopus_import":"1","title":"Thermodynamic and kinetic design principles for amyloid-aggregation inhibitors","issue":"39","article_processing_charge":"No","oa":1,"date_updated":"2021-11-26T08:59:06Z","type":"journal_article","status":"public","pmid":1,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/2020.02.22.960716"}],"day":"14","oa_version":"Published Version","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"09","author":[{"full_name":"Michaels, Thomas C. T.","first_name":"Thomas C. T.","last_name":"Michaels"},{"orcid":"0000-0002-7854-2139","last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela"},{"last_name":"Meisl","full_name":"Meisl, Georg","first_name":"Georg"},{"last_name":"Heller","first_name":"Gabriella T.","full_name":"Heller, Gabriella T."},{"full_name":"Curk, Samo","first_name":"Samo","last_name":"Curk"},{"last_name":"Arosio","full_name":"Arosio, Paolo","first_name":"Paolo"},{"last_name":"Linse","full_name":"Linse, Sara","first_name":"Sara"},{"last_name":"Dobson","full_name":"Dobson, Christopher M.","first_name":"Christopher M."},{"last_name":"Vendruscolo","full_name":"Vendruscolo, Michele","first_name":"Michele"},{"full_name":"Knowles, Tuomas P. J.","first_name":"Tuomas P. J.","last_name":"Knowles"}]},{"doi":"10.1073/pnas.1911892116","file_date_updated":"2020-07-14T12:47:46Z","article_type":"original","_id":"6999","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1073/pnas.2004738117"}]},"date_created":"2019-11-12T11:42:05Z","citation":{"mla":"Huang, D., et al. “Salicylic Acid-Mediated Plasmodesmal Closure via Remorin-Dependent Lipid Organization.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 116, no. 42, Proceedings of the National Academy of Sciences, 2019, pp. 21274–84, doi:<a href=\"https://doi.org/10.1073/pnas.1911892116\">10.1073/pnas.1911892116</a>.","chicago":"Huang, D, Y Sun, Z Ma, M Ke, Y Cui, Z Chen, C Chen, et al. “Salicylic Acid-Mediated Plasmodesmal Closure via Remorin-Dependent Lipid Organization.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1911892116\">https://doi.org/10.1073/pnas.1911892116</a>.","ista":"Huang D, Sun Y, Ma Z, Ke M, Cui Y, Chen Z, Chen C, Ji C, Tran T, Yang L, Lam S, Han Y, Shu G, Friml J, Miao Y, Jiang L, Chen X. 2019. Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. Proceedings of the National Academy of Sciences of the United States of America. 116(42), 21274–21284.","ama":"Huang D, Sun Y, Ma Z, et al. Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2019;116(42):21274-21284. doi:<a href=\"https://doi.org/10.1073/pnas.1911892116\">10.1073/pnas.1911892116</a>","ieee":"D. Huang <i>et al.</i>, “Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 116, no. 42. Proceedings of the National Academy of Sciences, pp. 21274–21284, 2019.","short":"D. Huang, Y. Sun, Z. Ma, M. Ke, Y. Cui, Z. Chen, C. Chen, C. Ji, T. Tran, L. Yang, S. Lam, Y. Han, G. Shu, J. Friml, Y. Miao, L. Jiang, X. Chen, Proceedings of the National Academy of Sciences of the United States of America 116 (2019) 21274–21284.","apa":"Huang, D., Sun, Y., Ma, Z., Ke, M., Cui, Y., Chen, Z., … Chen, X. (2019). Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1911892116\">https://doi.org/10.1073/pnas.1911892116</a>"},"year":"2019","page":"21274-21284","department":[{"_id":"JiFr"}],"volume":116,"quality_controlled":"1","publisher":"Proceedings of the National Academy of Sciences","date_published":"2019-10-15T00:00:00Z","external_id":{"isi":["000490183000068"],"pmid":["31575745"]},"abstract":[{"lang":"eng","text":"Plasmodesmata (PD) are plant-specific membrane-lined channels that create cytoplasmic and membrane continuities between adjacent cells, thereby facilitating cell–cell communication and virus movement. Plant cells have evolved diverse mechanisms to regulate PD plasticity in response to numerous environmental stimuli. In particular, during defense against plant pathogens, the defense hormone, salicylic acid (SA), plays a crucial role in the regulation of PD permeability in a callose-dependent manner. Here, we uncover a mechanism by which plants restrict the spreading of virus and PD cargoes using SA signaling by increasing lipid order and closure of PD. We showed that exogenous SA application triggered the compartmentalization of lipid raft nanodomains through a modulation of the lipid raft-regulatory protein, Remorin (REM). Genetic studies, superresolution imaging, and transmission electron microscopy observation together demonstrated that Arabidopsis REM1.2 and REM1.3 are crucial for plasma membrane nanodomain assembly to control PD aperture and functionality. In addition, we also found that a 14-3-3 epsilon protein modulates REM clustering and membrane nanodomain compartmentalization through its direct interaction with REM proteins. This study unveils a molecular mechanism by which the key plant defense hormone, SA, triggers membrane lipid nanodomain reorganization, thereby regulating PD closure to impede virus spreading."}],"ddc":["580"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"publication_status":"published","publication":"Proceedings of the National Academy of Sciences of the United States of America","language":[{"iso":"eng"}],"has_accepted_license":"1","scopus_import":"1","intvolume":"       116","isi":1,"title":"Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization","oa":1,"date_updated":"2023-10-17T12:32:37Z","article_processing_charge":"No","issue":"42","pmid":1,"type":"journal_article","status":"public","oa_version":"Published Version","day":"15","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"file_size":3287466,"relation":"main_file","access_level":"open_access","content_type":"application/pdf","creator":"dernst","date_created":"2019-11-13T08:22:28Z","date_updated":"2020-07-14T12:47:46Z","checksum":"258c666bc6253eab81961f61169eefae","file_name":"2019_PNAS_Huang.pdf","file_id":"7012"}],"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"10","author":[{"full_name":"Huang, D","first_name":"D","last_name":"Huang"},{"first_name":"Y","full_name":"Sun, Y","last_name":"Sun"},{"last_name":"Ma","full_name":"Ma, Z","first_name":"Z"},{"last_name":"Ke","first_name":"M","full_name":"Ke, M"},{"first_name":"Y","full_name":"Cui, Y","last_name":"Cui"},{"last_name":"Chen","first_name":"Z","full_name":"Chen, Z"},{"last_name":"Chen","first_name":"C","full_name":"Chen, C"},{"last_name":"Ji","first_name":"C","full_name":"Ji, C"},{"last_name":"Tran","first_name":"TM","full_name":"Tran, TM"},{"last_name":"Yang","full_name":"Yang, L","first_name":"L"},{"last_name":"Lam","full_name":"Lam, SM","first_name":"SM"},{"first_name":"Y","full_name":"Han, Y","last_name":"Han"},{"full_name":"Shu, G","first_name":"G","last_name":"Shu"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"last_name":"Miao","first_name":"Y","full_name":"Miao, Y"},{"full_name":"Jiang, L","first_name":"L","last_name":"Jiang"},{"full_name":"Chen, X","first_name":"X","last_name":"Chen"}]},{"article_type":"original","_id":"196","doi":"10.1073/pnas.1812015116","acknowledgement":"M.L. is grateful to the members of the C Guet and G Tkacik groups for valuable comments and support. M.S. is grateful to Nikita Kalinin for inspiring communications.\r\n","year":"2019","date_created":"2018-12-11T11:45:08Z","citation":{"apa":"Lang, M., &#38; Shkolnikov, M. (2019). Harmonic dynamics of the Abelian sandpile. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1812015116\">https://doi.org/10.1073/pnas.1812015116</a>","mla":"Lang, Moritz, and Mikhail Shkolnikov. “Harmonic Dynamics of the Abelian Sandpile.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 8, National Academy of Sciences, 2019, pp. 2821–30, doi:<a href=\"https://doi.org/10.1073/pnas.1812015116\">10.1073/pnas.1812015116</a>.","ista":"Lang M, Shkolnikov M. 2019. Harmonic dynamics of the Abelian sandpile. Proceedings of the National Academy of Sciences. 116(8), 2821–2830.","chicago":"Lang, Moritz, and Mikhail Shkolnikov. “Harmonic Dynamics of the Abelian Sandpile.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1812015116\">https://doi.org/10.1073/pnas.1812015116</a>.","short":"M. Lang, M. Shkolnikov, Proceedings of the National Academy of Sciences 116 (2019) 2821–2830.","ieee":"M. Lang and M. Shkolnikov, “Harmonic dynamics of the Abelian sandpile,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 8. National Academy of Sciences, pp. 2821–2830, 2019.","ama":"Lang M, Shkolnikov M. Harmonic dynamics of the Abelian sandpile. