[{"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"status":"public","ec_funded":1,"scopus_import":"1","month":"12","title":"Inhibition of cell expansion by rapid ABP1-mediated auxin effect on microtubules","date_published":"2014-12-04T00:00:00Z","year":"2014","_id":"1862","intvolume":"       516","date_updated":"2025-09-29T13:10:05Z","publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]},"date_created":"2018-12-11T11:54:25Z","author":[{"full_name":"Chen, Xu","last_name":"Chen","first_name":"Xu","id":"4E5ADCAA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Grandont, Laurie","last_name":"Grandont","first_name":"Laurie"},{"id":"33CA54A6-F248-11E8-B48F-1D18A9856A87","last_name":"Li","first_name":"Hongjiang","full_name":"Li, Hongjiang","orcid":"0000-0001-5039-9660"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","last_name":"Hauschild","orcid":"0000-0001-9843-3522","full_name":"Hauschild, Robert"},{"last_name":"Paque","first_name":"Sébastien","full_name":"Paque, Sébastien"},{"full_name":"Abuzeineh, Anas","first_name":"Anas","last_name":"Abuzeineh"},{"id":"4CAAA450-78D2-11EA-8E57-B40A396E08BA","last_name":"Rakusova","first_name":"Hana","full_name":"Rakusova, Hana"},{"orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","first_name":"Eva","last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Catherine","last_name":"Perrot Rechenmann","full_name":"Perrot Rechenmann, Catherine"},{"first_name":"Jirí","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"}],"project":[{"call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"The prominent and evolutionarily ancient role of the plant hormone auxin is the regulation of cell expansion. Cell expansion requires ordered arrangement of the cytoskeleton but molecular mechanisms underlying its regulation by signalling molecules including auxin are unknown. Here we show in the model plant Arabidopsis thaliana that in elongating cells exogenous application of auxin or redistribution of endogenous auxin induces very rapid microtubule re-orientation from transverse to longitudinal, coherent with the inhibition of cell expansion. This fast auxin effect requires auxin binding protein 1 (ABP1) and involves a contribution of downstream signalling components such as ROP6 GTPase, ROP-interactive protein RIC1 and the microtubule-severing protein katanin. These components are required for rapid auxin-and ABP1-mediated re-orientation of microtubules to regulate cell elongation in roots and dark-grown hypocotyls as well as asymmetric growth during gravitropic responses."}],"volume":516,"oa":1,"pmid":1,"external_id":{"isi":["000346310800045"],"pmid":["25409144"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","page":"90 - 93","issue":"729","doi":"10.1038/nature13889","acknowledgement":"We thank R. Dixit for performing complementary experiments, D. W. Ehrhardt and T. Hashimoto for providing the seeds of TUB6–RFP and EB1b–GFP respectively, E. Zazimalova, J. Petrasek and M. Fendrych for discussing the manuscript and J. Leung for text optimization. This work was supported by the European Research Council (project ERC-2011-StG-20101109-PSDP, to J.F.), ANR blanc AuxiWall project (ANR-11-BSV5-0007, to C.P.-R. and L.G.) and the Agency for Innovation by Science and Technology (IWT) (to H.R.). This work benefited from the facilities and expertise of the Imagif Cell Biology platform (http://www.imagif.cnrs.fr), which is supported by the Conseil Général de l’Essonne.","day":"04","publist_id":"5237","isi":1,"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4257754/"}],"citation":{"ieee":"X. Chen <i>et al.</i>, “Inhibition of cell expansion by rapid ABP1-mediated auxin effect on microtubules,” <i>Nature</i>, vol. 516, no. 729. Nature Publishing Group, pp. 90–93, 2014.","short":"X. Chen, L. Grandont, H. Li, R. Hauschild, S. Paque, A. Abuzeineh, H. Rakusova, E. Benková, C. Perrot Rechenmann, J. Friml, Nature 516 (2014) 90–93.","mla":"Chen, Xu, et al. “Inhibition of Cell Expansion by Rapid ABP1-Mediated Auxin Effect on Microtubules.” <i>Nature</i>, vol. 516, no. 729, Nature Publishing Group, 2014, pp. 90–93, doi:<a href=\"https://doi.org/10.1038/nature13889\">10.1038/nature13889</a>.","apa":"Chen, X., Grandont, L., Li, H., Hauschild, R., Paque, S., Abuzeineh, A., … Friml, J. (2014). Inhibition of cell expansion by rapid ABP1-mediated auxin effect on microtubules. <i>Nature</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nature13889\">https://doi.org/10.1038/nature13889</a>","ama":"Chen X, Grandont L, Li H, et al. Inhibition of cell expansion by rapid ABP1-mediated auxin effect on microtubules. <i>Nature</i>. 2014;516(729):90-93. doi:<a href=\"https://doi.org/10.1038/nature13889\">10.1038/nature13889</a>","chicago":"Chen, Xu, Laurie Grandont, Hongjiang Li, Robert Hauschild, Sébastien Paque, Anas Abuzeineh, Hana Rakusova, Eva Benková, Catherine Perrot Rechenmann, and Jiří Friml. “Inhibition of Cell Expansion by Rapid ABP1-Mediated Auxin Effect on Microtubules.” <i>Nature</i>. Nature Publishing Group, 2014. <a href=\"https://doi.org/10.1038/nature13889\">https://doi.org/10.1038/nature13889</a>.","ista":"Chen X, Grandont L, Li H, Hauschild R, Paque S, Abuzeineh A, Rakusova H, Benková E, Perrot Rechenmann C, Friml J. 2014. Inhibition of cell expansion by rapid ABP1-mediated auxin effect on microtubules. Nature. 516(729), 90–93."