[{"scopus_import":"1","volume":21,"article_number":"2459","oa":1,"intvolume":"        21","issue":"7","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication":"International journal of molecular sciences","file_date_updated":"2020-07-14T12:48:01Z","_id":"7664","external_id":{"pmid":["32252271"],"isi":["000535574200201"]},"date_created":"2020-04-19T22:00:55Z","title":"Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer's disease","date_updated":"2023-08-21T06:13:19Z","month":"04","article_processing_charge":"No","date_published":"2020-04-02T00:00:00Z","file":[{"date_updated":"2020-07-14T12:48:01Z","content_type":"application/pdf","file_size":2941197,"checksum":"b9d2f1657d8c4a74b01a62b474d009b0","relation":"main_file","access_level":"open_access","file_name":"2020_JournMolecSciences_Martin_Belmonte.pdf","file_id":"7669","date_created":"2020-04-20T11:43:18Z","creator":"dernst"}],"type":"journal_article","citation":{"ieee":"A. Martín-Belmonte <i>et al.</i>, “Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease,” <i>International journal of molecular sciences</i>, vol. 21, no. 7. MDPI, 2020.","short":"A. Martín-Belmonte, C. Aguado, R. Alfaro-Ruíz, A.E. Moreno-Martínez, L. De La Ossa, J. Martínez-Hernández, A. Buisson, R. Shigemoto, Y. Fukazawa, R. Luján, International Journal of Molecular Sciences 21 (2020).","apa":"Martín-Belmonte, A., Aguado, C., Alfaro-Ruíz, R., Moreno-Martínez, A. E., De La Ossa, L., Martínez-Hernández, J., … Luján, R. (2020). Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>","mla":"Martín-Belmonte, Alejandro, et al. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 7, 2459, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>.","ista":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, Moreno-Martínez AE, De La Ossa L, Martínez-Hernández J, Buisson A, Shigemoto R, Fukazawa Y, Luján R. 2020. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. International journal of molecular sciences. 21(7), 2459.","chicago":"Martín-Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro-Ruíz, Ana Esther Moreno-Martínez, Luis De La Ossa, José Martínez-Hernández, Alain Buisson, Ryuichi Shigemoto, Yugo Fukazawa, and Rafael Luján. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>.","ama":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, et al. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International journal of molecular sciences</i>. 2020;21(7). doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>"},"ddc":["570"],"article_type":"original","abstract":[{"lang":"eng","text":"Metabotropic γ-aminobutyric acid (GABAB) receptors contribute to the control of network activity and information processing in hippocampal circuits by regulating neuronal excitability and synaptic transmission. The dysfunction in the dentate gyrus (DG) has been implicated in Alzheimer´s disease (AD). Given the involvement of GABAB receptors in AD, to determine their subcellular localisation and possible alteration in granule cells of the DG in a mouse model of AD at 12 months of age, we used high-resolution immunoelectron microscopic analysis. Immunohistochemistry at the light microscopic level showed that the regional and cellular expression pattern of GABAB1 was similar in an AD model mouse expressing mutated human amyloid precursor protein and presenilin1 (APP/PS1) and in age-matched wild type mice. High-resolution immunoelectron microscopy revealed a distance-dependent gradient of immunolabelling for GABAB receptors, increasing from proximal to distal dendrites in both wild type and APP/PS1 mice. However, the overall density of GABAB receptors at the neuronal surface of these postsynaptic compartments of granule cells was significantly reduced in APP/PS1 mice. Parallel to this reduction in surface receptors, we found a significant increase in GABAB1 at cytoplasmic sites. GABAB receptors were also detected at presynaptic sites in the molecular layer of the DG. We also found a decrease in plasma membrane GABAB receptors in axon terminals contacting dendritic spines of granule cells, which was more pronounced in the outer than in the inner molecular layer. Altogether, our data showing post- and presynaptic reduction in surface GABAB receptors in the DG suggest the alteration of the GABAB-mediated modulation of excitability and synaptic transmission in granule cells, which may contribute to the cognitive dysfunctions in the APP/PS1 model of AD"}],"publication_status":"published","pmid":1,"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"quality_controlled":"1","doi":"10.3390/ijms21072459","oa_version":"Published Version","publisher":"MDPI","day":"02","department":[{"_id":"RySh"}],"publication_identifier":{"eissn":["14220067"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"year":"2020","isi":1,"author":[{"full_name":"Martín-Belmonte, Alejandro","last_name":"Martín-Belmonte","first_name":"Alejandro"},{"first_name":"Carolina","last_name":"Aguado","full_name":"Aguado, Carolina"},{"full_name":"Alfaro-Ruíz, Rocío","last_name":"Alfaro-Ruíz","first_name":"Rocío"},{"first_name":"Ana Esther","last_name":"Moreno-Martínez","full_name":"Moreno-Martínez, Ana Esther"},{"first_name":"Luis","last_name":"De La Ossa","full_name":"De La Ossa, Luis"},{"first_name":"José","last_name":"Martínez-Hernández","full_name":"Martínez-Hernández, José"},{"first_name":"Alain","last_name":"Buisson","full_name":"Buisson, Alain"},{"first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444"},{"first_name":"Yugo","last_name":"Fukazawa","full_name":"Fukazawa, Yugo"},{"full_name":"Luján, Rafael","last_name":"Luján","first_name":"Rafael"}]},{"publication":"Frontiers in Cellular Neuroscience","file_date_updated":"2020-07-14T12:48:01Z","external_id":{"isi":["000525582200001"]},"date_created":"2020-04-19T22:00:55Z","project":[{"name":"Ultrastructural analysis of phosphoinositides in nerve terminals: distribution, dynamics and physiological roles in synaptic transmission","grant_number":"793482","_id":"2659CC84-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"call_identifier":"H2020","_id":"25CA28EA-B435-11E9-9278-68D0E5697425","grant_number":"694539","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour"},{"grant_number":"I03600","_id":"265CB4D0-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Optical control of synaptic function via adhesion molecules"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"_id":"7665","month":"03","date_updated":"2023-08-21T06:12:48Z","title":"Advantages of acute brain slices prepared at physiological temperature in the characterization of synaptic functions","ec_funded":1,"article_processing_charge":"Yes (via OA deal)","date_published":"2020-03-19T00:00:00Z","scopus_import":"1","volume":14,"intvolume":"        14","oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_number":"63","oa_version":"Published Version","doi":"10.3389/fncel.2020.00063","day":"19","publisher":"Frontiers Media","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"JoDa"},{"_id":"RySh"}],"publication_identifier":{"issn":["16625102"]},"year":"2020","isi":1,"author":[{"last_name":"Eguchi","orcid":"0000-0002-6170-2546","full_name":"Eguchi, Kohgaku","first_name":"Kohgaku","id":"2B7846DC-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-2340-7431","full_name":"Velicky, Philipp","last_name":"Velicky","id":"39BDC62C-F248-11E8-B48F-1D18A9856A87","first_name":"Philipp"},{"full_name":"Hollergschwandtner, Elena","last_name":"Hollergschwandtner","first_name":"Elena","id":"3C054040-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Itakura","full_name":"Itakura, Makoto","first_name":"Makoto"},{"full_name":"Fukazawa, Yugo","last_name":"Fukazawa","first_name":"Yugo"},{"orcid":"0000-0001-8559-3973","full_name":"Danzl, Johann G","last_name":"Danzl","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johann G"},{"first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto"}],"citation":{"ieee":"K. Eguchi <i>et al.</i>, “Advantages of acute brain slices prepared at physiological temperature in the characterization of synaptic functions,” <i>Frontiers in Cellular Neuroscience</i>, vol. 14. Frontiers Media, 2020.","apa":"Eguchi, K., Velicky, P., Saeckl, E., Itakura, M., Fukazawa, Y., Danzl, J. G., &#38; Shigemoto, R. (2020). Advantages of acute brain slices prepared at physiological temperature in the characterization of synaptic functions. <i>Frontiers in Cellular Neuroscience</i>. Frontiers Media. <a href=\"https://doi.org/10.3389/fncel.2020.00063\">https://doi.org/10.3389/fncel.2020.00063</a>","short":"K. Eguchi, P. Velicky, E. Saeckl, M. Itakura, Y. Fukazawa, J.G. Danzl, R. Shigemoto, Frontiers in Cellular Neuroscience 14 (2020).","mla":"Eguchi, Kohgaku, et al. “Advantages of Acute Brain Slices Prepared at Physiological Temperature in the Characterization of Synaptic Functions.” <i>Frontiers in Cellular Neuroscience</i>, vol. 14, 63, Frontiers Media, 2020, doi:<a href=\"https://doi.org/10.3389/fncel.2020.00063\">10.3389/fncel.2020.00063</a>.","ista":"Eguchi K, Velicky P, Saeckl E, Itakura M, Fukazawa Y, Danzl JG, Shigemoto R. 2020. Advantages of acute brain slices prepared at physiological temperature in the characterization of synaptic functions. Frontiers in Cellular Neuroscience. 14, 63.","chicago":"Eguchi, Kohgaku, Philipp Velicky, Elena Saeckl, Makoto Itakura, Yugo Fukazawa, Johann G Danzl, and Ryuichi Shigemoto. “Advantages of Acute Brain Slices Prepared at Physiological Temperature in the Characterization of Synaptic Functions.” <i>Frontiers in Cellular Neuroscience</i>. Frontiers Media, 2020. <a href=\"https://doi.org/10.3389/fncel.2020.00063\">https://doi.org/10.3389/fncel.2020.00063</a>.","ama":"Eguchi K, Velicky P, Saeckl E, et al. Advantages of acute brain slices prepared at physiological temperature in the characterization of synaptic functions. <i>Frontiers in Cellular Neuroscience</i>. 2020;14. doi:<a href=\"https://doi.org/10.3389/fncel.2020.00063\">10.3389/fncel.2020.00063</a>"},"type":"journal_article","file":[{"access_level":"open_access","file_name":"2020_FrontiersCellularNeurosc_Eguchi.pdf","file_size":9227283,"date_updated":"2020-07-14T12:48:01Z","content_type":"application/pdf","checksum":"1c145123c6f8dc3e2e4bd5a66a1ad60e","relation":"main_file","creator":"dernst","date_created":"2020-04-20T10:59:49Z","file_id":"7668"}],"article_type":"original","ddc":["570"],"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"publication_status":"published","abstract":[{"text":"Acute brain slice preparation is a powerful experimental model for investigating the characteristics of synaptic function in the brain. Although brain tissue is usually cut at ice-cold temperature (CT) to facilitate slicing and avoid neuronal damage, exposure to CT causes molecular and architectural changes of synapses. To address these issues, we investigated ultrastructural and electrophysiological features of synapses in mouse acute cerebellar slices prepared at ice-cold and physiological temperature (PT). In the slices prepared at CT, we found significant spine loss and reconstruction, synaptic vesicle rearrangement and decrease in synaptic proteins, all of which were not detected in slices prepared at PT. Consistent with these structural findings, slices prepared at PT showed higher release probability. Furthermore, preparation at PT allows electrophysiological recording immediately after slicing resulting in higher detectability of long-term depression (LTD) after motor learning compared with that at CT. These results indicate substantial advantages of the slice preparation at PT for investigating synaptic functions in different physiological conditions.","lang":"eng"}],"quality_controlled":"1"},{"day":"20","publisher":"Springer Nature","oa_version":"Published Version","doi":"10.1007/s00454-020-00188-x","year":"2020","author":[{"last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833","full_name":"Edelsbrunner, Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert"},{"last_name":"Ölsböck","full_name":"Ölsböck, Katharina","orcid":"0000-0002-4672-8297","id":"4D4AA390-F248-11E8-B48F-1D18A9856A87","first_name":"Katharina"}],"isi":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"HeEd"}],"publication_identifier":{"issn":["01795376"],"eissn":["14320444"]},"article_type":"original","ddc":["510"],"citation":{"ieee":"H. Edelsbrunner and K. Ölsböck, “Tri-partitions and bases of an ordered complex,” <i>Discrete and Computational Geometry</i>, vol. 64. Springer Nature, pp. 759–775, 2020.","short":"H. Edelsbrunner, K. Ölsböck, Discrete and Computational Geometry 64 (2020) 759–775.","apa":"Edelsbrunner, H., &#38; Ölsböck, K. (2020). Tri-partitions and bases of an ordered complex. <i>Discrete and Computational Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00454-020-00188-x\">https://doi.org/10.1007/s00454-020-00188-x</a>","mla":"Edelsbrunner, Herbert, and Katharina Ölsböck. “Tri-Partitions and Bases of an Ordered Complex.” <i>Discrete and Computational Geometry</i>, vol. 64, Springer Nature, 2020, pp. 759–75, doi:<a href=\"https://doi.org/10.1007/s00454-020-00188-x\">10.1007/s00454-020-00188-x</a>.","ista":"Edelsbrunner H, Ölsböck K. 2020. Tri-partitions and bases of an ordered complex. Discrete and Computational Geometry. 