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(8):2821-2830. doi:<a href=\"https://doi.org/10.1073/pnas.1812015116\">10.1073/pnas.1812015116</a>"},"related_material":{"link":[{"url":"https://ist.ac.at/en/news/famous-sandpile-model-shown-to-move-like-a-traveling-sand-dune/","description":"News on IST Webpage","relation":"press_release"}]},"publisher":"National Academy of Sciences","date_published":"2019-02-19T00:00:00Z","page":"2821-2830","department":[{"_id":"CaGu"},{"_id":"GaTk"},{"_id":"TaHa"}],"volume":116,"quality_controlled":"1","publication_status":"published","external_id":{"pmid":[" 30728300"],"isi":["000459074400013"],"arxiv":["1806.10823"]},"abstract":[{"text":"The abelian sandpile serves as a model to study self-organized criticality, a phenomenon occurring in biological, physical and social processes. The identity of the abelian group is a fractal composed of self-similar patches, and its limit is subject of extensive collaborative research. Here, we analyze the evolution of the sandpile identity under harmonic fields of different orders. We show that this evolution corresponds to periodic cycles through the abelian group characterized by the smooth transformation and apparent conservation of the patches constituting the identity. The dynamics induced by second and third order harmonics resemble smooth stretchings, respectively translations, of the identity, while the ones induced by fourth order harmonics resemble magnifications and rotations. Starting with order three, the dynamics pass through extended regions of seemingly random configurations which spontaneously reassemble into accentuated patterns. We show that the space of harmonic functions projects to the extended analogue of the sandpile group, thus providing a set of universal coordinates identifying configurations between different domains. Since the original sandpile group is a subgroup of the extended one, this directly implies that it admits a natural renormalization. Furthermore, we show that the harmonic fields can be induced by simple Markov processes, and that the corresponding stochastic dynamics show remarkable robustness over hundreds of periods. Finally, we encode information into seemingly random configurations, and decode this information with an algorithm requiring minimal prior knowledge. Our results suggest that harmonic fields might split the sandpile group into sub-sets showing different critical coefficients, and that it might be possible to extend the fractal structure of the identity beyond the boundaries of its domain. ","lang":"eng"}],"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","date_updated":"2023-09-11T14:09:34Z","oa":1,"issue":"8","article_processing_charge":"No","title":"Harmonic dynamics of the Abelian sandpile","isi":1,"scopus_import":"1","intvolume":"       116","pmid":1,"type":"journal_article","status":"public","author":[{"last_name":"Lang","id":"29E0800A-F248-11E8-B48F-1D18A9856A87","full_name":"Lang, Moritz","first_name":"Moritz"},{"last_name":"Shkolnikov","id":"35084A62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4310-178X","full_name":"Shkolnikov, Mikhail","first_name":"Mikhail"}],"arxiv":1,"month":"02","publication_identifier":{"eissn":["1091-6490"]},"day":"19","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1812015116","open_access":"1"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"article_type":"original","_id":"14001","doi":"10.1073/pnas.1907189116","year":"2019","keyword":["Multidisciplinary"],"citation":{"apa":"Baykusheva, D. R., Zindel, D., Svoboda, V., Bommeli, E., Ochsner, M., Tehlar, A., &#38; Wörner, H. J. (2019). Real-time probing of chirality during a chemical reaction. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1907189116\">https://doi.org/10.1073/pnas.1907189116</a>","short":"D.R. Baykusheva, D. Zindel, V. Svoboda, E. Bommeli, M. Ochsner, A. Tehlar, H.J. Wörner, Proceedings of the National Academy of Sciences 116 (2019) 23923–23929.","ama":"Baykusheva DR, Zindel D, Svoboda V, et al. Real-time probing of chirality during a chemical reaction. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(48):23923-23929. doi:<a href=\"https://doi.org/10.1073/pnas.1907189116\">10.1073/pnas.1907189116</a>","ieee":"D. R. Baykusheva <i>et al.</i>, “Real-time probing of chirality during a chemical reaction,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 48. Proceedings of the National Academy of Sciences, pp. 23923–23929, 2019.","mla":"Baykusheva, Denitsa Rangelova, et al. “Real-Time Probing of Chirality during a Chemical Reaction.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 48, Proceedings of the National Academy of Sciences, 2019, pp. 23923–29, doi:<a href=\"https://doi.org/10.1073/pnas.1907189116\">10.1073/pnas.1907189116</a>.","ista":"Baykusheva DR, Zindel D, Svoboda V, Bommeli E, Ochsner M, Tehlar A, Wörner HJ. 2019. Real-time probing of chirality during a chemical reaction. Proceedings of the National Academy of Sciences. 116(48), 23923–23929.","chicago":"Baykusheva, Denitsa Rangelova, Daniel Zindel, Vít Svoboda, Elias Bommeli, Manuel Ochsner, Andres Tehlar, and Hans Jakob Wörner. “Real-Time Probing of Chirality during a Chemical Reaction.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1907189116\">https://doi.org/10.1073/pnas.1907189116</a>."},"date_created":"2023-08-09T13:10:36Z","date_published":"2019-11-13T00:00:00Z","publisher":"Proceedings of the National Academy of Sciences","quality_controlled":"1","volume":116,"page":"23923-23929","extern":"1","publication_status":"published","abstract":[{"lang":"eng","text":"Chiral molecules interact and react differently with other chiral objects, depending on their handedness. Therefore, it is essential to understand and ultimately control the evolution of molecular chirality during chemical reactions. Although highly sophisticated techniques for the controlled synthesis of chiral molecules have been developed, the observation of chirality on the natural femtosecond time scale of a chemical reaction has so far remained out of reach in the gas phase. Here, we demonstrate a general experimental technique, based on high-harmonic generation in tailored laser fields, and apply it to probe the time evolution of molecular chirality during the photodissociation of 2-iodobutane. These measurements show a change in sign and a pronounced increase in the magnitude of the chiral response over the first 100 fs, followed by its decay within less than 500 fs, revealing the photodissociation to achiral products. The observed time evolution is explained in terms of the variation of the electric and magnetic transition-dipole moments between the lowest electronic states of the cation as a function of the reaction coordinate. These results open the path to investigations of the chirality of molecular-reaction pathways, light-induced chirality in chemical processes, and the control of molecular chirality through tailored laser pulses."}],"external_id":{"pmid":["31723044"],"arxiv":["1906.10818"]},"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","issue":"48","article_processing_charge":"No","oa":1,"date_updated":"2023-08-22T07:40:05Z","title":"Real-time probing of chirality during a chemical reaction","intvolume":"       116","scopus_import":"1","type":"journal_article","status":"public","pmid":1,"arxiv":1,"author":[{"first_name":"Denitsa Rangelova","full_name":"Baykusheva, Denitsa Rangelova","id":"71b4d059-2a03-11ee-914d-dfa3beed6530","last_name":"Baykusheva"},{"first_name":"Daniel","full_name":"Zindel, Daniel","last_name":"Zindel"},{"last_name":"Svoboda","first_name":"Vít","full_name":"Svoboda, Vít"},{"last_name":"Bommeli","first_name":"Elias","full_name":"Bommeli, Elias"},{"last_name":"Ochsner","first_name":"Manuel","full_name":"Ochsner, Manuel"},{"last_name":"Tehlar","full_name":"Tehlar, Andres","first_name":"Andres"},{"last_name":"Wörner","first_name":"Hans Jakob","full_name":"Wörner, Hans Jakob"}],"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"11","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"13","oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1907189116"}]},{"type":"journal_article","status":"public","pmid":1,"author":[{"full_name":"Kim, M. Yvonne","first_name":"M. Yvonne","last_name":"Kim"},{"first_name":"Akemi","full_name":"Ono, Akemi","last_name":"Ono"},{"first_name":"Stefan","full_name":"Scholten, Stefan","last_name":"Scholten"},{"last_name":"Kinoshita","full_name":"Kinoshita, Tetsu","first_name":"Tetsu"},{"orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","full_name":"Zilberman, Daniel","first_name":"Daniel"},{"last_name":"Okamoto","full_name":"Okamoto, Takashi","first_name":"Takashi"},{"full_name":"Fischer, Robert L.","first_name":"Robert