},"corr_author":"1","department":[{"_id":"JiFr"},{"_id":"Bio"},{"_id":"EvBe"}],"quality_controlled":"1","publication_status":"published","type":"journal_article","publication":"Nature","publisher":"Nature Publishing Group"},{"_id":"1869","year":"2014","intvolume":"      8855","month":"01","scopus_import":"1","title":"Suraq - a controller synthesis tool using uninterpreted functions","date_published":"2014-01-01T00:00:00Z","status":"public","ec_funded":1,"language":[{"iso":"eng"}],"volume":8855,"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"None","abstract":[{"lang":"eng","text":"Boolean controllers for systems with complex datapaths are often very difficult to implement correctly, in particular when concurrency is involved. Yet, in many instances it is easy to formally specify correctness. For example, the specification for the controller of a pipelined processor only has to state that the pipelined processor gives the same results as a non-pipelined reference design. This makes such controllers a good target for automated synthesis. However, an efficient abstraction for the complex datapath elements is needed, as a bit-precise description is often infeasible. We present Suraq, the first controller synthesis tool which uses uninterpreted functions for the abstraction. Quantified firstorder formulas (with specific quantifier structure) serve as the specification language from which Suraq synthesizes Boolean controllers. Suraq transforms the specification into an unsatisfiable SMT formula, and uses Craig interpolation to compute its results. Using Suraq, we were able to synthesize a controller (consisting of two Boolean signals) for a five-stage pipelined DLX processor in roughly one hour and 15 minutes."}],"date_created":"2018-12-11T11:54:27Z","author":[{"full_name":"Hofferek, Georg","first_name":"Georg","last_name":"Hofferek"},{"id":"335E5684-F248-11E8-B48F-1D18A9856A87","first_name":"Ashutosh","last_name":"Gupta","full_name":"Gupta, Ashutosh"}],"editor":[{"full_name":"Yahav, Eran","first_name":"Eran","last_name":"Yahav"}],"project":[{"call_identifier":"FP7","_id":"25EE3708-B435-11E9-9278-68D0E5697425","name":"Quantitative Reactive Modeling","grant_number":"267989"},{"name":"Game Theory","grant_number":"S11407","call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425"}],"date_updated":"2024-10-21T06:02:48Z","publist_id":"5228","day":"01","citation":{"ieee":"G. Hofferek and A. Gupta, “Suraq - a controller synthesis tool using uninterpreted functions,” in <i>HVC 2014</i>, Haifa, Israel, 2014, vol. 8855, pp. 68–74.","short":"G. Hofferek, A. Gupta, in:, E. Yahav (Ed.), HVC 2014, Springer, 2014, pp. 68–74.","ama":"Hofferek G, Gupta A. Suraq - a controller synthesis tool using uninterpreted functions. In: Yahav E, ed. <i>HVC 2014</i>. Vol 8855. Springer; 2014:68-74. doi:<a href=\"https://doi.org/10.1007/978-3-319-13338-6_6\">10.1007/978-3-319-13338-6_6</a>","apa":"Hofferek, G., &#38; Gupta, A. (2014). Suraq - a controller synthesis tool using uninterpreted functions. In E. Yahav (Ed.), <i>HVC 2014</i> (Vol. 8855, pp. 68–74). Haifa, Israel: Springer. <a href=\"https://doi.org/10.1007/978-3-319-13338-6_6\">https://doi.org/10.1007/978-3-319-13338-6_6</a>","ista":"Hofferek G, Gupta A. 2014. Suraq - a controller synthesis tool using uninterpreted functions. HVC 2014. HVC: Haifa Verification Conference, LNCS, vol. 8855, 68–74.","chicago":"Hofferek, Georg, and Ashutosh Gupta. “Suraq - a Controller Synthesis Tool Using Uninterpreted Functions.” In <i>HVC 2014</i>, edited by Eran Yahav, 8855:68–74. Springer, 2014. <a href=\"https://doi.org/10.1007/978-3-319-13338-6_6\">https://doi.org/10.1007/978-3-319-13338-6_6</a>.","mla":"Hofferek, Georg, and Ashutosh Gupta. “Suraq - a Controller Synthesis Tool Using Uninterpreted Functions.” <i>HVC 2014</i>, edited by Eran Yahav, vol. 8855, Springer, 2014, pp. 68–74, doi:<a href=\"https://doi.org/10.1007/978-3-319-13338-6_6\">10.1007/978-3-319-13338-6_6</a>."},"doi":"10.1007/978-3-319-13338-6_6","acknowledgement":"The work presented in this paper was supported in part by the European Research Council (ERC) under grant agreement QUAINT (I774-N23)","conference":{"start_date":"2014-11-18","location":"Haifa, Israel","end_date":"2014-11-20","name":"HVC: Haifa Verification Conference"},"page":"68 - 74","publisher":"Springer","publication":"HVC 2014","quality_controlled":"1","publication_status":"published","type":"conference","alternative_title":["LNCS"],"department":[{"_id":"ToHe"}]},{"date_updated":"2024-10-21T06:02:49Z","date_created":"2018-12-11T11:54:27Z","author":[{"full_name":"Henzinger, Thomas A","orcid":"0000−0002−2985−7724","last_name":"Henzinger","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87","first_name":"Jan","last_name":"Otop","full_name":"Otop, Jan"},{"full_name":"Samanta, Roopsha","last_name":"Samanta","first_name":"Roopsha","id":"3D2AAC08-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"Published Version","abstract":[{"text":"We investigate the problem of checking if a finite-state transducer is robust to uncertainty in its input. Our notion of robustness is based on the analytic notion of Lipschitz continuity - a transducer is K-(Lipschitz) robust if the perturbation in its output is at most K times the perturbation in its input. We quantify input and output perturbation using similarity functions. We show that K-robustness is undecidable even for deterministic transducers. We identify a class of functional transducers, which admits a polynomial time automata-theoretic decision procedure for K-robustness. This class includes Mealy machines and functional letter-to-letter transducers. We also study K-robustness of nondeterministic transducers. Since a nondeterministic transducer generates a set of output words for each input word, we quantify output perturbation using setsimilarity functions. We show that K-robustness of nondeterministic transducers is undecidable, even for letter-to-letter transducers. We identify a class of set-similarity functions which admit decidable K-robustness of letter-to-letter transducers.","lang":"eng"}],"volume":29,"oa":1,"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"status":"public","scopus_import":"1","month":"12","title":"Lipschitz robustness of finite-state transducers","date_published":"2014-12-01T00:00:00Z","_id":"1870","pubrep_id":"804","year":"2014","intvolume":"        29","alternative_title":["LIPIcs"],"file":[{"file_name":"IST-2017-804-v1+1_37.pdf","date_updated":"2020-07-14T12:45:19Z","access_level":"open_access","checksum":"7b1aff1710a8bffb7080ec07f62d9a17","creator":"system","relation":"main_file","date_created":"2018-12-12T10:09:11Z","content_type":"application/pdf","file_size":562151,"file_id":"4734"}],"corr_author":"1","department":[{"_id":"ToHe"}],"quality_controlled":"1","publication_status":"published","type":"conference","ddc":["004"],"publication":"Leibniz