64, 759–775.","ama":"Edelsbrunner H, Ölsböck K. Tri-partitions and bases of an ordered complex. <i>Discrete and Computational Geometry</i>. 2020;64:759-775. doi:<a href=\"https://doi.org/10.1007/s00454-020-00188-x\">10.1007/s00454-020-00188-x</a>","chicago":"Edelsbrunner, Herbert, and Katharina Ölsböck. “Tri-Partitions and Bases of an Ordered Complex.” <i>Discrete and Computational Geometry</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/s00454-020-00188-x\">https://doi.org/10.1007/s00454-020-00188-x</a>."},"type":"journal_article","file":[{"creator":"dernst","date_created":"2020-11-20T13:22:21Z","file_id":"8786","success":1,"access_level":"open_access","file_name":"2020_DiscreteCompGeo_Edelsbrunner.pdf","content_type":"application/pdf","date_updated":"2020-11-20T13:22:21Z","file_size":701673,"checksum":"f8cc96e497f00c38340b5dafe0cb91d7","relation":"main_file"}],"quality_controlled":"1","status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"publication_status":"published","abstract":[{"text":"Generalizing the decomposition of a connected planar graph into a tree and a dual tree, we prove a combinatorial analog of the classic Helmholtz–Hodge decomposition of a smooth vector field. Specifically, we show that for every polyhedral complex, K, and every dimension, p, there is a partition of the set of p-cells into a maximal p-tree, a maximal p-cotree, and a collection of p-cells whose cardinality is the p-th reduced Betti number of K. Given an ordering of the p-cells, this tri-partition is unique, and it can be computed by a matrix reduction algorithm that also constructs canonical bases of cycle and boundary groups.","lang":"eng"}],"external_id":{"isi":["000520918800001"]},"date_created":"2020-04-19T22:00:56Z","_id":"7666","project":[{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"},{"call_identifier":"H2020","grant_number":"788183","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","name":"Alpha Shape Theory Extended"},{"name":"Persistence and stability of geometric complexes","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","grant_number":"I02979-N35","call_identifier":"FWF"}],"page":"759-775","publication":"Discrete and Computational Geometry","file_date_updated":"2020-11-20T13:22:21Z","ec_funded":1,"article_processing_charge":"Yes (via OA deal)","date_published":"2020-03-20T00:00:00Z","month":"03","date_updated":"2023-08-21T06:13:48Z","title":"Tri-partitions and bases of an ordered complex","scopus_import":"1","intvolume":"        64","oa":1,"acknowledgement":"This project has received funding from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 78818 Alpha). It is also partially supported by the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, through Grant No. I02979-N35 of the Austrian Science Fund (FWF).","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","volume":64},{"file_date_updated":"2020-10-01T13:20:45Z","publication":"Electrochimica Acta","_id":"7672","date_created":"2020-04-20T19:29:31Z","external_id":{"isi":["000582869700060"]},"date_updated":"2023-08-21T06:14:21Z","title":"Surface and catalyst driven singlet oxygen formation in Li-O2 cells","month":"12","date_published":"2020-12-01T00:00:00Z","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","volume":362,"article_number":"137175","issue":"12","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledgement":"S.A.F. thanks the International Society of Electrochemistry for awarding the Tajima Prize 2019 “in recognition of outstanding re- searches on Li-Air batteries by the use of a range of in-situ elec- trochemical methods to achieve comprehensive understanding of the reactions taking place at the oxygen electrode”. This article is dedicated to the special issue of Electrochmica Acta associated with the awarding conference. S.A.F. is indebted to and the Austrian Federal Ministry of Science, Research and Economy and the Austrian Research Promotion Agency (grant No. 845364 ) and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 636069). The authors thank J. Schlegl for manufacturing instrumentation, M. Winkler of Acib GmbH and G. Strohmeier for help with HPLC measurements, S. Eder for cyclic voltammetry measurements, and C. Slugovc for discussions and continuous support. We thank S. Borisov for access and advice with fluorescence measurements. We thank EL-Cell GmbH, Hamburg, Germany for providing the PAT-Cell-Press electrochemical cell.","oa":1,"intvolume":"       362","doi":"10.1016/j.electacta.2020.137175","oa_version":"Published Version","publisher":"Elsevier","day":"01","department":[{"_id":"StFr"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"author":[{"full_name":"Samojlov, Aleksej","last_name":"Samojlov","first_name":"Aleksej"},{"first_name":"David","full_name":"Schuster, David","last_name":"Schuster"},{"full_name":"Kahr, Jürgen","last_name":"Kahr","first_name":"Jürgen"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"}],"isi":1,"year":"2020","file":[{"checksum":"1ab1aa2024d431e2a089ea336bc08298","relation":"main_file","date_updated":"2020-10-01T13:20:45Z","content_type":"application/pdf","file_size":1404030,"file_name":"2020_ElectrochimicaActa_Samojlov.pdf","success":1,"access_level":"open_access","file_id":"8593","date_created":"2020-10-01T13:20:45Z","creator":"dernst"}],"type":"journal_article","citation":{"chicago":"Samojlov, Aleksej, David Schuster, Jürgen Kahr, and Stefan Alexander Freunberger. “Surface and Catalyst Driven Singlet Oxygen Formation in Li-O2 Cells.” <i>Electrochimica Acta</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.electacta.2020.137175\">https://doi.org/10.1016/j.electacta.2020.137175</a>.","ama":"Samojlov A, Schuster D, Kahr J, Freunberger SA. Surface and catalyst driven singlet oxygen formation in Li-O2 cells. <i>Electrochimica Acta</i>. 2020;362(12). doi:<a href=\"https://doi.org/10.1016/j.electacta.2020.137175\">10.1016/j.electacta.2020.137175</a>","ista":"Samojlov A, Schuster D, Kahr J, Freunberger SA. 2020. Surface and catalyst driven singlet oxygen formation in Li-O2 cells. Electrochimica Acta. 362(12), 137175.","mla":"Samojlov, Aleksej, et al. “Surface and Catalyst Driven Singlet Oxygen Formation in Li-O2 Cells.” <i>Electrochimica Acta</i>, vol. 362, no. 12, 137175, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.electacta.2020.137175\">10.1016/j.electacta.2020.137175</a>.","short":"A. Samojlov, D. Schuster, J. Kahr, S.A. Freunberger, Electrochimica Acta 362 (2020).","apa":"Samojlov, A., Schuster, D., Kahr, J., &#38; Freunberger, S. A. (2020). Surface and catalyst driven singlet oxygen formation in Li-O2 cells. <i>Electrochimica Acta</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.electacta.2020.137175\">https://doi.org/10.1016/j.electacta.2020.137175</a>","ieee":"A. Samojlov, D. Schuster, J. Kahr, and S. A. Freunberger, “Surface and catalyst driven singlet oxygen formation in Li-O2 cells,” <i>Electrochimica Acta</i>, vol. 362, no. 12. Elsevier, 2020."},"ddc":["540"],"article_type":"original","abstract":[{"lang":"eng","text":"Large overpotentials upon discharge and charge of Li-O2 cells have motivated extensive research into heterogeneous solid electrocatalysts or non-carbon electrodes with the aim to improve rate capability, round-trip efficiency and cycle life. These features are equally governed by parasitic reactions, which are now recognized to be caused by the highly reactive singlet oxygen (1O2). However, the link between the presence of electrocatalysts and 1O2 formation in metal-O2 cells is unknown. Here, we show that, compared to pristine carbon black electrodes, a representative selection of electrocatalysts or non-carbon electrodes (noble metal, transition metal compounds) may both slightly reduce or severely increase the 1O2 formation. The individual reaction steps, where the surfaces impact the 1O2 yield are deciphered, showing that 1O2 yield from superoxide disproportionation as well as the decomposition of trace H2O2 are sensitive to catalysts. Transition metal compounds in general are prone to increase 1O2."}],"publication_status":"published","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","quality_controlled":"1"},{"type":"preprint","citation":{"chicago":"Kavcic, Bor, Gašper Tkačik, and Mark Tobias Bollenbach. “A Minimal Biophysical Model of Combined Antibiotic Action.” <i>BioRxiv</i>. Cold Spring Harbor Laboratory, 2020. <a href=\"https://doi.org/10.1101/2020.04.18.047886\">https://doi.org/10.1101/2020.04.18.047886</a>.","ama":"Kavcic B, Tkačik G, Bollenbach MT. A minimal biophysical model of combined antibiotic action. <i>bioRxiv</i>. 2020. doi:<a href=\"https://doi.org/10.1101/2020.04.18.047886\">10.1101/2020.04.18.047886</a>","ista":"Kavcic B, Tkačik G, Bollenbach MT. 2020. A minimal biophysical model of combined antibiotic action. bioRxiv, <a href=\"https://doi.org/10.1101/2020.04.18.047886\">10.1101/2020.04.18.047886</a>.","mla":"Kavcic, Bor, et al. “A Minimal Biophysical Model of Combined Antibiotic Action.” <i>BioRxiv</i>, Cold Spring Harbor Laboratory, 2020, doi:<a href=\"https://doi.org/10.1101/2020.04.18.047886\">10.1101/2020.04.18.047886</a>.","short":"B. Kavcic, G. Tkačik, M.T. Bollenbach, BioRxiv (2020).","apa":"Kavcic, B., Tkačik, G., &#38; Bollenbach, M. T. (2020). A minimal biophysical model of combined antibiotic action. <i>bioRxiv</i>. Cold Spring Harbor Laboratory. <a href=\"https://doi.org/10.1101/2020.04.18.047886\">https://doi.org/10.1101/2020.04.18.047886</a>","ieee":"B. Kavcic, G. Tkačik, and M. T. Bollenbach, “A minimal biophysical model of combined antibiotic action,” <i>bioRxiv</i>. Cold Spring Harbor Laboratory, 2020."