L.","last_name":"Fischer"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file":[{"success":1,"file_name":"2019_PNAS_Kim.pdf","file_id":"9461","checksum":"5b0ae3779b8b21b5223bd2d3cceede3a","date_created":"2021-06-04T12:50:47Z","date_updated":"2021-06-04T12:50:47Z","creator":"asandaue","content_type":"application/pdf","file_size":1142540,"relation":"main_file","access_level":"open_access"}],"day":"07","oa_version":"Published Version","month":"05","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","title":"DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm","issue":"19","article_processing_charge":"No","date_updated":"2021-12-14T07:52:30Z","oa":1,"scopus_import":"1","has_accepted_license":"1","intvolume":"       116","quality_controlled":"1","volume":116,"extern":"1","department":[{"_id":"DaZi"}],"page":"9652-9657","date_published":"2019-05-07T00:00:00Z","publisher":"National Academy of Sciences","publication_status":"published","abstract":[{"text":"Epigenetic reprogramming is required for proper regulation of gene expression in eukaryotic organisms. In Arabidopsis, active DNA demethylation is crucial for seed viability, pollen function, and successful reproduction. The DEMETER (DME) DNA glycosylase initiates localized DNA demethylation in vegetative and central cells, so-called companion cells that are adjacent to sperm and egg gametes, respectively. In rice, the central cell genome displays local DNA hypomethylation, suggesting that active DNA demethylation also occurs in rice; however, the enzyme responsible for this process is unknown. One candidate is the rice REPRESSOR OF SILENCING 1a (ROS1a) gene, which is related to DME and is essential for rice seed viability and pollen function. Here, we report genome-wide analyses of DNA methylation in wild-type and ros1a mutant sperm and vegetative cells. We find that the rice vegetative cell genome is locally hypomethylated compared with sperm by a process that requires ROS1a activity. We show that many ROS1a target sequences in the vegetative cell are hypomethylated in the rice central cell, suggesting that ROS1a also demethylates the central cell genome. Similar to Arabidopsis, we show that sperm non-CG methylation is indirectly promoted by DNA demethylation in the vegetative cell. These results reveal that DNA glycosylase-mediated DNA demethylation processes are conserved in Arabidopsis and rice, plant species that diverged 150 million years ago. Finally, although global non-CG methylation levels of sperm and egg differ, the maternal and paternal embryo genomes show similar non-CG methylation levels, suggesting that rice gamete genomes undergo dynamic DNA methylation reprogramming after cell fusion.","lang":"eng"}],"external_id":{"pmid":["31000601"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"ddc":["580"],"_id":"9460","article_type":"original","file_date_updated":"2021-06-04T12:50:47Z","doi":"10.1073/pnas.1821435116","keyword":["Multidisciplinary"],"citation":{"apa":"Kim, M. Y., Ono, A., Scholten, S., Kinoshita, T., Zilberman, D., Okamoto, T., &#38; Fischer, R. L. (2019). DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1821435116\">https://doi.org/10.1073/pnas.1821435116</a>","mla":"Kim, M. Yvonne, et al. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 19, National Academy of Sciences, 2019, pp. 9652–57, doi:<a href=\"https://doi.org/10.1073/pnas.1821435116\">10.1073/pnas.1821435116</a>.","ista":"Kim MY, Ono A, Scholten S, Kinoshita T, Zilberman D, Okamoto T, Fischer RL. 2019. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. 116(19), 9652–9657.","chicago":"Kim, M. Yvonne, Akemi Ono, Stefan Scholten, Tetsu Kinoshita, Daniel Zilberman, Takashi Okamoto, and Robert L. Fischer. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1821435116\">https://doi.org/10.1073/pnas.1821435116</a>.","ieee":"M. Y. Kim <i>et al.</i>, “DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 19. National Academy of Sciences, pp. 9652–9657, 2019.","ama":"Kim MY, Ono A, Scholten S, et al. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(19):9652-9657. doi:<a href=\"https://doi.org/10.1073/pnas.1821435116\">10.1073/pnas.1821435116</a>","short":"M.Y. Kim, A. Ono, S. Scholten, T. Kinoshita, D. Zilberman, T. Okamoto, R.L. Fischer, Proceedings of the National Academy of Sciences 116 (2019) 9652–9657."},"date_created":"2021-06-04T12:38:20Z","year":"2019"},{"date_published":"2019-01-22T00:00:00Z","publisher":"National Academy of Sciences","quality_controlled":"1","volume":116,"extern":"1","page":"1110-1115","publication_status":"published","abstract":[{"text":"A central goal of computational physics and chemistry is to predict material properties by using first-principles methods based on the fundamental laws of quantum mechanics. However, the high computational costs of these methods typically prevent rigorous predictions of macroscopic quantities at finite temperatures, such as heat capacity, density, and chemical potential. Here, we enable such predictions by marrying advanced free-energy methods with data-driven machine-learning interatomic potentials. We show that, for the ubiquitous and technologically essential system of water, a first-principles thermodynamic description not only leads to excellent agreement with experiments, but also reveals the crucial role of nuclear quantum fluctuations in modulating the thermodynamic stabilities of different phases of water.","lang":"eng"}],"external_id":{"arxiv":["1811.08630"],"pmid":["30610171"]},"article_type":"original","_id":"9689","doi":"10.1073/pnas.1815117116","year":"2019","date_created":"2021-07-19T10:17:09Z","citation":{"apa":"Cheng, B., Engel, E. A., Behler, J., Dellago, C., &#38; Ceriotti, M. (2019). Ab initio thermodynamics of liquid and solid water. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1815117116\">https://doi.org/10.1073/pnas.1815117116</a>","ieee":"B. Cheng, E. A. Engel, J. Behler, C. Dellago, and M. Ceriotti, “Ab initio thermodynamics of liquid and solid water,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 4. National Academy of Sciences, pp. 1110–1115, 2019.","ama":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. Ab initio thermodynamics of liquid and solid water. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(4):1110-1115. doi:<a href=\"https://doi.org/10.1073/pnas.1815117116\">10.1073/pnas.1815117116</a>","short":"B. Cheng, E.A. Engel, J. Behler, C. Dellago, M. Ceriotti, Proceedings of the National Academy of Sciences 116 (2019) 1110–1115.","chicago":"Cheng, Bingqing, Edgar A. Engel, Jörg Behler, Christoph Dellago, and Michele Ceriotti. “Ab Initio Thermodynamics of Liquid and Solid Water.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1815117116\">https://doi.org/10.1073/pnas.1815117116</a>.","ista":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. 2019. Ab initio thermodynamics of liquid and solid water. Proceedings of the National Academy of Sciences. 116(4), 1110–1115.","mla":"Cheng, Bingqing, et al. “Ab Initio Thermodynamics of Liquid and Solid Water.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 4, National Academy of Sciences, 2019, pp. 1110–15, doi:<a href=\"https://doi.org/10.1073/pnas.1815117116\">10.1073/pnas.1815117116</a>."},"status":"public","type":"journal_article","pmid":1,"arxiv":1,"author":[{"orcid":"0000-0002-3584-9632","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing","full_name":"Cheng, Bingqing"},{"first_name":"Edgar A.","full_name":"Engel, Edgar A.","last_name":"Engel"},{"last_name":"Behler","first_name":"Jörg","full_name":"Behler, Jörg"},{"first_name":"Christoph","full_name":"Dellago, Christoph","last_name":"Dellago"},{"last_name":"Ceriotti","full_name":"Ceriotti, Michele","first_name":"Michele"}],"month":"01","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","oa_version":"Published Version","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1815117116","open_access":"1"}],"day":"22","language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","issue":"4","article_processing_charge":"No","oa":1,"date_updated":"2023-02-23T14:05:08Z","title":"Ab initio thermodynamics of liquid and solid water","scopus_import":"1","intvolume":"       116"},{"oa_version":"Published Version","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1713892115","open_access":"1"}],"day":"09","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"04","author":[{"first_name":"Pascal","full_name":"Buri, Pascal","last_name":"Buri"},{"last_name":"Pellicciotti","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","full_name":"Pellicciotti, Francesca"}],"status":"public","type":"journal_article","intvolume":"       115","scopus_import":"1","title":"Aspect controls the survival of ice cliffs on debris-covered glaciers","oa":1,"date_updated":"2023-02-28T11:35:18Z","issue":"17","article_processing_charge":"No","publication":"PNAS","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Supraglacial