International Proceedings in Informatics, LIPIcs","has_accepted_license":"1","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","file_date_updated":"2020-07-14T12:45:19Z","conference":{"name":"FSTTCS: Foundations of Software Technology and Theoretical Computer Science","end_date":"2014-12-17","location":"Delhi, India","start_date":"2014-12-15"},"page":"431 - 443","doi":"10.4230/LIPIcs.FSTTCS.2014.431","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publist_id":"5227","day":"01","citation":{"short":"T.A. Henzinger, J. Otop, R. Samanta, in:, Leibniz International Proceedings in Informatics, LIPIcs, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2014, pp. 431–443.","ieee":"T. A. Henzinger, J. Otop, and R. Samanta, “Lipschitz robustness of finite-state transducers,” in <i>Leibniz International Proceedings in Informatics, LIPIcs</i>, Delhi, India, 2014, vol. 29, pp. 431–443.","mla":"Henzinger, Thomas A., et al. “Lipschitz Robustness of Finite-State Transducers.” <i>Leibniz International Proceedings in Informatics, LIPIcs</i>, vol. 29, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2014, pp. 431–43, doi:<a href=\"https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431\">10.4230/LIPIcs.FSTTCS.2014.431</a>.","chicago":"Henzinger, Thomas A, Jan Otop, and Roopsha Samanta. “Lipschitz Robustness of Finite-State Transducers.” In <i>Leibniz International Proceedings in Informatics, LIPIcs</i>, 29:431–43. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2014. <a href=\"https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431\">https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431</a>.","ista":"Henzinger TA, Otop J, Samanta R. 2014. Lipschitz robustness of finite-state transducers. Leibniz International Proceedings in Informatics, LIPIcs. FSTTCS: Foundations of Software Technology and Theoretical Computer Science, LIPIcs, vol. 29, 431–443.","apa":"Henzinger, T. A., Otop, J., &#38; Samanta, R. (2014). Lipschitz robustness of finite-state transducers. In <i>Leibniz International Proceedings in Informatics, LIPIcs</i> (Vol. 29, pp. 431–443). Delhi, India: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431\">https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431</a>","ama":"Henzinger TA, Otop J, Samanta R. Lipschitz robustness of finite-state transducers. In: <i>Leibniz International Proceedings in Informatics, LIPIcs</i>. Vol 29. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2014:431-443. doi:<a href=\"https://doi.org/10.4230/LIPIcs.FSTTCS.2014.431\">10.4230/LIPIcs.FSTTCS.2014.431</a>"}},{"publisher":"Springer","has_accepted_license":"1","publication":"ATVA 2014","ddc":["000"],"type":"conference","publication_status":"published","quality_controlled":"1","department":[{"_id":"ToHe"}],"file":[{"file_id":"4801","content_type":"application/pdf","file_size":244294,"relation":"main_file","date_created":"2018-12-12T10:10:15Z","date_updated":"2020-07-14T12:45:19Z","file_name":"IST-2016-641-v1+1_atva2014.pdf","access_level":"open_access","checksum":"af4bd3fc1f4c93075e4dc5cbf625fe7b","creator":"system"}],"alternative_title":["LNCS"],"citation":{"short":"A. Gupta, L. Kovács, B. Kragl, A. Voronkov, in:, F. Cassez, J.-F. Raskin (Eds.), ATVA 2014, Springer, 2014, pp. 185–200.","ieee":"A. Gupta, L. Kovács, B. Kragl, and A. Voronkov, “Extensional crisis and proving identity,” in <i>ATVA 2014</i>, Sydney, Australia, 2014, vol. 8837, pp. 185–200.","ista":"Gupta A, Kovács L, Kragl B, Voronkov A. 2014. Extensional crisis and proving identity. ATVA 2014. ATVA: Automated Technology for Verification and Analysis, LNCS, vol. 8837, 185–200.","chicago":"Gupta, Ashutosh, Laura Kovács, Bernhard Kragl, and Andrei Voronkov. “Extensional Crisis and Proving Identity.” In <i>ATVA 2014</i>, edited by Franck Cassez and Jean-François Raskin, 8837:185–200. Springer, 2014. <a href=\"https://doi.org/10.1007/978-3-319-11936-6_14\">https://doi.org/10.1007/978-3-319-11936-6_14</a>.","apa":"Gupta, A., Kovács, L., Kragl, B., &#38; Voronkov, A. (2014). Extensional crisis and proving identity. In F. Cassez &#38; J.-F. Raskin (Eds.), <i>ATVA 2014</i> (Vol. 8837, pp. 185–200). Sydney, Australia: Springer. <a href=\"https://doi.org/10.1007/978-3-319-11936-6_14\">https://doi.org/10.1007/978-3-319-11936-6_14</a>","ama":"Gupta A, Kovács L, Kragl B, Voronkov A. Extensional crisis and proving identity. In: Cassez F, Raskin J-F, eds. <i>ATVA 2014</i>. Vol 8837. Springer; 2014:185-200. doi:<a href=\"https://doi.org/10.1007/978-3-319-11936-6_14\">10.1007/978-3-319-11936-6_14</a>","mla":"Gupta, Ashutosh, et al. “Extensional Crisis and Proving Identity.” <i>ATVA 2014</i>, edited by Franck Cassez and Jean-François Raskin, vol. 8837, Springer, 2014, pp. 185–200, doi:<a href=\"https://doi.org/10.1007/978-3-319-11936-6_14\">10.1007/978-3-319-11936-6_14</a>."},"day":"01","publist_id":"5226","acknowledgement":"This research was supported in part by the Austrian National Research Network RiSE (S11410-N23).","doi":"10.1007/978-3-319-11936-6_14","conference":{"start_date":"2014-11-03","location":"Sydney, Australia","name":"ATVA: Automated Technology for Verification and Analysis","end_date":"2014-11-07"},"page":"185 - 200","file_date_updated":"2020-07-14T12:45:19Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","volume":8837,"oa":1,"abstract":[{"lang":"eng","text":"Extensionality axioms are common when reasoning about data collections, such as arrays and functions in program analysis, or sets in mathematics. An extensionality axiom asserts that two collections are equal if they consist of the same elements at the same indices. Using extensionality is often required to show that two collections are equal. A typical example is the set theory theorem (∀x)(∀y)x∪y = y ∪x. Interestingly, while humans have no problem with proving such set identities using extensionality, they are very hard for superposition theorem provers because of the calculi they use. In this paper we show how addition of a new inference rule, called extensionality resolution, allows first-order theorem provers to easily solve problems no modern first-order theorem prover can solve. We illustrate this by running the VAMPIRE theorem prover with extensionality resolution on a number of set theory and array problems. Extensionality resolution helps VAMPIRE to solve problems from the TPTP library of first-order problems that were never solved before by any prover."