},"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","language":[{"iso":"eng"}],"related_material":{"record":[{"id":"8997","status":"public","relation":"later_version"},{"status":"public","relation":"dissertation_contains","id":"8657"}]},"main_file_link":[{"url":"https://doi.org/10.1101/2020.04.18.047886 ","open_access":"1"}],"publication_status":"published","abstract":[{"lang":"eng","text":"Combining drugs can improve the efficacy of treatments. However, predicting the effect of drug combinations is still challenging. The combined potency of drugs determines the drug interaction, which is classified as synergistic, additive, antagonistic, or suppressive. While probabilistic, non-mechanistic models exist, there is currently no biophysical model that can predict antibiotic interactions. Here, we present a physiologically relevant model of the combined action of antibiotics that inhibit protein synthesis by targeting the ribosome. This model captures the kinetics of antibiotic binding and transport, and uses bacterial growth laws to predict growth in the presence of antibiotic combinations. We find that this biophysical model can produce all drug interaction types except suppression. We show analytically that antibiotics which cannot bind to the ribosome simultaneously generally act as substitutes for one another, leading to additive drug interactions. Previously proposed null expectations for higher-order drug interactions follow as a limiting case of our model. We further extend the model to include the effects of direct physical or allosteric interactions between individual drugs on the ribosome. Notably, such direct interactions profoundly change the combined drug effect, depending on the kinetic parameters of the drugs used. The model makes additional predictions for the effects of resistance genes on drug interactions and for interactions between ribosome-targeting antibiotics and antibiotics with other targets. These findings enhance our understanding of the interplay between drug action and cell physiology and are a key step toward a general framework for predicting drug interactions."}],"day":"18","date_created":"2020-04-22T08:27:56Z","project":[{"name":"Revealing the mechanisms underlying drug interactions","call_identifier":"FWF","grant_number":"P27201-B22","_id":"25E9AF9E-B435-11E9-9278-68D0E5697425"},{"name":"Biophysics of information processing in gene regulation","grant_number":"P28844-B27","_id":"254E9036-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"_id":"7673","publisher":"Cold Spring Harbor Laboratory","oa_version":"Preprint","doi":"10.1101/2020.04.18.047886","publication":"bioRxiv","article_processing_charge":"No","year":"2020","author":[{"id":"350F91D2-F248-11E8-B48F-1D18A9856A87","first_name":"Bor","orcid":"0000-0001-6041-254X","full_name":"Kavcic, Bor","last_name":"Kavcic"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper","orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper","last_name":"Tkačik"},{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","first_name":"Tobias","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Tobias","last_name":"Bollenbach"}],"date_published":"2020-04-18T00:00:00Z","month":"04","department":[{"_id":"GaTk"}],"date_updated":"2024-03-25T23:30:05Z","title":"A minimal biophysical model of combined antibiotic action"},{"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"8155","status":"public","relation":"dissertation_contains"}]},"main_file_link":[{"url":"https://doi.org/10.1101/2020.04.08.029405 ","open_access":"1"}],"publication_status":"published","abstract":[{"text":"In prokaryotes, thermodynamic models of gene regulation provide a highly quantitative mapping from promoter sequences to gene expression levels that is compatible with in vivo and in vitro bio-physical measurements. Such concordance has not been achieved for models of enhancer function in eukaryotes. In equilibrium models, it is difficult to reconcile the reported short transcription factor (TF) residence times on the DNA with the high specificity of regulation. In non-equilibrium models, progress is difficult due to an explosion in the number of parameters. Here, we navigate this complexity by looking for minimal non-equilibrium enhancer models that yield desired regulatory phenotypes: low TF residence time, high specificity and tunable cooperativity. We find that a single extra parameter, interpretable as the “linking rate” by which bound TFs interact with Mediator components, enables our models to escape equilibrium bounds and access optimal regulatory phenotypes, while remaining consistent with the reported phenomenology and simple enough to be inferred from upcoming experiments. We further find that high specificity in non-equilibrium models is in a tradeoff with gene expression noise, predicting bursty dynamics — an experimentally-observed hallmark of eukaryotic transcription. By drastically reducing the vast parameter space to a much smaller subspace that optimally realizes biological function prior to inference from data, our normative approach holds promise for mathematical models in systems biology.","lang":"eng"}],"status":"public","language":[{"iso":"eng"}],"type":"preprint","citation":{"short":"R. Grah, B. Zoller, G. Tkačik, BioRxiv (2020).","apa":"Grah, R., Zoller, B., &#38; Tkačik, G. (2020). Normative models of enhancer function. <i>bioRxiv</i>. Cold Spring Harbor Laboratory. <a href=\"https://doi.org/10.1101/2020.04.08.029405\">https://doi.org/10.1101/2020.04.08.029405</a>","ieee":"R. Grah, B. Zoller, and G. Tkačik, “Normative models of enhancer function,” <i>bioRxiv</i>. Cold Spring Harbor Laboratory, 2020.","chicago":"Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Normative Models of Enhancer Function.” <i>BioRxiv</i>. Cold Spring Harbor Laboratory, 2020. <a href=\"https://doi.org/10.1101/2020.04.08.029405\">https://doi.org/10.1101/2020.04.08.029405</a>.","ama":"Grah R, Zoller B, Tkačik G. Normative models of enhancer function. <i>bioRxiv</i>. 2020. doi:<a href=\"https://doi.org/10.1101/2020.04.08.029405\">10.1101/2020.04.08.029405</a>","ista":"Grah R, Zoller B, Tkačik G. 2020. Normative models of enhancer function. bioRxiv, <a href=\"https://doi.org/10.1101/2020.04.08.029405\">10.1101/2020.04.08.029405</a>.","mla":"Grah, Rok, et al. “Normative Models of Enhancer Function.” <i>BioRxiv</i>, Cold Spring Harbor Laboratory, 2020, doi:<a href=\"https://doi.org/10.1101/2020.04.08.029405\">10.1101/2020.04.08.029405</a>."},"article_processing_charge":"No","year":"2020","author":[{"last_name":"Grah","full_name":"Grah, Rok","orcid":"0000-0003-2539-3560","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","first_name":"Rok"},{"last_name":"Zoller","full_name":"Zoller, Benjamin","first_name":"Benjamin"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","last_name":"Tkačik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper"}],"date_published":"2020-04-09T00:00:00Z","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"title":"Normative models of enhancer function","date_updated":"2023-09-07T13:13:26Z","month":"04","publisher":"Cold Spring Harbor Laboratory","_id":"7675","project":[{"name":"Can evolution minimize spurious signaling crosstalk to reach optimal performance?","_id":"2665AAFE-B435-11E9-9278-68D0E5697425","grant_number":"RGP0034/2018"},{"name":"Biophysically realistic genotype-phenotype maps for regulatory networks","_id":"267C84F4-B435-11E9-9278-68D0E5697425"}],"day":"09","date_created":"2020-04-23T10:12:51Z","doi":"10.1101/2020.04.08.029405","publication":"bioRxiv","oa_version":"Preprint"},{"language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","publication_status":"published","abstract":[{"text":"Proteins and their complex dynamic interactions regulate cellular mechanisms from sensing and transducing extracellular signals, to mediating genetic responses, and sustaining or changing cell morphology. To manipulate these protein-protein interactions (PPIs) that govern the behavior and fate of cells, synthetically constructed, genetically encoded tools provide the means to precisely target proteins of interest (POIs), and control their subcellular localization and activity in vitro and in vivo. Ideal synthetic tools react to an orthogonal cue, i.e. a trigger that does not activate any other endogenous process, thereby allowing manipulation of the POI alone.\r\nIn optogenetics, naturally occurring photosensory domain from plants, algae and bacteria are re-purposed and genetically fused to POIs. Illumination with light of a specific wavelength triggers a conformational change that can mediate PPIs, such as dimerization or oligomerization. By using light as a trigger, these tools can be activated with high spatial and temporal precision, on subcellular and millisecond scales. Chemogenetic tools consist of protein domains that recognize and bind small molecules. By genetic fusion to POIs, these domains can mediate PPIs upon addition of their specific ligands, which are often synthetically designed to provide highly specific interactions and exhibit good bioavailability.\r\nMost optogenetic tools to mediate PPIs are based on well-studied photoreceptors responding to red, blue or near-UV light, leaving a striking gap in the green band of the visible light spectrum. Among both optogenetic and chemogenetic tools, there is an abundance of methods to induce PPIs, but tools to disrupt them require UV illumination, rely on covalent linkage and subsequent enzymatic cleavage or initially result in protein clustering of unknown stoichiometry.\r\nThis work describes how the recently structurally and photochemically characterized green-light responsive cobalamin-binding domains (CBDs) from bacterial transcription factors were re-purposed to function as a green-light responsive optogenetic tool. In contrast to previously engineered optogenetic tools, CBDs do not induce PPI, but rather confer a PPI already upon expression, which can be rapidly disrupted by illumination. This was employed to mimic inhibition of constitutive activity of a growth factor receptor, and successfully implement for cell signalling in mammalian cells and in vivo to rescue development in zebrafish. This work further describes the development and application of a chemically induced de-dimerizer (CDD) based on a recently identified and structurally described bacterial oxyreductase. CDD forms a dimer upon expression in absence of its cofactor, the flavin derivative F420. Safety and of domain expression and ligand exposure are demonstrated in vitro and in vivo in zebrafish. The system is further applied to inhibit cell signalling output from a chimeric receptor upon F420 treatment.\r\nCBDs and CDD expand the repertoire of synthetic tools by providing novel mechanisms of mediating PPIs, and by recognizing previously not utilized cues. In the future, they can readily be combined with existing synthetic tools to functionally manipulate PPIs in vitro and in vivo.","lang":"eng"}],"type":"dissertation","citation":{"chicago":"Kainrath, Stephanie. “Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7680\">https://doi.org/10.15479/AT:ISTA:7680</a>.","ama":"Kainrath S. Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7680\">10.15479/AT:ISTA:7680</a>","mla":"Kainrath, Stephanie. <i>Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7680\">10.15479/AT:ISTA:7680</a>.","ista":"Kainrath S. 2020. Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. Institute of Science and Technology Austria.","short":"S. Kainrath, Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals, Institute of Science and Technology Austria, 2020.","apa":"Kainrath, S. (2020). <i>Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7680\">https://doi.org/10.15479/AT:ISTA:7680</a>","ieee":"S. Kainrath, “Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals,” Institute of Science and Technology Austria, 2020."