ice cliffs exist on debris-covered glaciers worldwide, but despite their importance as melt hot spots, their life cycle is little understood. Early field observations had advanced a hypothesis of survival of north-facing and disappearance of south-facing cliffs, which is central for predicting the contribution of cliffs to total glacier mass losses. Their role as windows of energy transfer suggests they may explain the anomalously high mass losses of debris-covered glaciers in High Mountain Asia (HMA) despite the insulating debris, currently at the center of a debated controversy. We use a 3D model of cliff evolution coupled to very high-resolution topographic data to demonstrate that ice cliffs facing south (in the Northern Hemisphere) disappear within a few months due to enhanced solar radiation receipts and that aspect is the key control on cliffs evolution. We reproduce continuous flattening of south-facing cliffs, a result of their vertical gradient of incoming solar radiation and sky view factor. Our results establish that only north-facing cliffs are recurrent features and thus stable contributors to the melting of debris-covered glaciers. Satellite observations and mass balance modeling confirms that few south-facing cliffs of small size exist on the glaciers of Langtang, and their contribution to the glacier volume losses is very small (∼1%). This has major implications for the mass balance of HMA debris-covered glaciers as it provides the basis for new parameterizations of cliff evolution and distribution to constrain volume losses in a region where glaciers are highly relevant as water sources for millions of people."}],"publication_status":"published","extern":"1","page":"4369-4374","quality_controlled":"1","volume":115,"publisher":"Proceedings of the National Academy of Sciences","date_published":"2018-04-09T00:00:00Z","citation":{"apa":"Buri, P., &#38; Pellicciotti, F. (2018). Aspect controls the survival of ice cliffs on debris-covered glaciers. <i>PNAS</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1713892115\">https://doi.org/10.1073/pnas.1713892115</a>","short":"P. Buri, F. Pellicciotti, PNAS 115 (2018) 4369–4374.","ieee":"P. Buri and F. Pellicciotti, “Aspect controls the survival of ice cliffs on debris-covered glaciers,” <i>PNAS</i>, vol. 115, no. 17. Proceedings of the National Academy of Sciences, pp. 4369–4374, 2018.","ama":"Buri P, Pellicciotti F. Aspect controls the survival of ice cliffs on debris-covered glaciers. <i>PNAS</i>. 2018;115(17):4369-4374. doi:<a href=\"https://doi.org/10.1073/pnas.1713892115\">10.1073/pnas.1713892115</a>","chicago":"Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival of Ice Cliffs on Debris-Covered Glaciers.” <i>PNAS</i>. Proceedings of the National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1713892115\">https://doi.org/10.1073/pnas.1713892115</a>.","mla":"Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival of Ice Cliffs on Debris-Covered Glaciers.” <i>PNAS</i>, vol. 115, no. 17, Proceedings of the National Academy of Sciences, 2018, pp. 4369–74, doi:<a href=\"https://doi.org/10.1073/pnas.1713892115\">10.1073/pnas.1713892115</a>.","ista":"Buri P, Pellicciotti F. 2018. Aspect controls the survival of ice cliffs on debris-covered glaciers. PNAS. 115(17), 4369–4374."},"date_created":"2023-02-20T08:13:41Z","year":"2018","doi":"10.1073/pnas.1713892115","article_type":"original","_id":"12607"},{"external_id":{"pmid":["29717041"]},"abstract":[{"text":"Efficient molecular switching in confined spaces is critical for the successful development of artificial molecular machines. However, molecular switching events often entail large structural changes and therefore require conformational freedom, which is typically limited under confinement conditions. Here, we investigated the behavior of azobenzene—the key building block of light-controlled molecular machines—in a confined environment that is flexible and can adapt its shape to that of the bound guest. To this end, we encapsulated several structurally diverse azobenzenes within the cavity of a flexible, water-soluble coordination cage, and investigated their light-responsive behavior. Using UV/Vis absorption spectroscopy and a combination of NMR methods, we showed that each of the encapsulated azobenzenes exhibited distinct switching properties. An azobenzene forming a 1:1 host–guest inclusion complex could be efficiently photoisomerized in a reversible fashion. In contrast, successful switching in inclusion complexes incorporating two azobenzene guests was dependent on the availability of free cages in the system, and it involved reversible trafficking of azobenzene between the cages. In the absence of extra cages, photoswitching was either suppressed or it involved expulsion of azobenzene from the cage and consequently its precipitation from the solution. This finding was utilized to develop an information storage medium in which messages could be written and erased in a reversible fashion using light.","lang":"eng"}],"publication_status":"published","extern":"1","page":"9379-9384","quality_controlled":"1","volume":115,"publisher":"Proceedings of the National Academy of Sciences","date_published":"2018-05-01T00:00:00Z","citation":{"apa":"Samanta, D., Gemen, J., Chu, Z., Diskin-Posner, Y., Shimon, L. J. W., &#38; Klajn, R. (2018). Reversible photoswitching of encapsulated azobenzenes in water. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1712787115\">https://doi.org/10.1073/pnas.1712787115</a>","ama":"Samanta D, Gemen J, Chu Z, Diskin-Posner Y, Shimon LJW, Klajn R. Reversible photoswitching of encapsulated azobenzenes in water. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(38):9379-9384. doi:<a href=\"https://doi.org/10.1073/pnas.1712787115\">10.1073/pnas.1712787115</a>","ieee":"D. Samanta, J. Gemen, Z. Chu, Y. Diskin-Posner, L. J. W. Shimon, and R. Klajn, “Reversible photoswitching of encapsulated azobenzenes in water,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 38. Proceedings of the National Academy of Sciences, pp. 9379–9384, 2018.","short":"D. Samanta, J. Gemen, Z. Chu, Y. Diskin-Posner, L.J.W. Shimon, R. Klajn, Proceedings of the National Academy of Sciences 115 (2018) 9379–9384.","mla":"Samanta, Dipak, et al. “Reversible Photoswitching of Encapsulated Azobenzenes in Water.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 38, Proceedings of the National Academy of Sciences, 2018, pp. 9379–84, doi:<a href=\"https://doi.org/10.1073/pnas.1712787115\">10.1073/pnas.1712787115</a>.","chicago":"Samanta, Dipak, Julius Gemen, Zonglin Chu, Yael Diskin-Posner, Linda J. W. Shimon, and Rafal Klajn. “Reversible Photoswitching of Encapsulated Azobenzenes in Water.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1712787115\">https://doi.org/10.1073/pnas.1712787115</a>.","ista":"Samanta D, Gemen J, Chu Z, Diskin-Posner Y, Shimon LJW, Klajn R. 2018. Reversible photoswitching of encapsulated azobenzenes in water. Proceedings of the National Academy of Sciences. 115(38), 9379–9384."},"date_created":"2023-08-01T09:40:00Z","keyword":["Multidisciplinary"],"year":"2018","doi":"10.1073/pnas.1712787115","_id":"13376","article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1712787115"}],"oa_version":"Published Version","day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"05","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"author":[{"last_name":"Samanta","full_name":"Samanta, Dipak","first_name":"Dipak"},{"first_name":"Julius","full_name":"Gemen, Julius","last_name":"Gemen"},{"last_name":"Chu","first_name":"Zonglin","full_name":"Chu, Zonglin"},{"last_name":"Diskin-Posner","full_name":"Diskin-Posner, Yael","first_name":"Yael"},{"full_name":"Shimon, Linda J. W.","first_name":"Linda J. W.","last_name":"Shimon"},{"first_name":"Rafal","full_name":"Klajn, Rafal","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","last_name":"Klajn"}],"pmid":1,"status":"public","type":"journal_article","intvolume":"       115","scopus_import":"1","title":"Reversible photoswitching of encapsulated azobenzenes in water","oa":1,"date_updated":"2023-08-07T10:58:11Z","issue":"38","article_processing_charge":"No","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}]},{"isi":1,"scopus_import":"1","intvolume":"       115","oa":1,"date_updated":"2023-09-19T14:35:36Z","issue":"32","article_processing_charge":"No","title":"“Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive mechanisms of the midbrain stimulus selection network","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"month":"08","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/30026198"}],"oa_version":"Submitted Version","day":"07","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"last_name":"Garrido-Charad","first_name":"Florencia","full_name":"Garrido-Charad, Florencia"},{"first_name":"Tomas A","full_name":"Vega Zuniga, Tomas A","id":"2E7C4E78-F248-11E8-B48F-1D18A9856A87","last_name":"Vega Zuniga"},{"last_name":"Gutiérrez-Ibáñez","full_name":"Gutiérrez-Ibáñez, Cristián","first_name":"Cristián"},{"first_name":"Pedro","full_name":"Fernandez, Pedro","last_name":"Fernandez"},{"full_name":"López-Jury, Luciana","first_name":"Luciana","last_name":"López-Jury"},{"full_name":"González-Cabrera, Cristian","first_name":"Cristian","last_name":"González-Cabrera"},{"full_name":"Karten, Harvey J.","first_name":"Harvey J.","last_name":"Karten"},{"last_name":"Luksch","full_name":"Luksch, Harald","first_name":"Harald"},{"last_name":"Marín","first_name":"Gonzalo J.","full_name":"Marín, Gonzalo J."