}],"oa_version":"Submitted Version","editor":[{"first_name":"Franck","last_name":"Cassez","full_name":"Cassez, Franck"},{"first_name":"Jean-François","last_name":"Raskin","full_name":"Raskin, Jean-François"}],"project":[{"call_identifier":"FP7","_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989","name":"Quantitative Reactive Modeling"},{"_id":"25F5A88A-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"S11402-N23","name":"Moderne Concurrency Paradigms"}],"author":[{"id":"335E5684-F248-11E8-B48F-1D18A9856A87","last_name":"Gupta","first_name":"Ashutosh","full_name":"Gupta, Ashutosh"},{"last_name":"Kovács","first_name":"Laura","full_name":"Kovács, Laura"},{"id":"320FC952-F248-11E8-B48F-1D18A9856A87","last_name":"Kragl","first_name":"Bernhard","full_name":"Kragl, Bernhard","orcid":"0000-0001-7745-9117"},{"first_name":"Andrei","last_name":"Voronkov","full_name":"Voronkov, Andrei"}],"date_created":"2018-12-11T11:54:28Z","date_updated":"2021-01-12T06:53:45Z","intvolume":"      8837","_id":"1872","year":"2014","pubrep_id":"641","date_published":"2014-01-01T00:00:00Z","title":"Extensional crisis and proving identity","month":"01","scopus_import":1,"ec_funded":1,"status":"public","language":[{"iso":"eng"}]},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":60,"oa":1,"abstract":[{"lang":"eng","text":"We investigate the performance of five glacier melt models over a multi-decadal period in order to assess their ability to model future glacier response. The models range from a simple degree-day model, based solely on air temperature, to more-sophisticated models, including the full shortwave radiation balance. In addition to the empirical models, the performance of a physically based energy-balance (EB) model is examined. The melt models are coupled to an accumulation and a surface evolution model and applied in a distributed manner to Rhonegletscher, Switzerland, over the period 1929–2012 at hourly resolution. For calibration, seasonal mass-balance measurements (2006–12) are used. Decadal ice volume changes for six periods in the years 1929–2012 serve for model validation. Over the period 2006–12, there are almost no differences in performance between the models, except for EB, which is less consistent with observations, likely due to lack of meteorological in situ data. However, simulations over the long term (1929–2012) reveal that models which include a separate term for shortwave radiation agree best with the observed ice volume changes, indicating that their melt relationships are robust in time and thus suitable for long-term modelling, in contrast to more empirical approaches that are oversensitive to temperature fluctuations."}],"oa_version":"Published Version","author":[{"last_name":"Gabbi","first_name":"Jeannette","full_name":"Gabbi, Jeannette"},{"full_name":"Carenzo, Marco","last_name":"Carenzo","first_name":"Marco"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","last_name":"Pellicciotti","first_name":"Francesca","full_name":"Pellicciotti, Francesca"},{"full_name":"Bauder, Andreas","first_name":"Andreas","last_name":"Bauder"},{"full_name":"Funk, Martin","first_name":"Martin","last_name":"Funk"}],"date_created":"2023-02-20T08:16:34Z","publication_identifier":{"eissn":["1727-5652"],"issn":["0022-1430"]},"date_updated":"2023-02-24T08:56:35Z","intvolume":"        60","_id":"12632","year":"2014","date_published":"2014-08-01T00:00:00Z","title":"A comparison of empirical and physically based glacier surface melt models for long-term simulations of glacier response","scopus_import":"1","month":"08","extern":"1","status":"public","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","publisher":"International Glaciological Society","publication":"Journal of Glaciology","type":"journal_article","publication_status":"published","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.3189/2014JoG14J011","open_access":"1"}],"citation":{"mla":"Gabbi, Jeannette, et al. “A Comparison of Empirical and Physically Based Glacier Surface Melt Models for Long-Term Simulations of Glacier Response.” <i>Journal of Glaciology</i>, vol. 60, no. 224, International Glaciological Society, 2014, pp. 1140–54, doi:<a href=\"https://doi.org/10.3189/2014jog14j011\">10.3189/2014jog14j011</a>.","apa":"Gabbi, J., Carenzo, M., Pellicciotti, F., Bauder, A., &#38; Funk, M. (2014). A comparison of empirical and physically based glacier surface melt models for long-term simulations of glacier response. <i>Journal of Glaciology</i>. International Glaciological Society. <a href=\"https://doi.org/10.3189/2014jog14j011\">https://doi.org/10.3189/2014jog14j011</a>","ama":"Gabbi J, Carenzo M, Pellicciotti F, Bauder A, Funk M. A comparison of empirical and physically based glacier surface melt models for long-term simulations of glacier response. <i>Journal of Glaciology</i>. 2014;60(224):1140-1154. doi:<a href=\"https://doi.org/10.3189/2014jog14j011\">10.3189/2014jog14j011</a>","ista":"Gabbi J, Carenzo M, Pellicciotti F, Bauder A, Funk M. 2014. A comparison of empirical and physically based glacier surface melt models for long-term simulations of glacier response. Journal of Glaciology. 60(224), 1140–1154.","chicago":"Gabbi, Jeannette, Marco Carenzo, Francesca Pellicciotti, Andreas Bauder, and Martin Funk. “A Comparison of Empirical and Physically Based Glacier Surface Melt Models for Long-Term Simulations of Glacier Response.” <i>Journal of Glaciology</i>. International Glaciological Society, 2014. <a href=\"https://doi.org/10.3189/2014jog14j011\">https://doi.org/10.3189/2014jog14j011</a>.","ieee":"J. Gabbi, M. Carenzo, F. Pellicciotti, A. Bauder, and M. Funk, “A comparison of empirical and physically based glacier surface melt models for long-term simulations of glacier response,” <i>Journal of Glaciology</i>, vol. 60, no. 224. International Glaciological Society, pp. 1140–1154, 2014.","short":"J. Gabbi, M. Carenzo, F. Pellicciotti, A. Bauder, M. Funk, Journal of Glaciology 60 (2014) 1140–1154."