},"file":[{"file_id":"7692","embargo":"2021-10-30","date_created":"2020-04-28T11:19:21Z","creator":"stgingl","file_size":3268017,"date_updated":"2021-10-31T23:30:05Z","content_type":"application/pdf","relation":"main_file","checksum":"fb9a4468eb27be92690728e35c823796","access_level":"open_access","file_name":"Thesis_without-signatures_PDFA.pdf"},{"checksum":"f6c80ca97104a631a328cb79a2c53493","relation":"source_file","file_size":5167703,"content_type":"application/octet-stream","date_updated":"2021-10-31T23:30:05Z","file_name":"Thesis_without signatures.docx","embargo_to":"open_access","access_level":"closed","file_id":"7693","date_created":"2020-04-28T11:19:24Z","creator":"stgingl"}],"ddc":["570"],"degree_awarded":"PhD","publication_identifier":{"eissn":["2663-337X"]},"department":[{"_id":"CaGu"}],"author":[{"first_name":"Stephanie","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87","full_name":"Kainrath, Stephanie","last_name":"Kainrath"}],"year":"2020","oa_version":"None","doi":"10.15479/AT:ISTA:7680","day":"24","publisher":"Institute of Science and Technology Austria","alternative_title":["ISTA Thesis"],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"1028"}]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa":1,"month":"04","date_updated":"2023-09-22T09:20:10Z","title":"Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals","date_published":"2020-04-24T00:00:00Z","article_processing_charge":"No","page":"98","file_date_updated":"2021-10-31T23:30:05Z","supervisor":[{"last_name":"Janovjak","orcid":"0000-0002-8023-9315","full_name":"Janovjak, Harald L","first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-04-24T16:00:51Z","_id":"7680"},{"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"eissn":["14209020"],"issn":["10221824"]},"department":[{"_id":"TaHa"}],"year":"2020","author":[{"orcid":"0000-0003-3883-1806","full_name":"Minets, Sasha","last_name":"Minets","id":"3E7C5304-F248-11E8-B48F-1D18A9856A87","first_name":"Sasha"}],"isi":1,"oa_version":"Published Version","arxiv":1,"doi":"10.1007/s00029-020-00553-x","day":"15","publisher":"Springer Nature","has_accepted_license":"1","status":"public","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"For any free oriented Borel–Moore homology theory A, we construct an associative product on the A-theory of the stack of Higgs torsion sheaves over a projective curve C. We show that the resulting algebra AHa0C admits a natural shuffle presentation, and prove it is faithful when A is replaced with usual Borel–Moore homology groups. We also introduce moduli spaces of stable triples, heavily inspired by Nakajima quiver varieties, whose A-theory admits an AHa0C-action. These triples can be interpreted as certain sheaves on PC(ωC⊕OC). In particular, we obtain an action of AHa0C on the cohomology of Hilbert schemes of points on T∗C."}],"publication_status":"published","quality_controlled":"1","citation":{"chicago":"Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves, Moduli of Triples and Sheaves on Surfaces.” <i>Selecta Mathematica, New Series</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/s00029-020-00553-x\">https://doi.org/10.1007/s00029-020-00553-x</a>.","ama":"Minets S. Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. <i>Selecta Mathematica, New Series</i>. 2020;26(2). doi:<a href=\"https://doi.org/10.1007/s00029-020-00553-x\">10.1007/s00029-020-00553-x</a>","ista":"Minets S. 2020. Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. Selecta Mathematica, New Series. 26(2), 30.","mla":"Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves, Moduli of Triples and Sheaves on Surfaces.” <i>Selecta Mathematica, New Series</i>, vol. 26, no. 2, 30, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1007/s00029-020-00553-x\">10.1007/s00029-020-00553-x</a>.","apa":"Minets, S. (2020). Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. <i>Selecta Mathematica, New Series</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00029-020-00553-x\">https://doi.org/10.1007/s00029-020-00553-x</a>","short":"S. Minets, Selecta Mathematica, New Series 26 (2020).","ieee":"S. Minets, “Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces,” <i>Selecta Mathematica, New Series</i>, vol. 26, no. 2. Springer Nature, 2020."},"type":"journal_article","file":[{"file_name":"2020_SelectaMathematica_Minets.pdf","access_level":"open_access","checksum":"2368c4662629b4759295eb365323b2ad","relation":"main_file","file_size":792469,"content_type":"application/pdf","date_updated":"2020-07-14T12:48:02Z","creator":"dernst","date_created":"2020-04-28T10:57:58Z","file_id":"7690"}],"article_type":"original","ddc":["510"],"month":"04","date_updated":"2023-08-21T06:14:58Z","title":"Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces","article_processing_charge":"Yes (via OA deal)","date_published":"2020-04-15T00:00:00Z","publication":"Selecta Mathematica, New Series","file_date_updated":"2020-07-14T12:48:02Z","external_id":{"isi":["000526036400001"],"arxiv":["1801.01429"]},"date_created":"2020-04-26T22:00:44Z","project":[{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"_id":"7683","volume":26,"intvolume":"        26","oa":1,"issue":"2","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_number":"30","scopus_import":"1"},{"_id":"7684","project":[{"name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex","grant_number":"281511","_id":"257A4776-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"date_created":"2020-04-26T22:00:45Z","external_id":{"pmid":["32070475"],"isi":["000528268200013"]},"publication":"Neuron","page":"291-300.e6","date_published":"2020-04-22T00:00:00Z","article_processing_charge":"No","ec_funded":1,"title":"Assembly-specific disruption of hippocampal replay leads to selective memory deficit","date_updated":"2023-08-21T06:15:31Z","month":"04","scopus_import":"1","issue":"2","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":"       106","oa":1,"volume":106,"main_file_link":[{"url":"https://doi.org/10.1016/j.neuron.2020.01.021","open_access":"1"}],"related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/librarian-of-memory/"}]},"publisher":"Elsevier","day":"22","doi":"10.1016/j.neuron.2020.01.021","oa_version":"Published Version","isi":1,"author":[{"full_name":"Gridchyn, Igor","orcid":"0000-0002-1807-1929","last_name":"Gridchyn","id":"4B60654C-F248-11E8-B48F-1D18A9856A87","first_name":"Igor"},{"first_name":"Philipp","id":"3B9D816C-F248-11E8-B48F-1D18A9856A87","full_name":"Schönenberger, Philipp","last_name":"Schönenberger"},{"first_name":"Joseph","id":"426376DC-F248-11E8-B48F-1D18A9856A87","last_name":"O'Neill","full_name":"O'Neill, Joseph"},{"last_name":"Csicsvari","full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L"}],"year":"2020","publication_identifier":{"issn":["08966273"],"eissn":["10974199"]},"department":[{"_id":"JoCs"}],"article_type":"original","type":"journal_article","citation":{"ama":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. Assembly-specific disruption of hippocampal replay leads to selective memory deficit. <i>Neuron</i>. 2020;106(2):291-300.e6. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.01.021\">10.1016/j.neuron.2020.01.021</a>","chicago":"Gridchyn, Igor, Philipp Schönenberger, Joseph O’Neill, and Jozsef L Csicsvari. “Assembly-Specific Disruption of Hippocampal Replay Leads to Selective Memory Deficit.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.01.021\">https://doi.org/10.1016/j.neuron.2020.01.021</a>.","mla":"Gridchyn, Igor, et al. “Assembly-Specific Disruption of Hippocampal Replay Leads to Selective Memory Deficit.” <i>Neuron</i>, vol. 106, no. 2, Elsevier, 2020, p. 291–300.e6, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.01.021\">10.1016/j.neuron.2020.01.021</a>.","ista":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. 2020. Assembly-specific disruption of hippocampal replay leads to selective memory deficit. Neuron. 106(2), 291–300.e6.","short":"I. Gridchyn, P. Schönenberger, J. O’Neill, J.L. Csicsvari, Neuron 106 (2020) 291–300.e6.","apa":"Gridchyn, I., Schönenberger, P., O’Neill, J., &#38; Csicsvari, J. L. (2020). Assembly-specific disruption of hippocampal replay leads to selective memory deficit. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.01.021\">https://doi.org/10.1016/j.neuron.2020.01.021</a>","ieee":"I. Gridchyn, P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Assembly-specific disruption of hippocampal replay leads to selective memory deficit,” <i>Neuron</i>, vol. 106, no. 2. Elsevier, p. 291–300.e6, 2020."},"quality_controlled":"1","publication_status":"published","language":[{"iso":"eng"}],"pmid":1,"status":"public"},{"citation":{"ista":"Xue H, Zhang Y, Xiao G. 2020. Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. 25(6), 520–522.","mla":"Xue, Huidan, et al. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” <i>Trends in Plant Science</i>, vol. 25, no. 6, Elsevier, 2020, pp. 520–22, doi:<a href=\"https://doi.org/10.1016/j.tplants.2020.04.001\">10.1016/j.tplants.2020.04.001</a>.","chicago":"Xue, Huidan, Yuzhou Zhang, and Guanghui Xiao. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” <i>Trends in Plant Science</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.tplants.2020.04.001\">https://doi.org/10.1016/j.tplants.2020.04.001</a>.","ama":"Xue H, Zhang Y, Xiao G. Neo-gibberellin signaling: Guiding the next generation of the green revolution. <i>Trends in Plant Science</i>. 2020;25(6):520-522. doi:<a href=\"https://doi.org/10.1016/j.tplants.2020.04.001\">10.1016/j.tplants.2020.04.001</a>","ieee":"H. Xue, Y. Zhang, and G. Xiao, “Neo-gibberellin signaling: Guiding the next generation of the green revolution,” <i>Trends in Plant Science</i>, vol. 25, no. 6. Elsevier, pp. 520–522, 2020.","apa":"Xue, H., Zhang, Y., &#38; Xiao, G. (2020). Neo-gibberellin signaling: Guiding the next generation of the green revolution. <i>Trends in Plant Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tplants.2020.04.001\">https://doi.org/10.1016/j.tplants.2020.04.001</a>","short":"H. Xue, Y. Zhang, G. Xiao, Trends in Plant Science 25 (2020) 520–522."},"type":"journal_article","article_type":"original","pmid":1,"status":"public","language":[{"iso":"eng"}],"abstract":[{"text":"The agricultural green revolution spectacularly enhanced crop yield and lodging resistance with modified DELLA-mediated gibberellin signaling. However, this was achieved at the expense of reduced nitrogen-use efficiency (NUE). Recently, Wu et al. revealed novel gibberellin signaling that provides a blueprint for improving tillering and NUE in Green Revolution varieties (GRVs). ","lang":"eng"}],"publication_status":"published","quality_controlled":"1","oa_version":"None","doi":"10.1016/j.tplants.2020.04.001","day":"01","publisher":"Elsevier","publication_identifier":{"issn":["1360-1385"]},"department":[{"_id":"JiFr"}],"year":"2020","author":[{"full_name":"Xue, Huidan","last_name":"Xue","first_name":"Huidan"},{"full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang","first_name":"Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Xiao","full_name":"Xiao, Guanghui","first_name":"Guanghui"}],"isi":1,"scopus_import":"1","volume":25,"intvolume":"        25","issue":"6","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","page":"520-522","publication":"Trends in Plant Science","external_id":{"pmid":["32407691"],"isi":["000533518400003"]},"date_created":"2020-04-26T22:00:46Z","_id":"7686","month":"06","title":"Neo-gibberellin signaling: Guiding the next generation of the green revolution","date_updated":"2023-08-21T06:16:01Z","article_processing_charge":"No","date_published":"2020-06-01T00:00:00Z"},{"tmp":{"legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","image":"/images/cc_0.png"},"month":"05","date_updated":"2024-02-21T12:44:02Z","title":"Supplementary data for \"Zero field splitting of heavy-hole states in quantum dots\"","department":[{"_id":"GeKa"}],"ec_funded":1,"date_published":"2020-05-01T00:00:00Z","author":[{"first_name":"Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8342-202X","full_name":"Katsaros, Georgios","last_name":"Katsaros"}],"year":"2020","article_processing_charge":"No","oa_version":"Published Version","contributor":[{"last_name":"Katsaros","contributor_type":"contact_person","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","first_name":"Georgios"}],"file_date_updated":"2020-07-14T12:48:02Z","doi":"10.15479/AT:ISTA:7689","date_created":"2020-05-01T15:14:46Z","day":"01","project":[{"name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS","grant_number":"862046","_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","call_identifier":"H2020"},{"grant_number":"P32235","_id":"237B3DA4-32DE-11EA-91FC-C7463DDC885E","call_identifier":"FWF","name":"Towards scalable hut wire quantum devices"}],"_id":"7689","publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","status":"public","abstract":[{"lang":"eng","text":"These are the supplementary research data to the publication \"Zero field splitting of heavy-hole states in quantum dots\". All matrix files have the same format. Within each column the bias voltage is changed. Each column corresponds to either a different gate voltage or magnetic field. The voltage values are given in mV, the current values in pA. Find a specific description in the included Readme file.