}],"pmid":1,"status":"public","type":"journal_article","year":"2018","date_created":"2019-02-14T14:33:34Z","citation":{"apa":"Garrido-Charad, F., Vega Zuniga, T. A., Gutiérrez-Ibáñez, C., Fernandez, P., López-Jury, L., González-Cabrera, C., … Marín, G. J. (2018). “Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive mechanisms of the midbrain stimulus selection network. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1804517115\">https://doi.org/10.1073/pnas.1804517115</a>","short":"F. Garrido-Charad, T.A. Vega Zuniga, C. Gutiérrez-Ibáñez, P. Fernandez, L. López-Jury, C. González-Cabrera, H.J. Karten, H. Luksch, G.J. Marín, Proceedings of the National Academy of Sciences 115 (2018) E7615–E7623.","ama":"Garrido-Charad F, Vega Zuniga TA, Gutiérrez-Ibáñez C, et al. “Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive mechanisms of the midbrain stimulus selection network. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(32):E7615-E7623. doi:<a href=\"https://doi.org/10.1073/pnas.1804517115\">10.1073/pnas.1804517115</a>","ieee":"F. Garrido-Charad <i>et al.</i>, ““Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive mechanisms of the midbrain stimulus selection network,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 32. National Academy of Sciences, pp. E7615–E7623, 2018.","chicago":"Garrido-Charad, Florencia, Tomas A Vega Zuniga, Cristián Gutiérrez-Ibáñez, Pedro Fernandez, Luciana López-Jury, Cristian González-Cabrera, Harvey J. Karten, Harald Luksch, and Gonzalo J. Marín. ““Shepherd’s Crook” Neurons Drive and Synchronize the Enhancing and Suppressive Mechanisms of the Midbrain Stimulus Selection Network.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1804517115\">https://doi.org/10.1073/pnas.1804517115</a>.","mla":"Garrido-Charad, Florencia, et al. ““Shepherd’s Crook” Neurons Drive and Synchronize the Enhancing and Suppressive Mechanisms of the Midbrain Stimulus Selection Network.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 32, National Academy of Sciences, 2018, pp. E7615–23, doi:<a href=\"https://doi.org/10.1073/pnas.1804517115\">10.1073/pnas.1804517115</a>.","ista":"Garrido-Charad F, Vega Zuniga TA, Gutiérrez-Ibáñez C, Fernandez P, López-Jury L, González-Cabrera C, Karten HJ, Luksch H, Marín GJ. 2018. “Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive mechanisms of the midbrain stimulus selection network. Proceedings of the National Academy of Sciences. 115(32), E7615–E7623."},"doi":"10.1073/pnas.1804517115","_id":"6010","external_id":{"pmid":["30026198"],"isi":["000440982000020"]},"abstract":[{"lang":"eng","text":"The optic tectum (TeO), or superior colliculus, is a multisensory midbrain center that organizes spatially orienting responses to relevant stimuli. To define the stimulus with the highest priority at each moment, a network of reciprocal connections between the TeO and the isthmi promotes competition between concurrent tectal inputs. In the avian midbrain, the neurons mediating enhancement and suppression of tectal inputs are located in separate isthmic nuclei, facilitating the analysis of the neural processes that mediate competition. A specific subset of radial neurons in the intermediate tectal layers relay retinal inputs to the isthmi, but at present it is unclear whether separate neurons innervate individual nuclei or a single neural type sends a common input to several of them. In this study, we used in vitro neural tracing and cell-filling experiments in chickens to show that single neurons innervate, via axon collaterals, the three nuclei that comprise the isthmotectal network. This demonstrates that the input signals representing the strength of the incoming stimuli are simultaneously relayed to the mechanisms promoting both enhancement and suppression of the input signals. By performing in vivo recordings in anesthetized chicks, we also show that this common input generates synchrony between both antagonistic mechanisms, demonstrating that activity enhancement and suppression are closely coordinated. From a computational point of view, these results suggest that these tectal neurons constitute integrative nodes that combine inputs from different sources to drive in parallel several concurrent neural processes, each performing complementary functions within the network through different firing patterns and connectivity."}],"publication_status":"published","publisher":"National Academy of Sciences","date_published":"2018-08-07T00:00:00Z","department":[{"_id":"MaJö"}],"page":"E7615-E7623","quality_controlled":"1","volume":115},{"type":"journal_article","status":"public","pmid":1,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file":[{"checksum":"810260dc0e3cc3033e15c19ad0dc123e","file_name":"2018_PNAS_Frost.pdf","file_id":"9472","success":1,"date_updated":"2021-06-07T06:16:38Z","date_created":"2021-06-07T06:16:38Z","creator":"asandaue","file_size":3045260,"content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"day":"15","oa_version":"Published Version","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"05","author":[{"last_name":"Frost","full_name":"Frost, Jennifer M.","first_name":"Jennifer M."},{"first_name":"M. Yvonne","full_name":"Kim, M. Yvonne","last_name":"Kim"},{"last_name":"Park","first_name":"Guen Tae","full_name":"Park, Guen Tae"},{"last_name":"Hsieh","first_name":"Ping-Hung","full_name":"Hsieh, Ping-Hung"},{"last_name":"Nakamura","first_name":"Miyuki","full_name":"Nakamura, Miyuki"},{"last_name":"Lin","first_name":"Samuel J. H.","full_name":"Lin, Samuel J. H."},{"last_name":"Yoo","full_name":"Yoo, Hyunjin","first_name":"Hyunjin"},{"full_name":"Choi, Jaemyung","first_name":"Jaemyung","last_name":"Choi"},{"last_name":"Ikeda","first_name":"Yoko","full_name":"Ikeda, Yoko"},{"last_name":"Kinoshita","first_name":"Tetsu","full_name":"Kinoshita, Tetsu"},{"last_name":"Choi","full_name":"Choi, Yeonhee","first_name":"Yeonhee"},{"full_name":"Zilberman, Daniel","first_name":"Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","orcid":"0000-0002-0123-8649"},{"last_name":"Fischer","first_name":"Robert L.","full_name":"Fischer, Robert L."}],"publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"has_accepted_license":"1","scopus_import":"1","intvolume":"       115","title":"FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis","article_processing_charge":"No","issue":"20","oa":1,"date_updated":"2021-12-14T07:53:40Z","quality_controlled":"1","volume":115,"extern":"1","page":"E4720-E4729","department":[{"_id":"DaZi"}],"date_published":"2018-05-15T00:00:00Z","publisher":"National Academy of Sciences","abstract":[{"lang":"eng","text":"The DEMETER (DME) DNA glycosylase catalyzes genome-wide DNA demethylation and is required for endosperm genomic imprinting and embryo viability. Targets of DME-mediated DNA demethylation reside in small, euchromatic, AT-rich transposons and at the boundaries of large transposons, but how DME interacts with these diverse chromatin states is unknown. The STRUCTURE SPECIFIC RECOGNITION PROTEIN 1 (SSRP1) subunit of the chromatin remodeler FACT (facilitates chromatin transactions), was previously shown to be involved in the DME-dependent regulation of genomic imprinting in Arabidopsis endosperm. Therefore, to investigate the interaction between DME and chromatin, we focused on the activity of the two FACT subunits, SSRP1 and SUPPRESSOR of TY16 (SPT16), during reproduction in Arabidopsis. We found that FACT colocalizes with nuclear DME in vivo, and that DME has two classes of target sites, the first being euchromatic and accessible to DME, but the second, representing over half of DME targets, requiring the action of FACT for DME-mediated DNA demethylation genome-wide. Our results show that the FACT-dependent DME targets are GC-rich heterochromatin domains with high nucleosome occupancy enriched with H3K9me2 and H3K27me1. Further, we demonstrate that heterochromatin-associated linker histone H1 specifically mediates the requirement for FACT at a subset of DME-target loci. Overall, our results demonstrate that FACT is required for DME targeting by facilitating its access to heterochromatin."