},"day":"01","issue":"224","doi":"10.3189/2014jog14j011","page":"1140-1154","keyword":["Earth-Surface Processes"]},{"date_created":"2023-02-20T08:16:46Z","author":[{"full_name":"Pellicciotti, Francesca","orcid":"0000-0002-5554-8087","last_name":"Pellicciotti","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70"},{"full_name":"Ragettli, S.","first_name":"S.","last_name":"Ragettli"},{"full_name":"Carenzo, M.","last_name":"Carenzo","first_name":"M."},{"last_name":"McPhee","first_name":"J.","full_name":"McPhee, J."}],"quality_controlled":"1","publication_status":"published","type":"journal_article","date_updated":"2024-10-14T12:04:02Z","publication_identifier":{"issn":["0048-9697"]},"volume":493,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Elsevier","oa_version":"None","publication":"Science of The Total Environment","abstract":[{"lang":"eng","text":"Glaciers in the Andes of Chile seem to be shrinking and possibly loosing mass, but the number and types of studies conducted, constrained mainly by data availability, are not sufficient to provide a synopsis of glacier changes for the past or future or explain in an explicit way causes of the observed changes. In this paper, we provide a systematic review of changes in glaciers for the entire country, followed by a discussion of the studies that have provided evidence of such changes. We identify a missing type of work in distributed, physically-oriented modelling studies that are needed to bridge the gap between the numerous remote sensing studies and the specific, point scale works focused on process understanding. We use an advanced mass balance model applied to one of the best monitored glaciers in the region to investigate four main research issues that should be addressed in modelling studies for a sound assessment of glacier changes: 1) the use of physically-based models of glacier ablation (energy balance models) versus more empirical models (enhanced temperature index approaches); 2) the importance of the correct extrapolation of air temperature forcing on glaciers and in high elevation areas and the large uncertainty in model outputs associated with it; 3) the role played by snow gravitational redistribution; and 4) the uncertainty associated with future climate scenarios. We quantify differences in model outputs associated with each of these choices, and conclude with suggestions for future work directions."}],"status":"public","page":"1197-1210","article_processing_charge":"No","article_type":"review","keyword":["Pollution","Waste Management and Disposal","Environmental Chemistry","Environmental Engineering"],"language":[{"iso":"eng"}],"day":"15","_id":"12634","citation":{"short":"F. Pellicciotti, S. Ragettli, M. Carenzo, J. McPhee, Science of The Total Environment 493 (2014) 1197–1210.","ieee":"F. Pellicciotti, S. Ragettli, M. Carenzo, and J. McPhee, “Changes of glaciers in the Andes of Chile and priorities for future work,” <i>Science of The Total Environment</i>, vol. 493. Elsevier, pp. 1197–1210, 2014.","chicago":"Pellicciotti, Francesca, S. Ragettli, M. Carenzo, and J. McPhee. “Changes of Glaciers in the Andes of Chile and Priorities for Future Work.” <i>Science of The Total Environment</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.scitotenv.2013.10.055\">https://doi.org/10.1016/j.scitotenv.2013.10.055</a>.","ista":"Pellicciotti F, Ragettli S, Carenzo M, McPhee J. 2014. Changes of glaciers in the Andes of Chile and priorities for future work. Science of The Total Environment. 493, 1197–1210.","apa":"Pellicciotti, F., Ragettli, S., Carenzo, M., &#38; McPhee, J. (2014). Changes of glaciers in the Andes of Chile and priorities for future work. <i>Science of The Total Environment</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.scitotenv.2013.10.055\">https://doi.org/10.1016/j.scitotenv.2013.10.055</a>","ama":"Pellicciotti F, Ragettli S, Carenzo M, McPhee J. Changes of glaciers in the Andes of Chile and priorities for future work. <i>Science of The Total Environment</i>. 2014;493:1197-1210. doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2013.10.055\">10.1016/j.scitotenv.2013.10.055</a>","mla":"Pellicciotti, Francesca, et al. “Changes of Glaciers in the Andes of Chile and Priorities for Future Work.” <i>Science of The Total Environment</i>, vol. 493, Elsevier, 2014, pp. 1197–210, doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2013.10.055\">10.1016/j.scitotenv.2013.10.055</a>."},"year":"2014","intvolume":"       493","extern":"1","scopus_import":"1","doi":"10.1016/j.scitotenv.2013.10.055","month":"09","title":"Changes of glaciers in the Andes of Chile and priorities for future work","date_published":"2014-09-15T00:00:00Z"},{"abstract":[{"text":"Switzerland is one of the countries with some of the longest and best glaciological data sets. Its glaciers and their changes in response to climate have been extensively investigated, and the number and quality of related studies are notable. However, a comprehensive review of glacier changes and their impact on the hydrology of glacierised catchments for Switzerland is missing and we use the opportunity provided by the EU-FP7 ACQWA project to review the current state of knowledge about past changes and future projections. We examine the type of models that have been applied to infer glacier evolution and identify knowledge gaps that should be addressed in future research in addition to those indicated in previous publications. Common characteristics in long-term series of projected future glacier runoff are an initial peak followed by a decline, associated with shifts in seasonality, earlier melt onset and reduced summer runoff. However, the quantitative predictions are difficult to compare, as studies differ in terms of model structure, calibration strategies, input data, temporal and spatial resolution as well as future scenarios used for impact studies. We identify two sources of uncertainties among those emerging from recent research, and use simulations over four glaciers to: i) quantify the importance of the correct extrapolation of air temperature, and ii) point at the key role played by debris cover in modulating glacier response.","lang":"eng"}],"publication":"Science of The Total Environment","oa_version":"None","publisher":"Elsevier","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":493,"publication_identifier":{"issn":["0048-9697"]},"date_updated":"2024-10-14T12:03:49Z","type":"journal_article","publication_status":"published","author":[{"orcid":"0000-0002-5554-8087","full_name":"Pellicciotti, Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","last_name":"Pellicciotti"},{"last_name":"Carenzo","first_name":"M.","full_name":"Carenzo, M."