\r\n"}],"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"8203"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"type":"research_data","citation":{"apa":"Katsaros, G. (2020). Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7689\">https://doi.org/10.15479/AT:ISTA:7689</a>","short":"G. Katsaros, (2020).","ieee":"G. Katsaros, “Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots.’” Institute of Science and Technology Austria, 2020.","ama":"Katsaros G. Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7689\">10.15479/AT:ISTA:7689</a>","chicago":"Katsaros, Georgios. “Supplementary Data for ‘Zero Field Splitting of Heavy-Hole States in Quantum Dots.’” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7689\">https://doi.org/10.15479/AT:ISTA:7689</a>.","ista":"Katsaros G. 2020. Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:7689\">10.15479/AT:ISTA:7689</a>.","mla":"Katsaros, Georgios. <i>Supplementary Data for “Zero Field Splitting of Heavy-Hole States in Quantum Dots.”</i> Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7689\">10.15479/AT:ISTA:7689</a>."},"license":"https://creativecommons.org/publicdomain/zero/1.0/","file":[{"file_size":5514403,"date_updated":"2020-07-14T12:48:02Z","content_type":"application/x-zip-compressed","relation":"main_file","checksum":"d23c0cb9e2d19e14e2f902b88b97c05d","access_level":"open_access","file_name":"DOI_ZeroFieldSplitting.zip","file_id":"7786","creator":"gkatsaro","date_created":"2020-05-01T15:13:28Z"}],"ddc":["530"]},{"date_created":"2020-04-29T15:23:00Z","external_id":{"pmid":["32321842"],"isi":["000550682000018"]},"project":[{"name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","call_identifier":"FWF"}],"_id":"7695","page":"986-997","publication":"Plant Physiology","date_published":"2020-07-01T00:00:00Z","article_processing_charge":"No","month":"07","title":"High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits","date_updated":"2023-09-05T12:20:02Z","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","issue":"3","oa":1,"intvolume":"       183","volume":183,"main_file_link":[{"url":"https://doi.org/10.1101/2020.02.13.948109","open_access":"1"}],"day":"01","publisher":"American Society of Plant Biologists","oa_version":"Preprint","doi":"10.1104/pp.20.00178","isi":1,"author":[{"first_name":"J","last_name":"Wang","full_name":"Wang, J"},{"first_name":"E","full_name":"Mylle, E","last_name":"Mylle"},{"first_name":"Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","last_name":"Johnson","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843"},{"last_name":"Besbrugge","full_name":"Besbrugge, N","first_name":"N"},{"first_name":"G","full_name":"De Jaeger, G","last_name":"De Jaeger"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml"},{"full_name":"Pleskot, R","last_name":"Pleskot","first_name":"R"},{"full_name":"van Damme, D","last_name":"van Damme","first_name":"D"}],"year":"2020","department":[{"_id":"JiFr"}],"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"article_type":"original","type":"journal_article","citation":{"short":"J. Wang, E. Mylle, A.J. Johnson, N. Besbrugge, G. De Jaeger, J. Friml, R. Pleskot, D. van Damme, Plant Physiology 183 (2020) 986–997.","apa":"Wang, J., Mylle, E., Johnson, A. J., Besbrugge, N., De Jaeger, G., Friml, J., … van Damme, D. (2020). High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1104/pp.20.00178\">https://doi.org/10.1104/pp.20.00178</a>","ieee":"J. Wang <i>et al.</i>, “High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits,” <i>Plant Physiology</i>, vol. 183, no. 3. American Society of Plant Biologists, pp. 986–997, 2020.","chicago":"Wang, J, E Mylle, Alexander J Johnson, N Besbrugge, G De Jaeger, Jiří Friml, R Pleskot, and D van Damme. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2020. <a href=\"https://doi.org/10.1104/pp.20.00178\">https://doi.org/10.1104/pp.20.00178</a>.","ama":"Wang J, Mylle E, Johnson AJ, et al. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. <i>Plant Physiology</i>. 2020;183(3):986-997. doi:<a href=\"https://doi.org/10.1104/pp.20.00178\">10.1104/pp.20.00178</a>","ista":"Wang J, Mylle E, Johnson AJ, Besbrugge N, De Jaeger G, Friml J, Pleskot R, van Damme D. 2020. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 183(3), 986–997.","mla":"Wang, J., et al. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” <i>Plant Physiology</i>, vol. 183, no. 3, American Society of Plant Biologists, 2020, pp. 986–97, doi:<a href=\"https://doi.org/10.1104/pp.20.00178\">10.1104/pp.20.00178</a>."},"quality_controlled":"1","language":[{"iso":"eng"}],"pmid":1,"status":"public","publication_status":"published","abstract":[{"lang":"eng","text":"The TPLATE complex (TPC) is a key endocytic adaptor protein complex in plants. TPC in Arabidopsis (Arabidopsis thaliana) contains six evolutionarily conserved subunits and two plant-specific subunits, AtEH1/Pan1 and AtEH2/Pan1, although cytoplasmic proteins are not associated with the hexameric subcomplex in the cytoplasm. To investigate the dynamic assembly of the octameric TPC at the plasma membrane (PM), we performed state-of-the-art dual-color live cell imaging at physiological and lowered temperatures. Lowering the temperature slowed down endocytosis, thereby enhancing the temporal resolution of the differential recruitment of endocytic components. Under both normal and lowered temperature conditions, the core TPC subunit TPLATE and the AtEH/Pan1 proteins exhibited simultaneous recruitment at the PM. These results, together with co-localization analysis of different TPC subunits, allow us to conclude that TPC in plant cells is not recruited to the PM sequentially but as an octameric complex."}]},{"quality_controlled":"1","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","pmid":1,"abstract":[{"lang":"eng","text":"* Morphogenesis and adaptive tropic growth in plants depend on gradients of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin transporters. PINs localize to a particular side of the plasma membrane (PM) or to the endoplasmic reticulum (ER) to directionally transport auxin and maintain intercellular and intracellular auxin homeostasis, respectively. However, the molecular cues that confer their diverse cellular localizations remain largely unknown.\r\n* In this study, we systematically swapped the domains between ER‐ and PM‐localized PIN proteins, as well as between apical and basal PM‐localized PINs from Arabidopsis thaliana , to shed light on why PIN family members with similar topological structures reside at different membrane compartments within cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane domains (TMDs) and central hydrophilic loop contribute to their differential subcellular localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal TMDs resulting from intramolecular domain–domain coevolution are also crucial for their divergent patterns of localization.\r\n* These findings illustrate the complexity of the evolutionary path of PIN proteins in acquiring their plethora of developmental functions and adaptive growth in plants."}],"publication_status":"published","article_type":"original","ddc":["580"],"type":"journal_article","citation":{"chicago":"Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” <i>New Phytologist</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/nph.16629\">https://doi.org/10.1111/nph.16629</a>.","ama":"Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. <i>New Phytologist</i>. 2020;227(5):1406-1416. doi:<a href=\"https://doi.org/10.1111/nph.16629\">10.1111/nph.16629</a>","ista":"Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 227(5), 1406–1416.","mla":"Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” <i>New Phytologist</i>, vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:<a href=\"https://doi.org/10.1111/nph.16629\">10.1111/nph.16629</a>.","apa":"Zhang, Y., Hartinger, C., Wang, X., &#38; Friml, J. (2020). Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16629\">https://doi.org/10.1111/nph.16629</a>","short":"Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.","ieee":"Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,” <i>New Phytologist</i>, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020."},"file":[{"date_created":"2020-11-24T12:19:38Z","creator":"dernst","file_id":"8799","file_name":"2020_09_NewPhytologist_Zhang.pdf","success":1,"access_level":"open_access","checksum":"8e8150dbbba8cb65b72f81d1f0864b8b","relation":"main_file","content_type":"application/pdf","date_updated":"2020-11-24T12:19:38Z","file_size":3643395}],"author":[{"first_name":"Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956"},{"full_name":"Hartinger, Corinna","orcid":"0000-0003-1618-2737","last_name":"Hartinger","first_name":"Corinna","id":"AEFB2266-8ABF-11EA-AA39-812C3623CBE4"},{"last_name":"Wang","full_name":"Wang, Xiaojuan","first_name":"Xiaojuan"},{"last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"}],"isi":1,"year":"2020","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"department":[{"_id":"JiFr"}],"day":"01","publisher":"Wiley","oa_version":"Published Version","doi":"10.1111/nph.16629","issue":"5","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa":1,"intvolume":"       227","volume":227,"scopus_import":"1","ec_funded":1,"date_published":"2020-09-01T00:00:00Z","article_processing_charge":"Yes (via OA deal)","month":"09","date_updated":"2023-09-05T15:46:04Z","title":"Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters","date_created":"2020-04-30T08:43:29Z","external_id":{"isi":["000534092400001"],"pmid":["32350870"]},"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020"},{"call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}],"_id":"7697","page":"1406-1416","file_date_updated":"2020-11-24T12:19:38Z","publication":"New Phytologist"},{"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"eissn":["18792650"],"issn":["00052728"]},"department":[{"_id":"LeSa"}],"isi":1,"author":[{"first_name":"Merel J.W.","full_name":"Adjobo-Hermans, Merel J.W.","last_name":"Adjobo-Hermans"},{"first_name":"Ria","last_name":"De Haas","full_name":"De Haas, Ria"},{"first_name":"Peter H.G.M.","full_name":"Willems, Peter H.G.M.","last_name":"Willems"},{"full_name":"Wojtala, Aleksandra","last_name":"Wojtala","first_name":"Aleksandra"},{"first_name":"Sjenet E.","last_name":"Van Emst-De Vries","full_name":"Van Emst-De Vries, Sjenet E."},{"first_name":"Jori A.","full_name":"Wagenaars, Jori A.","last_name":"Wagenaars"},{"first_name":"Mariel","full_name":"Van Den Brand, Mariel","last_name":"Van Den Brand"},{"full_name":"Rodenburg, Richard J.","last_name":"Rodenburg","first_name":"Richard J."},{"first_name":"Jan A.M.","last_name":"Smeitink","full_name":"Smeitink, Jan A.M."},{"last_name":"Nijtmans","full_name":"Nijtmans, Leo G.","first_name":"Leo G."},{"orcid":"0000-0002-0977-7989","full_name":"Sazanov, Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A"},{"last_name":"Wieckowski","full_name":"Wieckowski, Mariusz R.","first_name":"Mariusz R."},{"full_name":"Koopman, Werner J.H.","last_name":"Koopman","first_name":"Werner J.H."