}],"external_id":{"pmid":["29712855"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"ddc":["580"],"publication_status":"published","doi":"10.1073/pnas.1713333115","_id":"9471","article_type":"original","file_date_updated":"2021-06-07T06:16:38Z","related_material":{"link":[{"relation":"earlier_version","url":"https://doi.org/10.1101/187674 "}]},"keyword":["Multidisciplinary"],"date_created":"2021-06-07T06:11:28Z","citation":{"mla":"Frost, Jennifer M., et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 20, National Academy of Sciences, 2018, pp. E4720–29, doi:<a href=\"https://doi.org/10.1073/pnas.1713333115\">10.1073/pnas.1713333115</a>.","ista":"Frost JM, Kim MY, Park GT, Hsieh P-H, Nakamura M, Lin SJH, Yoo H, Choi J, Ikeda Y, Kinoshita T, Choi Y, Zilberman D, Fischer RL. 2018. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. 115(20), E4720–E4729.","chicago":"Frost, Jennifer M., M. Yvonne Kim, Guen Tae Park, Ping-Hung Hsieh, Miyuki Nakamura, Samuel J. H. Lin, Hyunjin Yoo, et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1713333115\">https://doi.org/10.1073/pnas.1713333115</a>.","short":"J.M. Frost, M.Y. Kim, G.T. Park, P.-H. Hsieh, M. Nakamura, S.J.H. Lin, H. Yoo, J. Choi, Y. Ikeda, T. Kinoshita, Y. Choi, D. Zilberman, R.L. Fischer, Proceedings of the National Academy of Sciences 115 (2018) E4720–E4729.","ama":"Frost JM, Kim MY, Park GT, et al. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(20):E4720-E4729. doi:<a href=\"https://doi.org/10.1073/pnas.1713333115\">10.1073/pnas.1713333115</a>","ieee":"J. M. Frost <i>et al.</i>, “FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 20. National Academy of Sciences, pp. E4720–E4729, 2018.","apa":"Frost, J. M., Kim, M. Y., Park, G. T., Hsieh, P.-H., Nakamura, M., Lin, S. J. H., … Fischer, R. L. (2018). FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1713333115\">https://doi.org/10.1073/pnas.1713333115</a>"},"year":"2018"},{"language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","title":"Inhibitory engrams in perception and memory","oa":1,"date_updated":"2021-01-12T08:16:33Z","issue":"26","article_processing_charge":"No","intvolume":"       114","pmid":1,"type":"journal_article","status":"public","author":[{"last_name":"Barron","first_name":"Helen C.","full_name":"Barron, Helen C."},{"orcid":"0000-0003-3295-6181","last_name":"Vogels","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","full_name":"Vogels, Tim P","first_name":"Tim P"},{"first_name":"Timothy E.","full_name":"Behrens, Timothy E.","last_name":"Behrens"},{"last_name":"Ramaswami","first_name":"Mani","full_name":"Ramaswami, Mani"}],"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5495250/","open_access":"1"}],"day":"27","oa_version":"Published Version","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"06","article_type":"original","_id":"8018","doi":"10.1073/pnas.1701812114","date_created":"2020-06-25T12:56:58Z","citation":{"chicago":"Barron, Helen C., Tim P Vogels, Timothy E. Behrens, and Mani Ramaswami. “Inhibitory Engrams in Perception and Memory.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1701812114\">https://doi.org/10.1073/pnas.1701812114</a>.","mla":"Barron, Helen C., et al. “Inhibitory Engrams in Perception and Memory.” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 26, Proceedings of the National Academy of Sciences, 2017, pp. 6666–74, doi:<a href=\"https://doi.org/10.1073/pnas.1701812114\">10.1073/pnas.1701812114</a>.","ista":"Barron HC, Vogels TP, Behrens TE, Ramaswami M. 2017. Inhibitory engrams in perception and memory. Proceedings of the National Academy of Sciences. 114(26), 6666–6674.","ieee":"H. C. Barron, T. P. Vogels, T. E. Behrens, and M. Ramaswami, “Inhibitory engrams in perception and memory,” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 26. Proceedings of the National Academy of Sciences, pp. 6666–6674, 2017.","ama":"Barron HC, Vogels TP, Behrens TE, Ramaswami M. Inhibitory engrams in perception and memory. <i>Proceedings of the National Academy of Sciences</i>. 2017;114(26):6666-6674. doi:<a href=\"https://doi.org/10.1073/pnas.1701812114\">10.1073/pnas.1701812114</a>","short":"H.C. Barron, T.P. Vogels, T.E. Behrens, M. Ramaswami, Proceedings of the National Academy of Sciences 114 (2017) 6666–6674.","apa":"Barron, H. C., Vogels, T. P., Behrens, T. E., &#38; Ramaswami, M. (2017). Inhibitory engrams in perception and memory. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1701812114\">https://doi.org/10.1073/pnas.1701812114</a>"},"year":"2017","extern":"1","page":"6666-6674","quality_controlled":"1","volume":114,"publisher":"Proceedings of the National Academy of Sciences","date_published":"2017-06-27T00:00:00Z","publication_status":"published","external_id":{"pmid":["28611219"]},"abstract":[{"text":"Nervous systems use excitatory cell assemblies to encode and represent sensory percepts. Similarly, synaptically connected cell assemblies or \"engrams\" are thought to represent memories of past experience. Multiple lines of recent evidence indicate that brain systems create and use inhibitory replicas of excitatory representations for important cognitive functions. Such matched \"inhibitory engrams\" can form through homeostatic potentiation of inhibition onto postsynaptic cells that show increased levels of excitation. Inhibitory engrams can reduce behavioral responses to familiar stimuli, thereby resulting in behavioral habituation. In addition, by preventing inappropriate activation of excitatory memory engrams, inhibitory engrams can make memories quiescent, stored in a latent form that is available for context-relevant activation. In neural networks with balanced excitatory and inhibitory engrams, the release of innate responses and recall of associative memories can occur through focused disinhibition. Understanding mechanisms that regulate the formation and expression of inhibitory engrams in vivo may help not only to explain key features of cognition but also to provide insight into transdiagnostic traits associated with psychiatric conditions such as autism, schizophrenia, and posttraumatic stress disorder. ","lang":"eng"}]},{"pmid":1,"type":"journal_article","status":"public","main_file_link":[{"open_access":"1","url":"https://www.pnas.org/content/114/19/4911"}],"day":"24","oa_version":"Published Version","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"04","author":[{"last_name":"Wirnsberger","first_name":"Peter","full_name":"Wirnsberger, Peter"},{"first_name":"Domagoj","full_name":"Fijan, Domagoj","last_name":"Fijan"},{"last_name":"Lightwood","full_name":"Lightwood, Roger A.","first_name":"Roger A."},{"full_name":"Šarić, Anđela","first_name":"Anđela","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","last_name":"Šarić"},{"last_name":"Dellago","full_name":"Dellago, Christoph","first_name":"Christoph"},{"first_name":"Daan","full_name":"Frenkel, Daan","last_name":"Frenkel"}],"arxiv":1,"publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"scopus_import":"1","intvolume":"       114","title":"Numerical evidence for thermally induced monopoles","date_updated":"2021-11-29T09:59:12Z","oa":1,"article_processing_charge":"No","issue":"19","extern":"1","page":"4911-4914","quality_controlled":"1","volume":114,"publisher":"National Academy of Sciences","date_published":"2017-04-24T00:00:00Z","external_id":{"arxiv":["1610.06840"],"pmid":["28439003"]},"abstract":[{"lang":"eng","text":"Electric charges are conserved. The same would be expected to hold for magnetic charges, yet magnetic monopoles have never been observed. It is therefore surprising that the laws of nonequilibrium thermodynamics, combined with Maxwell’s equations, suggest that colloidal particles heated or cooled in certain polar or paramagnetic solvents may behave as if they carry an electric/magnetic charge. Here, we present numerical simulations that show that the field distribution around a pair of such heated/cooled colloidal particles agrees quantitatively with the theoretical predictions for a pair of oppositely charged electric or magnetic monopoles. However, in other respects, the nonequilibrium colloidal particles do not behave as monopoles: They cannot be moved by a homogeneous applied field. The numerical evidence for the monopole-like fields around heated/cooled colloidal particles is crucial because the experimental and numerical determination of forces between such colloidal particles would be complicated by the presence of other effects, such as thermophoresis."