},{"full_name":"Bordoy, R.","first_name":"R.","last_name":"Bordoy"},{"full_name":"Stoffel, M.","first_name":"M.","last_name":"Stoffel"}],"quality_controlled":"1","date_created":"2023-02-20T08:16:51Z","date_published":"2014-09-15T00:00:00Z","title":"Changes in glaciers in the Swiss Alps and impact on basin hydrology: Current state of the art and future research","month":"09","doi":"10.1016/j.scitotenv.2014.04.022","extern":"1","scopus_import":"1","intvolume":"       493","_id":"12635","year":"2014","citation":{"apa":"Pellicciotti, F., Carenzo, M., Bordoy, R., &#38; Stoffel, M. (2014). Changes in glaciers in the Swiss Alps and impact on basin hydrology: Current state of the art and future research. <i>Science of The Total Environment</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.scitotenv.2014.04.022\">https://doi.org/10.1016/j.scitotenv.2014.04.022</a>","ama":"Pellicciotti F, Carenzo M, Bordoy R, Stoffel M. Changes in glaciers in the Swiss Alps and impact on basin hydrology: Current state of the art and future research. <i>Science of The Total Environment</i>. 2014;493:1152-1170. doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2014.04.022\">10.1016/j.scitotenv.2014.04.022</a>","ista":"Pellicciotti F, Carenzo M, Bordoy R, Stoffel M. 2014. Changes in glaciers in the Swiss Alps and impact on basin hydrology: Current state of the art and future research. Science of The Total Environment. 493, 1152–1170.","chicago":"Pellicciotti, Francesca, M. Carenzo, R. Bordoy, and M. Stoffel. “Changes in Glaciers in the Swiss Alps and Impact on Basin Hydrology: Current State of the Art and Future Research.” <i>Science of The Total Environment</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.scitotenv.2014.04.022\">https://doi.org/10.1016/j.scitotenv.2014.04.022</a>.","mla":"Pellicciotti, Francesca, et al. “Changes in Glaciers in the Swiss Alps and Impact on Basin Hydrology: Current State of the Art and Future Research.” <i>Science of The Total Environment</i>, vol. 493, Elsevier, 2014, pp. 1152–70, doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2014.04.022\">10.1016/j.scitotenv.2014.04.022</a>.","ieee":"F. Pellicciotti, M. Carenzo, R. Bordoy, and M. Stoffel, “Changes in glaciers in the Swiss Alps and impact on basin hydrology: Current state of the art and future research,” <i>Science of The Total Environment</i>, vol. 493. Elsevier, pp. 1152–1170, 2014.","short":"F. Pellicciotti, M. Carenzo, R. Bordoy, M. Stoffel, Science of The Total Environment 493 (2014) 1152–1170."},"day":"15","language":[{"iso":"eng"}],"keyword":["Pollution","Waste Management and Disposal","Environmental Chemistry","Environmental Engineering"],"article_type":"review","article_processing_charge":"No","page":"1152-1170","status":"public"},{"volume":150,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","abstract":[{"lang":"eng","text":"Himalayan glacier tongues are commonly debris covered and they are an important source of melt water. However, they remain relatively unstudied because of the inaccessibility of the terrain and the difficulties in field work caused by the thick debris mantles. Observations of debris-covered glaciers are therefore scarce and airborne remote sensing may bridge the gap between scarce field observations and coarse resolution space-borne remote sensing. In this study we deploy an Unmanned Aerial Vehicle (UAV) before and after the melt and monsoon season (May and October 2013) over the debris-covered tongue of the Lirung Glacier in Nepal. Based on stereo-imaging and the structure for motion algorithm we derive highly detailed ortho-mosaics and digital elevation models (DEMs), which we geometrically correct using differential GPS observations collected in the field. Based on DEM differencing and manual feature tracking we derive the mass loss and the surface velocity of the glacier at a high spatial accuracy. On average, mass loss is limited and the surface velocity is very small. However, the spatial variability of melt rates is very high, and ice cliffs and supra-glacial ponds show mass losses that can be an order of magnitude higher than the average. We suggest that future research should focus on the interaction between supra-glacial ponds, ice cliffs and englacial hydrology to further understand the dynamics of debris-covered glaciers. Finally, we conclude that UAV deployment has large potential in glaciology and it may revolutionize methods currently applied in studying glacier surface features."}],"date_created":"2023-02-20T08:16:56Z","author":[{"full_name":"Immerzeel, W.W.","first_name":"W.W.","last_name":"Immerzeel"},{"last_name":"Kraaijenbrink","first_name":"P.D.A.","full_name":"Kraaijenbrink, P.D.A."},{"full_name":"Shea, J.M.","last_name":"Shea","first_name":"J.M."