}],"year":"2020","oa_version":"Published Version","doi":"10.1016/j.bbabio.2020.148213","day":"01","publisher":"Elsevier","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","pmid":1,"abstract":[{"text":"Mutations in NDUFS4, which encodes an accessory subunit of mitochondrial oxidative phosphorylation (OXPHOS) complex I (CI), induce Leigh syndrome (LS). LS is a poorly understood pediatric disorder featuring brain-specific anomalies and early death. To study the LS pathomechanism, we here compared OXPHOS proteomes between various Ndufs4−/− mouse tissues. Ndufs4−/− animals displayed significantly lower CI subunit levels in brain/diaphragm relative to other tissues (liver/heart/kidney/skeletal muscle), whereas other OXPHOS subunit levels were not reduced. Absence of NDUFS4 induced near complete absence of the NDUFA12 accessory subunit, a 50% reduction in other CI subunit levels, and an increase in specific CI assembly factors. Among the latter, NDUFAF2 was most highly increased. Regarding NDUFS4, NDUFA12 and NDUFAF2, identical results were obtained in Ndufs4−/− mouse embryonic fibroblasts (MEFs) and NDUFS4-mutated LS patient cells. Ndufs4−/− MEFs contained active CI in situ but blue-native-PAGE highlighted that NDUFAF2 attached to an inactive CI subcomplex (CI-830) and inactive assemblies of higher MW. In NDUFA12-mutated LS patient cells, NDUFA12 absence did not reduce NDUFS4 levels but triggered NDUFAF2 association to active CI. BN-PAGE revealed no such association in LS patient fibroblasts with mutations in other CI subunit-encoding genes where NDUFAF2 was attached to CI-830 (NDUFS1, NDUFV1 mutation) or not detected (NDUFS7 mutation). Supported by enzymological and CI in silico structural analysis, we conclude that absence of NDUFS4 induces near complete absence of NDUFA12 but not vice versa, and that NDUFAF2 stabilizes active CI in Ndufs4−/− mice and LS patient cells, perhaps in concert with mitochondrial inner membrane lipids.","lang":"eng"}],"publication_status":"published","quality_controlled":"1","type":"journal_article","citation":{"mla":"Adjobo-Hermans, Merel J. W., et al. “NDUFS4 Deletion Triggers Loss of NDUFA12 in Ndufs4−/− Mice and Leigh Syndrome Patients: A Stabilizing Role for NDUFAF2.” <i>Biochimica et Biophysica Acta - Bioenergetics</i>, vol. 1861, no. 8, 148213, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.bbabio.2020.148213\">10.1016/j.bbabio.2020.148213</a>.","ista":"Adjobo-Hermans MJW, De Haas R, Willems PHGM, Wojtala A, Van Emst-De Vries SE, Wagenaars JA, Van Den Brand M, Rodenburg RJ, Smeitink JAM, Nijtmans LG, Sazanov LA, Wieckowski MR, Koopman WJH. 2020. NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2. Biochimica et Biophysica Acta - Bioenergetics. 1861(8), 148213.","ama":"Adjobo-Hermans MJW, De Haas R, Willems PHGM, et al. NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2. <i>Biochimica et Biophysica Acta - Bioenergetics</i>. 2020;1861(8). doi:<a href=\"https://doi.org/10.1016/j.bbabio.2020.148213\">10.1016/j.bbabio.2020.148213</a>","chicago":"Adjobo-Hermans, Merel J.W., Ria De Haas, Peter H.G.M. Willems, Aleksandra Wojtala, Sjenet E. Van Emst-De Vries, Jori A. Wagenaars, Mariel Van Den Brand, et al. “NDUFS4 Deletion Triggers Loss of NDUFA12 in Ndufs4−/− Mice and Leigh Syndrome Patients: A Stabilizing Role for NDUFAF2.” <i>Biochimica et Biophysica Acta - Bioenergetics</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.bbabio.2020.148213\">https://doi.org/10.1016/j.bbabio.2020.148213</a>.","ieee":"M. J. W. Adjobo-Hermans <i>et al.</i>, “NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2,” <i>Biochimica et Biophysica Acta - Bioenergetics</i>, vol. 1861, no. 8. Elsevier, 2020.","apa":"Adjobo-Hermans, M. J. W., De Haas, R., Willems, P. H. G. M., Wojtala, A., Van Emst-De Vries, S. E., Wagenaars, J. A., … Koopman, W. J. H. (2020). NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2. <i>Biochimica et Biophysica Acta - Bioenergetics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.bbabio.2020.148213\">https://doi.org/10.1016/j.bbabio.2020.148213</a>","short":"M.J.W. Adjobo-Hermans, R. De Haas, P.H.G.M. Willems, A. Wojtala, S.E. Van Emst-De Vries, J.A. Wagenaars, M. Van Den Brand, R.J. Rodenburg, J.A.M. Smeitink, L.G. Nijtmans, L.A. Sazanov, M.R. Wieckowski, W.J.H. Koopman, Biochimica et Biophysica Acta - Bioenergetics 1861 (2020)."},"file":[{"file_id":"7798","creator":"dernst","date_created":"2020-05-04T12:25:19Z","date_updated":"2020-07-14T12:48:03Z","content_type":"application/pdf","file_size":3826792,"relation":"main_file","checksum":"a9b152381307cf45fe266a8dc5640388","access_level":"open_access","file_name":"2020_BBA_Adjobo_Hermans.pdf"}],"article_type":"original","ddc":["570"],"month":"08","date_updated":"2023-08-21T06:19:18Z","title":"NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2","date_published":"2020-08-01T00:00:00Z","article_processing_charge":"No","file_date_updated":"2020-07-14T12:48:03Z","publication":"Biochimica et Biophysica Acta - Bioenergetics","date_created":"2020-05-03T22:00:47Z","external_id":{"pmid":["32335026"],"isi":["000540842000012"]},"_id":"7788","volume":1861,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"8","intvolume":"      1861","oa":1,"article_number":"148213","scopus_import":"1"},{"volume":181,"intvolume":"       181","oa":1,"issue":"3","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1","date_updated":"2023-08-21T06:17:43Z","title":"Defining the design principles of skin epidermis postnatal growth","month":"04","article_processing_charge":"No","date_published":"2020-04-30T00:00:00Z","publication":"Cell","file_date_updated":"2020-07-14T12:48:03Z","page":"604-620.e22","_id":"7789","external_id":{"pmid":["32259486"],"isi":["000530708400016"]},"date_created":"2020-05-03T22:00:48Z","publication_status":"published","abstract":[{"text":"During embryonic and postnatal development, organs and tissues grow steadily to achieve their final size at the end of puberty. However, little is known about the cellular dynamics that mediate postnatal growth. By combining in vivo clonal lineage tracing, proliferation kinetics, single-cell transcriptomics, andin vitro micro-pattern experiments, we resolved the cellular dynamics taking place during postnatal skin epidermis expansion. Our data revealed that harmonious growth is engineered by a single population of developmental progenitors presenting a fixed fate imbalance of self-renewing divisions with an ever-decreasing proliferation rate. Single-cell RNA sequencing revealed that epidermal developmental progenitors form a more uniform population compared with adult stem and progenitor cells. Finally, we found that the spatial pattern of cell division orientation is dictated locally by the underlying collagen fiber orientation. Our results uncover a simple design principle of organ growth where progenitors and differentiated cells expand in harmony with their surrounding tissues.","lang":"eng"}],"has_accepted_license":"1","status":"public","pmid":1,"language":[{"iso":"eng"}],"quality_controlled":"1","file":[{"file_name":"2020_Cell_Dekoninck.pdf","access_level":"open_access","checksum":"e2114902f4e9d75a752e9efb5ae06011","relation":"main_file","file_size":17992888,"date_updated":"2020-07-14T12:48:03Z","content_type":"application/pdf","date_created":"2020-05-04T10:20:55Z","creator":"dernst","file_id":"7795"}],"type":"journal_article","citation":{"mla":"Dekoninck, Sophie, et al. “Defining the Design Principles of Skin Epidermis Postnatal Growth.” <i>Cell</i>, vol. 181, no. 3, Elsevier, 2020, p. 604–620.e22, doi:<a href=\"https://doi.org/10.1016/j.cell.2020.03.015\">10.1016/j.cell.2020.03.015</a>.","ista":"Dekoninck S, Hannezo EB, Sifrim A, Miroshnikova YA, Aragona M, Malfait M, Gargouri S, De Neunheuser C, Dubois C, Voet T, Wickström SA, Simons BD, Blanpain C. 2020. Defining the design principles of skin epidermis postnatal growth. Cell. 181(3), 604–620.e22.","chicago":"Dekoninck, Sophie, Edouard B Hannezo, Alejandro Sifrim, Yekaterina A. Miroshnikova, Mariaceleste Aragona, Milan Malfait, Souhir Gargouri, et al. “Defining the Design Principles of Skin Epidermis Postnatal Growth.” <i>Cell</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.cell.2020.03.015\">https://doi.org/10.1016/j.cell.2020.03.015</a>.","ama":"Dekoninck S, Hannezo EB, Sifrim A, et al. Defining the design principles of skin epidermis postnatal growth. <i>Cell</i>. 2020;181(3):604-620.e22. doi:<a href=\"https://doi.org/10.1016/j.cell.2020.03.015\">10.1016/j.cell.2020.03.015</a>","ieee":"S. Dekoninck <i>et al.</i>, “Defining the design principles of skin epidermis postnatal growth,” <i>Cell</i>, vol. 181, no. 3. Elsevier, p. 604–620.e22, 2020.","short":"S. Dekoninck, E.B. Hannezo, A. Sifrim, Y.A. Miroshnikova, M. Aragona, M. Malfait, S. Gargouri, C. De Neunheuser, C. Dubois, T. Voet, S.A. Wickström, B.D. Simons, C. Blanpain, Cell 181 (2020) 604–620.e22.","apa":"Dekoninck, S., Hannezo, E. B., Sifrim, A., Miroshnikova, Y. A., Aragona, M., Malfait, M., … Blanpain, C. (2020). Defining the design principles of skin epidermis postnatal growth. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2020.03.015\">https://doi.org/10.1016/j.cell.2020.03.015</a>"},"ddc":["570"],"article_type":"original","department":[{"_id":"EdHa"}],"publication_identifier":{"eissn":["10974172"],"issn":["00928674"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"year":"2020","isi":1,"author":[{"first_name":"Sophie","full_name":"Dekoninck, Sophie","last_name":"Dekoninck"},{"first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561"},{"first_name":"Alejandro","full_name":"Sifrim, Alejandro","last_name":"Sifrim"},{"last_name":"Miroshnikova","full_name":"Miroshnikova, Yekaterina A.","first_name":"Yekaterina A."},{"first_name":"Mariaceleste","full_name":"Aragona, Mariaceleste","last_name":"Aragona"},{"last_name":"Malfait","full_name":"Malfait, Milan","first_name":"Milan"},{"last_name":"Gargouri","full_name":"Gargouri, Souhir","first_name":"Souhir"},{"last_name":"De Neunheuser","full_name":"De Neunheuser, Charlotte","first_name":"Charlotte"},{"first_name":"Christine","last_name":"Dubois","full_name":"Dubois, Christine"},{"full_name":"Voet, Thierry","last_name":"Voet","first_name":"Thierry"},{"first_name":"Sara A.","full_name":"Wickström, Sara A.","last_name":"Wickström"},{"last_name":"Simons","full_name":"Simons, Benjamin D.","first_name":"Benjamin D."},{"last_name":"Blanpain","full_name":"Blanpain, Cédric","first_name":"Cédric"}],"doi":"10.1016/j.cell.2020.03.015","oa_version":"Published Version","publisher":"Elsevier","day":"30"},{"department":[{"_id":"RoSe"}],"publication_identifier":{"eissn":["20505094"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"year":"2020","isi":1,"author":[{"first_name":"Andreas","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3146-6746","full_name":"Deuchert, Andreas","last_name":"Deuchert"},{"full_name":"Mayer, Simon","last_name":"Mayer","first_name":"Simon","id":"30C4630A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Seiringer","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"}],"doi":"10.1017/fms.2020.17","oa_version":"Published Version","arxiv":1,"publisher":"Cambridge University Press","day":"14","publication_status":"published","abstract":[{"text":"We prove a lower bound for the free energy (per unit volume) of the two-dimensional Bose gas in the thermodynamic limit. We show that the free energy at density 𝜌 and inverse temperature 𝛽 differs from the one of the noninteracting system by the correction term 𝜋𝜌𝜌𝛽𝛽 . Here, is the scattering length of the interaction potential, and 𝛽 is the inverse Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity. The result is valid in the dilute limit 𝜌 and if 𝛽𝜌 .","lang":"eng"}],"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"quality_controlled":"1","file":[{"creator":"dernst","date_created":"2020-05-04T12:02:41Z","file_id":"7797","file_name":"2020_ForumMath_Deuchert.pdf","access_level":"open_access","relation":"main_file","checksum":"8a64da99d107686997876d7cad8cfe1e","content_type":"application/pdf","date_updated":"2020-07-14T12:48:03Z","file_size":692530}],"citation":{"apa":"Deuchert, A., Mayer, S., &#38; Seiringer, R. (2020). The free energy of the two-dimensional dilute Bose gas. I. Lower bound. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2020.17\">https://doi.org/10.1017/fms.2020.17</a>","short":"A. Deuchert, S. Mayer, R. Seiringer, Forum of Mathematics, Sigma 8 (2020).","ieee":"A. Deuchert, S. Mayer, and R. Seiringer, “The free energy of the two-dimensional dilute Bose gas. I. Lower bound,” <i>Forum of Mathematics, Sigma</i>, vol. 8. Cambridge University Press, 2020.","ama":"Deuchert A, Mayer S, Seiringer R. The free energy of the two-dimensional dilute Bose gas. I. Lower bound. <i>Forum of Mathematics, Sigma</i>. 2020;8. doi:<a href=\"https://doi.org/10.1017/fms.2020.17\">10.1017/fms.2020.17</a>","chicago":"Deuchert, Andreas, Simon Mayer, and Robert Seiringer. “The Free Energy of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2020. <a href=\"https://doi.org/10.1017/fms.2020.17\">https://doi.org/10.1017/fms.2020.17</a>.","ista":"Deuchert A, Mayer S, Seiringer R. 2020. The free energy of the two-dimensional dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 8, e20.","mla":"Deuchert, Andreas, et al. “The Free Energy of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” <i>Forum of Mathematics, Sigma</i>, vol. 8, e20, Cambridge University Press, 2020, doi:<a href=\"https://doi.org/10.1017/fms.2020.17\">10.1017/fms.2020.17</a>."},"type":"journal_article","ddc":["510"],"article_type":"original","date_updated":"2023-08-21T06:18:49Z","title":"The free energy of the two-dimensional dilute Bose gas. I. Lower bound","month":"03","article_processing_charge":"No","date_published":"2020-03-14T00:00:00Z","ec_funded":1,"publication":"Forum of Mathematics, Sigma","file_date_updated":"2020-07-14T12:48:03Z","project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","call_identifier":"H2020"}],"_id":"7790","external_id":{"arxiv":["1910.03372"],"isi":["000527342000001"]},"date_created":"2020-05-03T22:00:48Z","related_material":{"record":[{"id":"7524","relation":"earlier_version","status":"public"}]},"volume":8,"article_number":"e20","oa":1,"intvolume":"         8","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1"},{"doi":"10.7554/elife.51787","oa_version":"Published Version","publisher":"eLife Sciences Publications","day":"08","publication_identifier":{"issn":["2050-084X"]},"department":[{"_id":"JiFr"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"first_name":"André","full_name":"Kuhn, André","last_name":"Kuhn"},{"full_name":"Ramans Harborough, Sigurd","last_name":"Ramans Harborough","first_name":"Sigurd"},{"full_name":"McLaughlin, Heather M","last_name":"McLaughlin","first_name":"Heather M"},{"last_name":"Natarajan","full_name":"Natarajan, Bhavani","first_name":"Bhavani"},{"id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","first_name":"Inge","last_name":"Verstraeten","full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328"},{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml"},{"first_name":"Stefan","full_name":"Kepinski, Stefan","last_name":"Kepinski"},{"first_name":"Lars","full_name":"Østergaard, Lars","last_name":"Østergaard"}],"isi":1,"year":"2020","file":[{"checksum":"15d740de1a741fdcc6ec128c48eed017","relation":"main_file","date_updated":"2020-07-14T12:48:03Z","content_type":"application/pdf","file_size":2893082,"file_name":"2020_eLife_Kuhn.pdf","access_level":"open_access","file_id":"7794","creator":"dernst","date_created":"2020-05-04T09:06:43Z"}],"citation":{"chicago":"Kuhn, André, Sigurd Ramans Harborough, Heather M McLaughlin, Bhavani Natarajan, Inge Verstraeten, Jiří Friml, Stefan Kepinski, and Lars Østergaard. “Direct ETTIN-Auxin Interaction Controls Chromatin States in Gynoecium Development.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/elife.51787\">https://doi.org/10.7554/elife.51787</a>.","ama":"Kuhn A, Ramans Harborough S, McLaughlin HM, et al. Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/elife.51787\">10.7554/elife.51787</a>","ista":"Kuhn A, Ramans Harborough S, McLaughlin HM, Natarajan B, Verstraeten I, Friml J, Kepinski S, Østergaard L. 2020. Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. eLife. 9, e51787.","mla":"Kuhn, André, et al. “Direct ETTIN-Auxin Interaction Controls Chromatin States in Gynoecium Development.” <i>ELife</i>, vol. 9, e51787, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/elife.51787\">10.7554/elife.51787</a>.","apa":"Kuhn, A., Ramans Harborough, S., McLaughlin, H. M., Natarajan, B., Verstraeten, I., Friml, J., … Østergaard, L. (2020). Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/elife.51787\">https://doi.org/10.7554/elife.51787</a>","short":"A. Kuhn, S. Ramans Harborough, H.M. McLaughlin, B. Natarajan, I. Verstraeten, J. Friml, S. Kepinski, L. Østergaard, ELife 9 (2020).","ieee":"A. Kuhn <i>et al.</i>, “Direct ETTIN-auxin interaction controls chromatin states in gynoecium development,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020."},"type":"journal_article","ddc":["580"],"article_type":"original","abstract":[{"text":"Hormonal signalling in animals often involves direct transcription factor-hormone interactions that modulate gene expression. In contrast, plant hormone signalling is most commonly based on de-repression via the degradation of transcriptional repressors. Recently, we uncovered a non-canonical signalling mechanism for the plant hormone auxin whereby auxin directly affects the activity of the atypical auxin response factor (ARF), ETTIN towards target genes without the requirement for protein degradation. Here we show that ETTIN directly binds auxin, leading to dissociation from co-repressor proteins of the TOPLESS/TOPLESS-RELATED family followed by histone acetylation and induction of gene expression. This mechanism is reminiscent of animal hormone signalling as it affects the activity towards regulation of target genes and provides the first example of a DNA-bound hormone receptor in plants. Whilst auxin affects canonical ARFs indirectly by facilitating degradation of Aux/IAA repressors, direct ETTIN-auxin interactions allow switching between repressive and de-repressive chromatin states in an instantly-reversible manner.","lang":"eng"}],"publication_status":"published","language":[{"iso":"eng"}],"pmid":1,"status":"public","has_accepted_license":"1","quality_controlled":"1","file_date_updated":"2020-07-14T12:48:03Z","publication":"eLife","_id":"7793","date_created":"2020-05-04T08:50:47Z","external_id":{"isi":["000527752200001"],"pmid":["32267233"]},"date_updated":"2023-08-21T06:17:12Z","title":"Direct ETTIN-auxin interaction controls chromatin states in gynoecium development","month":"04","date_published":"2020-04-08T00:00:00Z","article_processing_charge":"No","scopus_import":"1","volume":9,"article_number":"e51787","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":"         9","oa":1},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"department":[{"_id":"JoDa"},{"_id":"GaNo"},{"_id":"LifeSc"}],"author":[{"full_name":"Morandell, Jasmin","last_name":"Morandell","first_name":"Jasmin","id":"4739D480-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Schwarz","full_name":"Schwarz, Lena A","id":"29A8453C-F248-11E8-B48F-1D18A9856A87","first_name":"Lena A"},{"first_name":"Bernadette","id":"36035796-5ACA-11E9-A75E-7AF2E5697425","last_name":"Basilico","orcid":"0000-0003-1843-3173","full_name":"Basilico, Bernadette"},{"id":"4323B49C-F248-11E8-B48F-1D18A9856A87","first_name":"Saren","orcid":"0000-0003-1671-393X","full_name":"Tasciyan, Saren","last_name":"Tasciyan"},{"first_name":"Armel","id":"2A103192-F248-11E8-B48F-1D18A9856A87","full_name":"Nicolas, Armel","last_name":"Nicolas"},{"first_name":"Christoph M","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer","orcid":"0000-0003-1216-9105","full_name":"Sommer, Christoph M"},{"id":"382077BA-F248-11E8-B48F-1D18A9856A87","first_name":"Caroline","full_name":"Kreuzinger, Caroline","last_name":"Kreuzinger"},{"first_name":"Lisa","id":"3B2ABCF4-F248-11E8-B48F-1D18A9856A87","full_name":"Knaus, Lisa","last_name":"Knaus"},{"last_name":"Dobler","full_name":"Dobler, Zoe","first_name":"Zoe","id":"D23090A2-9057-11EA-883A-A8396FC7A38F"},{"last_name":"Cacci","full_name":"Cacci, Emanuele","first_name":"Emanuele"},{"id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johann G","last_name":"Danzl","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973"},{"full_name":"Novarino, Gaia","orcid":"0000-0002-7673-7178","last_name":"Novarino","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"}],"year":"2020","oa_version":"Preprint","doi":"10.1101/2020.01.10.902064 ","day":"11","publisher":"Cold Spring Harbor Laboratory","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","abstract":[{"lang":"eng","text":"De novo loss of function mutations in the ubiquitin ligase-encoding gene Cullin3 (CUL3) lead to autism spectrum disorder (ASD). Here, we used Cul3 mouse models to evaluate the consequences of Cul3 mutations in vivo. Our results show that Cul3 haploinsufficient mice exhibit deficits in motor coordination as well as ASD-relevant social and cognitive impairments. Cul3 mutant brain displays cortical lamination abnormalities due to defective neuronal migration and reduced numbers of excitatory and inhibitory neurons. In line with the observed abnormal columnar organization, Cul3 haploinsufficiency is associated with decreased spontaneous excitatory and inhibitory activity in the cortex. At the molecular level, employing a quantitative proteomic approach, we show that Cul3 regulates cytoskeletal and adhesion protein abundance in mouse embryos. Abnormal regulation of cytoskeletal proteins in Cul3 mutant neuronal cells results in atypical organization of the actin mesh at the cell leading edge, likely causing the observed migration deficits. In contrast to these important functions early in development, Cul3 deficiency appears less relevant at adult stages. In fact, induction of Cul3 haploinsufficiency in adult mice does not result in the behavioral defects observed in constitutive Cul3 haploinsufficient animals. Taken together, our data indicate that Cul3 has a critical role in the regulation of cytoskeletal proteins and neuronal migration and that ASD-associated defects and behavioral abnormalities are primarily due to Cul3 functions at early developmental stages."}],"publication_status":"submitted","citation":{"short":"J. Morandell, L.A. Schwarz, B. Basilico, S. Tasciyan, A. Nicolas, C.M. Sommer, C. Kreuzinger, L. Knaus, Z. Dobler, E. Cacci, J.G. Danzl, G. Novarino, BioRxiv (n.d.).","apa":"Morandell, J., Schwarz, L. A., Basilico, B., Tasciyan, S., Nicolas, A., Sommer, C. M., … Novarino, G. (n.d.). Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. <i>bioRxiv</i>. Cold Spring Harbor Laboratory. <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">https://doi.org/10.1101/2020.01.10.902064 </a>","ieee":"J. Morandell <i>et al.</i>, “Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development,” <i>bioRxiv</i>. Cold Spring Harbor Laboratory.","chicago":"Morandell, Jasmin, Lena A Schwarz, Bernadette Basilico, Saren Tasciyan, Armel Nicolas, Christoph M Sommer, Caroline Kreuzinger, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis and Cell Migration during a Critical Window of Brain Development.” <i>BioRxiv</i>. Cold Spring Harbor Laboratory, n.d. <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">https://doi.org/10.1101/2020.01.10.902064 </a>.","ama":"Morandell J, Schwarz LA, Basilico B, et al. Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>","ista":"Morandell J, Schwarz LA, Basilico B, Tasciyan S, Nicolas A, Sommer CM, Kreuzinger C, Knaus L, Dobler Z, Cacci E, Danzl JG, Novarino G. Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. bioRxiv, <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>.","mla":"Morandell, Jasmin, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis and Cell Migration during a Critical Window of Brain Development.” <i>BioRxiv</i>, Cold Spring Harbor Laboratory, doi:<a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>."