}],"publication_status":"published","doi":"10.1073/pnas.1621494114","article_type":"original","_id":"10373","date_created":"2021-11-29T09:28:24Z","citation":{"apa":"Wirnsberger, P., Fijan, D., Lightwood, R. A., Šarić, A., Dellago, C., &#38; Frenkel, D. (2017). Numerical evidence for thermally induced monopoles. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1621494114\">https://doi.org/10.1073/pnas.1621494114</a>","ama":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. Numerical evidence for thermally induced monopoles. <i>Proceedings of the National Academy of Sciences</i>. 2017;114(19):4911-4914. doi:<a href=\"https://doi.org/10.1073/pnas.1621494114\">10.1073/pnas.1621494114</a>","ieee":"P. Wirnsberger, D. Fijan, R. A. Lightwood, A. Šarić, C. Dellago, and D. Frenkel, “Numerical evidence for thermally induced monopoles,” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 19. National Academy of Sciences, pp. 4911–4914, 2017.","short":"P. Wirnsberger, D. Fijan, R.A. Lightwood, A. Šarić, C. Dellago, D. Frenkel, Proceedings of the National Academy of Sciences 114 (2017) 4911–4914.","chicago":"Wirnsberger, Peter, Domagoj Fijan, Roger A. Lightwood, Anđela Šarić, Christoph Dellago, and Daan Frenkel. “Numerical Evidence for Thermally Induced Monopoles.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1621494114\">https://doi.org/10.1073/pnas.1621494114</a>.","mla":"Wirnsberger, Peter, et al. “Numerical Evidence for Thermally Induced Monopoles.” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 19, National Academy of Sciences, 2017, pp. 4911–14, doi:<a href=\"https://doi.org/10.1073/pnas.1621494114\">10.1073/pnas.1621494114</a>.","ista":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. 2017. Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences. 114(19), 4911–4914."},"keyword":["multidisciplinary"],"acknowledgement":"P.W. acknowledges many invaluable discussions with Martin Neumann, Chao Zhang, Michiel Sprik, Aleks Reinhardt, Carl Pölking, and Tine Curk. We acknowledge financial support from the Austrian Academy of Sciences through a doctoral (DOC) fellowship (to P.W.), the Austrian Science Fund (FWF) within the Spezialforschungsbereich Vienna Computational Materials Laboratory (Project F41) (C.D.), and the European Union Early Training Network NANOTRANS (Grant 674979 to D. Frenkel). The results presented here have been achieved in part using the Vienna Scientific Cluster.","year":"2017"},{"intvolume":"       113","scopus_import":"1","title":"Contrasting climate change impact on river flows from high-altitude catchments in the Himalayan and Andes Mountains","article_processing_charge":"No","issue":"33","date_updated":"2023-02-24T10:48:43Z","oa":1,"publication":"PNAS","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","day":"01","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1606526113"}],"publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"08","author":[{"full_name":"Ragettli, Silvan","first_name":"Silvan","last_name":"Ragettli"},{"first_name":"Walter W.","full_name":"Immerzeel, Walter W.","last_name":"Immerzeel"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","last_name":"Pellicciotti","first_name":"Francesca","full_name":"Pellicciotti, Francesca"}],"status":"public","type":"journal_article","pmid":1,"keyword":["Multidisciplinary"],"citation":{"apa":"Ragettli, S., Immerzeel, W. W., &#38; Pellicciotti, F. (2016). Contrasting climate change impact on river flows from high-altitude catchments in the Himalayan and Andes Mountains. <i>PNAS</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1606526113\">https://doi.org/10.1073/pnas.1606526113</a>","mla":"Ragettli, Silvan, et al. “Contrasting Climate Change Impact on River Flows from High-Altitude Catchments in the Himalayan and Andes Mountains.” <i>PNAS</i>, vol. 113, no. 33, Proceedings of the National Academy of Sciences, 2016, pp. 9222–27, doi:<a href=\"https://doi.org/10.1073/pnas.1606526113\">10.1073/pnas.1606526113</a>.","ista":"Ragettli S, Immerzeel WW, Pellicciotti F. 2016. Contrasting climate change impact on river flows from high-altitude catchments in the Himalayan and Andes Mountains. PNAS. 113(33), 9222–9227.","chicago":"Ragettli, Silvan, Walter W. Immerzeel, and Francesca Pellicciotti. “Contrasting Climate Change Impact on River Flows from High-Altitude Catchments in the Himalayan and Andes Mountains.” <i>PNAS</i>. Proceedings of the National Academy of Sciences, 2016. <a href=\"https://doi.org/10.1073/pnas.1606526113\">https://doi.org/10.1073/pnas.1606526113</a>.","short":"S. Ragettli, W.W. Immerzeel, F. Pellicciotti, PNAS 113 (2016) 9222–9227.","ieee":"S. Ragettli, W. W. Immerzeel, and F. Pellicciotti, “Contrasting climate change impact on river flows from high-altitude catchments in the Himalayan and Andes Mountains,” <i>PNAS</i>, vol. 113, no. 33. Proceedings of the National Academy of Sciences, pp. 9222–9227, 2016.","ama":"Ragettli S, Immerzeel WW, Pellicciotti F. Contrasting climate change impact on river flows from high-altitude catchments in the Himalayan and Andes Mountains. <i>PNAS</i>. 2016;113(33):9222-9227. doi:<a href=\"https://doi.org/10.1073/pnas.1606526113\">10.1073/pnas.1606526113</a>"},"date_created":"2023-02-20T08:14:58Z","year":"2016","doi":"10.1073/pnas.1606526113","article_type":"original","_id":"12618","abstract":[{"lang":"eng","text":"Mountain ranges are the world’s natural water towers and provide water resources for millions of people. However, their hydrological balance and possible future changes in river flow remain poorly understood because of high meteorological variability, physical inaccessibility, and the complex interplay between climate, cryosphere, and hydrological processes. Here, we use a state-of-the art glacio-hydrological model informed by data from high-altitude observations and the latest climate change scenarios to quantify the climate change impact on water resources of two contrasting catchments vulnerable to changes in the cryosphere. The two study catchments are located in the Central Andes of Chile and in the Nepalese Himalaya in close vicinity of densely populated areas. Although both sites reveal a strong decrease in glacier area, they show a remarkably different hydrological response to projected climate change. In the Juncal catchment in Chile, runoff is likely to sharply decrease in the future and the runoff seasonality is sensitive to projected climatic changes. In the Langtang catchment in Nepal, future water availability is on the rise for decades to come with limited shifts between seasons. Owing to the high spatiotemporal resolution of the simulations and process complexity included in the modeling, the response times and the mechanisms underlying the variations in glacier area and river flow can be well constrained. The projections indicate that climate change adaptation in Central Chile should focus on dealing with a reduction in water availability, whereas in Nepal preparedness for flood extremes should be the policy priority."}],"external_id":{"pmid":["27482082"]},"publication_status":"published","volume":113,"quality_controlled":"1","extern":"1","page":"9222-9227","date_published":"2016-08-01T00:00:00Z","publisher":"Proceedings of the National Academy of Sciences"},{"article_type":"original","_id":"14304","doi":"10.1073/pnas.1612720113","year":"2016","citation":{"short":"T.G. Martin, T.A.M. Bharat, A.C. Joerger, X. Bai, F.M. Praetorius, A.R. Fersht, H. Dietz, S.H.W. Scheres, PNAS 113 (2016) E7456–E7463.","ieee":"T. G. Martin <i>et al.</i>, “Design of a molecular support for cryo-EM structure determination,” <i>PNAS</i>, vol. 113, no. 47. Proceedings of the National Academy of Sciences, pp. E7456–E7463, 2016.","ama":"Martin TG, Bharat TAM, Joerger AC, et al. Design of a molecular support for cryo-EM structure determination. <i>PNAS</i>. 