},{"full_name":"Shrestha, A.B.","first_name":"A.B.","last_name":"Shrestha"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca"},{"full_name":"Bierkens, M.F.P.","first_name":"M.F.P.","last_name":"Bierkens"},{"full_name":"de Jong, S.M.","first_name":"S.M.","last_name":"de Jong"}],"date_updated":"2023-02-24T08:32:39Z","publication_identifier":{"issn":["0034-4257"]},"_id":"12636","year":"2014","intvolume":"       150","extern":"1","month":"07","scopus_import":"1","title":"High-resolution monitoring of Himalayan glacier dynamics using unmanned aerial vehicles","date_published":"2014-07-01T00:00:00Z","status":"public","article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"publisher":"Elsevier","publication":"Remote Sensing of Environment","quality_controlled":"1","publication_status":"published","type":"journal_article","day":"01","citation":{"ista":"Immerzeel WW, Kraaijenbrink PDA, Shea JM, Shrestha AB, Pellicciotti F, Bierkens MFP, de Jong SM. 2014. High-resolution monitoring of Himalayan glacier dynamics using unmanned aerial vehicles. Remote Sensing of Environment. 150(7), 93–103.","chicago":"Immerzeel, W.W., P.D.A. Kraaijenbrink, J.M. Shea, A.B. Shrestha, Francesca Pellicciotti, M.F.P. Bierkens, and S.M. de Jong. “High-Resolution Monitoring of Himalayan Glacier Dynamics Using Unmanned Aerial Vehicles.” <i>Remote Sensing of Environment</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.rse.2014.04.025\">https://doi.org/10.1016/j.rse.2014.04.025</a>.","apa":"Immerzeel, W. W., Kraaijenbrink, P. D. A., Shea, J. M., Shrestha, A. B., Pellicciotti, F., Bierkens, M. F. P., &#38; de Jong, S. M. (2014). High-resolution monitoring of Himalayan glacier dynamics using unmanned aerial vehicles. <i>Remote Sensing of Environment</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.rse.2014.04.025\">https://doi.org/10.1016/j.rse.2014.04.025</a>","ama":"Immerzeel WW, Kraaijenbrink PDA, Shea JM, et al. High-resolution monitoring of Himalayan glacier dynamics using unmanned aerial vehicles. <i>Remote Sensing of Environment</i>. 2014;150(7):93-103. doi:<a href=\"https://doi.org/10.1016/j.rse.2014.04.025\">10.1016/j.rse.2014.04.025</a>","mla":"Immerzeel, W. W., et al. “High-Resolution Monitoring of Himalayan Glacier Dynamics Using Unmanned Aerial Vehicles.” <i>Remote Sensing of Environment</i>, vol. 150, no. 7, Elsevier, 2014, pp. 93–103, doi:<a href=\"https://doi.org/10.1016/j.rse.2014.04.025\">10.1016/j.rse.2014.04.025</a>.","short":"W.W. Immerzeel, P.D.A. Kraaijenbrink, J.M. Shea, A.B. Shrestha, F. Pellicciotti, M.F.P. Bierkens, S.M. de Jong, Remote Sensing of Environment 150 (2014) 93–103.","ieee":"W. W. Immerzeel <i>et al.</i>, “High-resolution monitoring of Himalayan glacier dynamics using unmanned aerial vehicles,” <i>Remote Sensing of Environment</i>, vol. 150, no. 7. Elsevier, pp. 93–103, 2014."},"issue":"7","doi":"10.1016/j.rse.2014.04.025","page":"93-103","keyword":["Computers in Earth Sciences","Geology","Soil Science"]},{"page":"2212-2226","keyword":["Water Science and Technology"],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/2013WR014506"}],"citation":{"ieee":"W. W. Immerzeel, L. Petersen, S. Ragettli, and F. Pellicciotti, “The importance of observed gradients of air temperature and precipitation for modeling runoff from a glacierized watershed in the Nepalese Himalayas,” <i>Water Resources Research</i>, vol. 50, no. 3. American Geophysical Union, pp. 2212–2226, 2014.","short":"W.W. Immerzeel, L. Petersen, S. Ragettli, F. Pellicciotti, Water Resources Research 50 (2014) 2212–2226.","mla":"Immerzeel, W. W., et al. “The Importance of Observed Gradients of Air Temperature and Precipitation for Modeling Runoff from a Glacierized Watershed in the Nepalese Himalayas.” <i>Water Resources Research</i>, vol. 50, no. 3, American Geophysical Union, 2014, pp. 2212–26, doi:<a href=\"https://doi.org/10.1002/2013wr014506\">10.1002/2013wr014506</a>.","apa":"Immerzeel, W. W., Petersen, L., Ragettli, S., &#38; Pellicciotti, F. (2014). The importance of observed gradients of air temperature and precipitation for modeling runoff from a glacierized watershed in the Nepalese Himalayas. <i>Water Resources Research</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2013wr014506\">https://doi.org/10.1002/2013wr014506</a>","ama":"Immerzeel WW, Petersen L, Ragettli S, Pellicciotti F. The importance of observed gradients of air temperature and precipitation for modeling runoff from a glacierized watershed in the Nepalese Himalayas. <i>Water Resources Research</i>. 2014;50(3):2212-2226. doi:<a href=\"https://doi.org/10.1002/2013wr014506\">10.1002/2013wr014506</a>","ista":"Immerzeel WW, Petersen L, Ragettli S, Pellicciotti F. 2014. The importance of observed gradients of air temperature and precipitation for modeling runoff from a glacierized watershed in the Nepalese Himalayas. Water Resources Research. 50(3), 2212–2226.","chicago":"Immerzeel, W. W., L. Petersen, S. Ragettli, and Francesca Pellicciotti. “The Importance of Observed Gradients of Air Temperature and Precipitation for Modeling Runoff from a Glacierized Watershed in the Nepalese Himalayas.” <i>Water Resources Research</i>. American Geophysical Union, 2014. <a href=\"https://doi.org/10.1002/2013wr014506\">https://doi.org/10.1002/2013wr014506</a>."},"day":"01","issue":"3","doi":"10.1002/2013wr014506","quality_controlled":"1","type":"journal_article","publication_status":"published","publisher":"American Geophysical Union","publication":"Water Resources Research","status":"public","article_type":"original","article_processing_charge":"No","language":[{"iso":"eng"}],"_id":"12637","year":"2014","intvolume":"        50","title":"The importance of observed gradients of air temperature and precipitation for modeling runoff from a glacierized watershed in the Nepalese Himalayas","month":"03","scopus_import":"1","extern":"1","date_published":"2014-03-01T00:00:00Z","author":[{"first_name":"W. W.","last_name":"Immerzeel","full_name":"Immerzeel, W. W."},{"full_name":"Petersen, L.","first_name":"L.","last_name":"Petersen"},{"last_name":"Ragettli","first_name":"S.","full_name":"Ragettli, S."