},"type":"preprint","file":[{"date_created":"2020-05-05T14:31:19Z","creator":"rsix","file_id":"7801","file_name":"2020.01.10.902064v1.full.pdf","access_level":"open_access","relation":"main_file","checksum":"c6799ab5daba80efe8e2ed63c15f8c81","file_size":2931370,"content_type":"application/pdf","date_updated":"2020-07-14T12:48:03Z"}],"ddc":["570"],"acknowledged_ssus":[{"_id":"PreCl"}],"month":"01","title":"Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development","date_updated":"2024-09-10T12:04:26Z","date_published":"2020-01-11T00:00:00Z","article_processing_charge":"No","file_date_updated":"2020-07-14T12:48:03Z","publication":"bioRxiv","date_created":"2020-05-05T14:31:33Z","_id":"7800","project":[{"_id":"265CB4D0-B435-11E9-9278-68D0E5697425","grant_number":"I03600","call_identifier":"FWF","name":"Optical control of synaptic function via adhesion molecules"},{"name":"Molecular Drug Targets","grant_number":"W1232-B24","_id":"2548AE96-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8620"},{"relation":"later_version","status":"public","id":"9429"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1},{"department":[{"_id":"DaAl"}],"year":"2020","conference":{"end_date":"2020-07-17","start_date":"2020-07-15","location":"Virtual Event, United States","name":"SPAA: Symposium on Parallelism in Algorithms and Architectures"},"author":[{"first_name":"Artur","full_name":"Czumaj, Artur","orcid":"0000-0002-5646-9524","last_name":"Czumaj"},{"last_name":"Davies","orcid":"0000-0002-5646-9524","full_name":"Davies, Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425","first_name":"Peter"},{"first_name":"Merav","last_name":"Parter","full_name":"Parter, Merav"}],"isi":1,"oa_version":"Preprint","arxiv":1,"doi":"10.1145/3350755.3400282","day":"01","publisher":"Association for Computing Machinery","status":"public","language":[{"iso":"eng"}],"abstract":[{"text":"The Massively Parallel Computation (MPC) model is an emerging model which distills core  aspects of distributed and parallel computation. It has been developed as a tool to solve (typically graph) problems in systems where the input is distributed over many machines with limited space.\r\n\t\r\nRecent work has focused on the regime in which machines have sublinear (in $n$, the number of nodes in the input graph) space, with randomized algorithms presented for fundamental graph problems of Maximal Matching and Maximal Independent Set. However, there have been no prior corresponding deterministic algorithms.\r\n\t\r\n\tA major challenge underlying the sublinear space setting is that the local space of each machine might be too small to store all the edges incident to a single node. This poses a considerable obstacle compared to the classical models in which each node is assumed to know and have easy access to its incident edges. To overcome this barrier we introduce a new graph sparsification technique that deterministically computes a low-degree subgraph with additional desired properties. The degree of the nodes in this subgraph is small in the sense that the edges of each node can be now stored on a single machine. This low-degree subgraph also has the property that solving the problem on this subgraph provides \\emph{significant} global progress, i.e., progress towards solving the problem for the original input graph.\r\n\t\r\nUsing this framework to derandomize the well-known randomized algorithm of Luby [SICOMP'86], we obtain $O(\\log \\Delta+\\log\\log n)$-round deterministic MPC algorithms for solving the fundamental problems of Maximal Matching and Maximal Independent Set with $O(n^{\\epsilon})$ space on each machine for any constant $\\epsilon > 0$. Based on the recent work of Ghaffari et al. [FOCS'18], this additive $O(\\log\\log n)$ factor is conditionally essential. These algorithms can also be shown to run in $O(\\log \\Delta)$ rounds in the closely related model of CONGESTED CLIQUE, improving upon the state-of-the-art bound of $O(\\log^2 \\Delta)$ rounds by Censor-Hillel et al. [DISC'17].","lang":"eng"}],"publication_status":"published","quality_controlled":"1","citation":{"ieee":"A. Czumaj, P. Davies, and M. Parter, “Graph sparsification for derandomizing massively parallel computation with low space,” in <i>Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)</i>, Virtual Event, United States, 2020, no. 7, pp. 175–185.","short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020), Association for Computing Machinery, 2020, pp. 175–185.","apa":"Czumaj, A., Davies, P., &#38; Parter, M. (2020). Graph sparsification for derandomizing massively parallel computation with low space. In <i>Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)</i> (pp. 175–185). Virtual Event, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3350755.3400282\">https://doi.org/10.1145/3350755.3400282</a>","mla":"Czumaj, Artur, et al. “Graph Sparsification for Derandomizing Massively Parallel Computation with Low Space.” <i>Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)</i>, no. 7, Association for Computing Machinery, 2020, pp. 175–85, doi:<a href=\"https://doi.org/10.1145/3350755.3400282\">10.1145/3350755.3400282</a>.","ista":"Czumaj A, Davies P, Parter M. 2020. Graph sparsification for derandomizing massively parallel computation with low space. Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020). SPAA: Symposium on Parallelism in Algorithms and Architectures, 175–185.","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Graph Sparsification for Derandomizing Massively Parallel Computation with Low Space.” In <i>Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)</i>, 175–85. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3350755.3400282\">https://doi.org/10.1145/3350755.3400282</a>.","ama":"Czumaj A, Davies P, Parter M. Graph sparsification for derandomizing massively parallel computation with low space. In: <i>Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)</i>. Association for Computing Machinery; 2020:175-185. doi:<a href=\"https://doi.org/10.1145/3350755.3400282\">10.1145/3350755.3400282</a>"},"type":"conference","month":"07","title":"Graph sparsification for derandomizing massively parallel computation with low space","date_updated":"2024-02-28T12:53:09Z","ec_funded":1,"article_processing_charge":"No","date_published":"2020-07-01T00:00:00Z","page":"175-185","publication":"Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020)","external_id":{"arxiv":["1912.05390"],"isi":["000744436200015"]},"date_created":"2020-05-06T08:53:34Z","_id":"7802","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"main_file_link":[{"url":"https://arxiv.org/abs/1912.05390","open_access":"1"}],"related_material":{"record":[{"id":"9541","status":"public","relation":"later_version"}]},"oa":1,"issue":"7","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1"},{"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"07","title":"Simple, deterministic, constant-round coloring in the congested clique","date_updated":"2021-01-12T08:15:37Z","ec_funded":1,"article_processing_charge":"No","date_published":"2020-07-01T00:00:00Z","page":"309-318","publication":"Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing","file_date_updated":"2020-10-08T08:17:36Z","external_id":{"arxiv":["2009.06043"]},"date_created":"2020-05-06T09:02:14Z","_id":"7803","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"publication_status":"published","abstract":[{"lang":"eng","text":"We settle the complexity of the (Δ+1)-coloring and (Δ+1)-list coloring problems in the CONGESTED CLIQUE model by presenting a simple deterministic algorithm for both problems running in a constant number of rounds. This matches the complexity of the recent breakthrough randomized constant-round (Δ+1)-list coloring algorithm due to Chang et al. (PODC'19), and significantly improves upon the state-of-the-art O(logΔ)-round deterministic (Δ+1)-coloring bound of Parter (ICALP'18).\r\nA remarkable property of our algorithm is its simplicity. Whereas the state-of-the-art randomized algorithms for this problem are based on the quite involved local coloring algorithm of Chang et al. (STOC'18), our algorithm can be described in just a few lines. At a high level, it applies a careful derandomization of a recursive procedure which partitions the nodes and their respective palettes into separate bins. We show that after O(1) recursion steps, the remaining uncolored subgraph within each bin has linear size, and thus can be solved locally by collecting it to a single node. This algorithm can also be implemented in the Massively Parallel Computation (MPC) model provided that each machine has linear (in n, the number of nodes in the input graph) space.\r\nWe also show an extension of our algorithm to the MPC regime in which machines have sublinear space: we present the first deterministic (Δ+1)-list coloring algorithm designed for sublinear-space MPC, which runs in O(logΔ+loglogn) rounds."}],"quality_controlled":"1","citation":{"apa":"Czumaj, A., Davies, P., &#38; Parter, M. (2020). Simple, deterministic, constant-round coloring in the congested clique. In <i>Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing</i> (pp. 309–318). Salerno, Italy: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3382734.3405751\">https://doi.org/10.1145/3382734.3405751</a>","short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2020, pp. 309–318.","ieee":"A. Czumaj, P. Davies, and M. Parter, “Simple, deterministic, constant-round coloring in the congested clique,” in <i>Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing</i>, Salerno, Italy, 2020, pp. 309–318.","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Simple, Deterministic, Constant-Round Coloring in the Congested Clique.” In <i>Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing</i>, 309–18. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3382734.3405751\">https://doi.org/10.1145/3382734.3405751</a>.","ama":"Czumaj A, Davies P, Parter M. Simple, deterministic, constant-round coloring in the congested clique. In: <i>Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing</i>. Association for Computing Machinery; 2020:309-318. doi:<a href=\"https://doi.org/10.1145/3382734.3405751\">10.1145/3382734.3405751</a>","mla":"Czumaj, Artur, et al. “Simple, Deterministic, Constant-Round Coloring in the Congested Clique.” <i>Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing</i>, Association for Computing Machinery, 2020, pp. 309–18, doi:<a href=\"https://doi.org/10.1145/3382734.3405751\">10.1145/3382734.3405751</a>.","ista":"Czumaj A, Davies P, Parter M. 2020. Simple, deterministic, constant-round coloring in the congested clique. Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing. PODC: Symposium on Principles of Distributed Computing, 309–318."},"type":"conference","file":[{"file_name":"ColoringArxiv.pdf","success":1,"access_level":"open_access","checksum":"46fe4fc58a64eb04068115573f631d4c","relation":"main_file","date_updated":"2020-10-08T08:17:36Z","content_type":"application/pdf","file_size":520051,"date_created":"2020-10-08T08:17:36Z","creator":"pdavies","file_id":"8624"}],"ddc":["000"],"department":[{"_id":"DaAl"}],"conference":{"end_date":"2020-08-07","location":"Salerno, Italy","start_date":"2020-08-03","name":"PODC: Symposium on Principles of Distributed Computing"},"year":"2020","author":[{"full_name":"Czumaj, Artur","orcid":"0000-0002-5646-9524","last_name":"Czumaj","first_name":"Artur"},{"last_name":"Davies","orcid":"0000-0002-5646-9524","full_name":"Davies, Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425","first_name":"Peter"},{"last_name":"Parter","full_name":"Parter, Merav","first_name":"Merav"}],"oa_version":"Submitted Version","arxiv":1,"doi":"10.1145/3382734.3405751","day":"01","publisher":"Association for Computing Machinery"}]