2016;113(47):E7456-E7463. doi:<a href=\"https://doi.org/10.1073/pnas.1612720113\">10.1073/pnas.1612720113</a>","ista":"Martin TG, Bharat TAM, Joerger AC, Bai X, Praetorius FM, Fersht AR, Dietz H, Scheres SHW. 2016. Design of a molecular support for cryo-EM structure determination. PNAS. 113(47), E7456–E7463.","mla":"Martin, Thomas G., et al. “Design of a Molecular Support for Cryo-EM Structure Determination.” <i>PNAS</i>, vol. 113, no. 47, Proceedings of the National Academy of Sciences, 2016, pp. E7456–63, doi:<a href=\"https://doi.org/10.1073/pnas.1612720113\">10.1073/pnas.1612720113</a>.","chicago":"Martin, Thomas G., Tanmay A. M. Bharat, Andreas C. Joerger, Xiao-chen Bai, Florian M Praetorius, Alan R. Fersht, Hendrik Dietz, and Sjors H. W. Scheres. “Design of a Molecular Support for Cryo-EM Structure Determination.” <i>PNAS</i>. Proceedings of the National Academy of Sciences, 2016. <a href=\"https://doi.org/10.1073/pnas.1612720113\">https://doi.org/10.1073/pnas.1612720113</a>.","apa":"Martin, T. G., Bharat, T. A. M., Joerger, A. C., Bai, X., Praetorius, F. M., Fersht, A. R., … Scheres, S. H. W. (2016). Design of a molecular support for cryo-EM structure determination. <i>PNAS</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1612720113\">https://doi.org/10.1073/pnas.1612720113</a>"},"date_created":"2023-09-06T12:53:48Z","date_published":"2016-10-13T00:00:00Z","publisher":"Proceedings of the National Academy of Sciences","quality_controlled":"1","volume":113,"extern":"1","page":"E7456-E7463","publication_status":"published","abstract":[{"text":"Despite the recent rapid progress in cryo-electron microscopy (cryo-EM), there still exist ample opportunities for improvement in sample preparation. Macromolecular complexes may disassociate or adopt nonrandom orientations against the extended air–water interface that exists for a short time before the sample is frozen. We designed a hollow support structure using 3D DNA origami to protect complexes from the detrimental effects of cryo-EM sample preparation. For a first proof-of-principle, we concentrated on the transcription factor p53, which binds to specific DNA sequences on double-stranded DNA. The support structures spontaneously form monolayers of preoriented particles in a thin film of water, and offer advantages in particle picking and sorting. By controlling the position of the binding sequence on a single helix that spans the hollow support structure, we also sought to control the orientation of individual p53 complexes. Although the latter did not yet yield the desired results, the support structures did provide partial information about the relative orientations of individual p53 complexes. We used this information to calculate a tomographic 3D reconstruction, and refined this structure to a final resolution of ∼15 Å. This structure settles an ongoing debate about the symmetry of the p53 tetramer bound to DNA.","lang":"eng"}],"external_id":{"pmid":["27821763"]},"language":[{"iso":"eng"}],"publication":"PNAS","issue":"47","article_processing_charge":"No","date_updated":"2023-11-07T11:53:06Z","title":"Design of a molecular support for cryo-EM structure determination","intvolume":"       113","scopus_import":"1","type":"journal_article","status":"public","pmid":1,"author":[{"full_name":"Martin, Thomas G.","first_name":"Thomas G.","last_name":"Martin"},{"full_name":"Bharat, Tanmay A. M.","first_name":"Tanmay A. M.","last_name":"Bharat"},{"first_name":"Andreas C.","full_name":"Joerger, Andreas C.","last_name":"Joerger"},{"last_name":"Bai","full_name":"Bai, Xiao-chen","first_name":"Xiao-chen"},{"last_name":"Praetorius","id":"dfec9381-4341-11ee-8fd8-faa02bba7d62","full_name":"Praetorius, Florian M","first_name":"Florian M"},{"last_name":"Fersht","full_name":"Fersht, Alan R.","first_name":"Alan R."},{"full_name":"Dietz, Hendrik","first_name":"Hendrik","last_name":"Dietz"},{"full_name":"Scheres, Sjors H. W.","first_name":"Sjors H. W.","last_name":"Scheres"}],"month":"10","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","day":"13"},{"day":"27","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1619074114","open_access":"1"}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"12","author":[{"last_name":"Hsieh","first_name":"Ping-Hung","full_name":"Hsieh, Ping-Hung"},{"first_name":"Shengbo","full_name":"He, Shengbo","last_name":"He"},{"full_name":"Buttress, Toby","first_name":"Toby","last_name":"Buttress"},{"last_name":"Gao","first_name":"Hongbo","full_name":"Gao, Hongbo"},{"last_name":"Couchman","first_name":"Matthew","full_name":"Couchman, Matthew"},{"first_name":"Robert L.","full_name":"Fischer, Robert L.","last_name":"Fischer"},{"first_name":"Daniel","full_name":"Zilberman, Daniel","orcid":"0000-0002-0123-8649","last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"},{"full_name":"Feng, Xiaoqi","first_name":"Xiaoqi","orcid":"0000-0002-4008-1234","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958"}],"pmid":1,"status":"public","type":"journal_article","scopus_import":"1","intvolume":"       113","title":"Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues","date_updated":"2023-05-08T11:00:40Z","oa":1,"article_processing_charge":"No","issue":"52","publication":"Proceedings of the National Academy of Sciences","language":[{"iso":"eng"}],"external_id":{"pmid":["27956643"]},"abstract":[{"lang":"eng","text":"Cytosine DNA methylation regulates the expression of eukaryotic genes and transposons. Methylation is copied by methyltransferases after DNA replication, which results in faithful transmission of methylation patterns during cell division and, at least in flowering plants, across generations. Transgenerational inheritance is mediated by a small group of cells that includes gametes and their progenitors. However, methylation is usually analyzed in somatic tissues that do not contribute to the next generation, and the mechanisms of transgenerational inheritance are inferred from such studies. To gain a better understanding of how DNA methylation is inherited, we analyzed purified Arabidopsis thaliana sperm and vegetative cells-the cell types that comprise pollen-with mutations in the DRM, CMT2, and CMT3 methyltransferases. We find that DNA methylation dependency on these enzymes is similar in sperm, vegetative cells, and somatic tissues, although DRM activity extends into heterochromatin in vegetative cells, likely reflecting transcription of heterochromatic transposons in this cell type. We also show that lack of histone H1, which elevates heterochromatic DNA methylation in somatic tissues, does not have this effect in pollen. Instead, levels of CG methylation in wild-type sperm and vegetative cells, as well as in wild-type microspores from which both pollen cell types originate, are substantially higher than in wild-type somatic tissues and similar to those of H1-depleted roots. Our results demonstrate that the mechanisms of methylation maintenance are similar between pollen and somatic cells, but the efficiency of CG methylation is higher in pollen, allowing methylation patterns to be accurately inherited across generations."}],"publication_status":"published","extern":"1","department":[{"_id":"DaZi"},{"_id":"XiFe"}],"page":"15132-15137","quality_controlled":"1","volume":113,"publisher":"National Academy of Sciences","date_published":"2016-12-27T00:00:00Z","date_created":"2021-06-07T06:21:39Z","citation":{"ieee":"P.-H. Hsieh <i>et al.</i>, “Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues,” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 52. National Academy of Sciences, pp. 15132–15137, 2016.","ama":"Hsieh P-H, He S, Buttress T, et al. Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues. <i>Proceedings of the National Academy of Sciences</i>. 2016;113(52):15132-15137. doi:<a href=\"https://doi.org/10.1073/pnas.1619074114\">10.1073/pnas.1619074114</a>","short":"P.-H. Hsieh, S. He, T. Buttress, H. Gao, M. Couchman, R.L. Fischer, D. Zilberman, X. Feng, Proceedings of the National Academy of Sciences 113 (2016) 15132–15137.","ista":"Hsieh P-H, He S, Buttress T, Gao H, Couchman M, Fischer RL, Zilberman D, Feng X. 2016. Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues. Proceedings of the National Academy of Sciences. 113(52), 15132–15137.","chicago":"Hsieh, Ping-Hung, Shengbo He, Toby Buttress, Hongbo Gao, Matthew Couchman, Robert L. Fischer, Daniel Zilberman, and Xiaoqi Feng. “Arabidopsis Male Sexual Lineage Exhibits More Robust Maintenance of CG Methylation than Somatic Tissues.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2016. <a href=\"https://doi.org/10.1073/pnas.1619074114\">https://doi.org/10.1073/pnas.1619074114</a>.","mla":"Hsieh, Ping-Hung, et al. “Arabidopsis Male Sexual Lineage Exhibits More Robust Maintenance of CG Methylation than Somatic Tissues.” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 52, National Academy of Sciences, 2016, pp. 15132–37, doi:<a href=\"https://doi.org/10.1073/pnas.1619074114\">10.1073/pnas.1619074114</a>.","apa":"Hsieh, P.-H., He, S., Buttress, T., Gao, H., Couchman, M., Fischer, R. L., … Feng, X. (2016). Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1619074114\">https://doi.org/10.1073/pnas.1619074114</a>"},"year":"2016","doi":"10.1073/pnas.1619074114","article_type":"original","_id":"9473"}]