},{"last_name":"Pellicciotti","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","full_name":"Pellicciotti, Francesca"}],"date_created":"2023-02-20T08:17:01Z","date_updated":"2023-02-24T08:28:23Z","publication_identifier":{"eissn":["1944-7973"],"issn":["0043-1397"]},"volume":50,"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","abstract":[{"lang":"eng","text":"The performance of glaciohydrological models which simulate catchment response to climate variability depends to a large degree on the data used to force the models. The forcing data become increasingly important in high-elevation, glacierized catchments where the interplay between extreme topography, climate, and the cryosphere is complex. It is challenging to generate a reliable forcing data set that captures this spatial heterogeneity. In this paper, we analyze the results of a 1 year field campaign focusing on air temperature and precipitation observations in the Langtang valley in the Nepalese Himalayas. We use the observed time series to characterize both temperature lapse rates (LRs) and precipitation gradients (PGs). We study their spatial and temporal variability, and we attempt to identify possible controlling factors. We show that very clear LRs exist in the valley and that there are strong seasonal differences related to the water vapor content in the atmosphere. Results also show that the LRs are generally shallower than the commonly used environmental lapse rates. The analysis of the precipitation observations reveals that there is great variability in precipitation over short horizontal distances. A uniform valley wide PG cannot be established, and several scale-dependent mechanisms may explain our observations. We complete our analysis by showing the impact of the observed LRs and PGs on the outputs of the TOPKAPI-ETH glaciohydrological model. We conclude that LRs and PGs have a very large impact on the water balance composition and that short-term monitoring campaigns have the potential to improve model quality considerably."}]},{"_id":"1309","year":"2014","citation":{"mla":"Fischer, Julian L. “Infinite Speed of Support Propagation for the Derrida-Lebowitz-Speer-Spohn Equation and Quantum Drift-Diffusion Models.” <i>Nonlinear Differential Equations and Applications</i>, vol. 21, no. 1, Birkhäuser, 2014, pp. 27–50, doi:<a href=\"https://doi.org/10.1007/s00030-013-0235-0\">10.1007/s00030-013-0235-0</a>.","ama":"Fischer JL. Infinite speed of support propagation for the Derrida-Lebowitz-Speer-Spohn equation and quantum drift-diffusion models. <i>Nonlinear Differential Equations and Applications</i>. 2014;21(1):27-50. doi:<a href=\"https://doi.org/10.1007/s00030-013-0235-0\">10.1007/s00030-013-0235-0</a>","apa":"Fischer, J. L. (2014). Infinite speed of support propagation for the Derrida-Lebowitz-Speer-Spohn equation and quantum drift-diffusion models. <i>Nonlinear Differential Equations and Applications</i>. Birkhäuser. <a href=\"https://doi.org/10.1007/s00030-013-0235-0\">https://doi.org/10.1007/s00030-013-0235-0</a>","ista":"Fischer JL. 2014. Infinite speed of support propagation for the Derrida-Lebowitz-Speer-Spohn equation and quantum drift-diffusion models. Nonlinear Differential Equations and Applications. 21(1), 27–50.","chicago":"Fischer, Julian L. “Infinite Speed of Support Propagation for the Derrida-Lebowitz-Speer-Spohn Equation and Quantum Drift-Diffusion Models.” <i>Nonlinear Differential Equations and Applications</i>. Birkhäuser, 2014. <a href=\"https://doi.org/10.1007/s00030-013-0235-0\">https://doi.org/10.1007/s00030-013-0235-0</a>.","ieee":"J. L. Fischer, “Infinite speed of support propagation for the Derrida-Lebowitz-Speer-Spohn equation and quantum drift-diffusion models,” <i>Nonlinear Differential Equations and Applications</i>, vol. 21, no. 1. Birkhäuser, pp. 27–50, 2014.","short":"J.L. Fischer, Nonlinear Differential Equations and Applications 21 (2014) 27–50."},"publist_id":"5960","day":"01","intvolume":"        21","title":"Infinite speed of support propagation for the Derrida-Lebowitz-Speer-Spohn equation and quantum drift-diffusion models","doi":"10.1007/s00030-013-0235-0","extern":1,"issue":"1","month":"01","date_published":"2014-01-01T00:00:00Z","status":"public","page":"27 - 50","volume":21,"publisher":"Birkhäuser","abstract":[{"text":"We show that weak solutions of the Derrida-Lebowitz-Speer-Spohn (DLSS) equation display infinite speed of support propagation. We apply our method to the case of the quantum drift-diffusion equation which augments the DLSS equation with a drift term and possibly a second-order diffusion term. The proof is accomplished using weighted entropy estimates, Hardy's inequality and a family of singular weight functions to derive a differential inequality; the differential inequality shows exponential growth of the weighted entropy, with the growth constant blowing up very fast as the singularity of the weight becomes sharper. To the best of our knowledge, this is the first example of a nonnegativity-preserving higher-order parabolic equation displaying infinite speed of support propagation.","lang":"eng"}],"publication":"Nonlinear Differential Equations and Applications","author":[{"orcid":"0000-0002-0479-558X","full_name":"Julian Fischer","first_name":"Julian L","last_name":"Fischer","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87"}],"quality_controlled":0,"date_created":"2018-12-11T11:51:17Z","type":"journal_article","publication_status":"published","date_updated":"2021-01-12T06:49:47Z"},{"date_published":"2014-01-01T00:00:00Z","issue":"3","doi":"10.1007/s00205-013-0690-0","month":"01","extern":1,"title":"Upper bounds on waiting times for the Thin-film equation: The case of weak slippage","intvolume":"       211","day":"01","publist_id":"5959","_id":"1312","year":"2014","citation":{"mla":"Fischer, Julian L. “Upper Bounds on Waiting Times for the Thin-Film Equation: The Case of Weak Slippage.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 211, no. 3, Springer, 2014, pp. 771–818, doi:<a href=\"https://doi.org/10.1007/s00205-013-0690-0\">10.1007/s00205-013-0690-0</a>.","apa":"Fischer, J. L. (2014). Upper bounds on waiting times for the Thin-film equation: The case of weak slippage. <i>Archive for Rational Mechanics and Analysis</i>. Springer. <a href=\"https://doi.org/10.1007/s00205-013-0690-0\">https://doi.org/10.1007/s00205-013-0690-0</a>","ama":"Fischer JL. Upper bounds on waiting times for the Thin-film equation: The case of weak slippage. <i>Archive for Rational Mechanics and Analysis</i>. 2014;211(3):771-818. doi:<a href=\"https://doi.org/10.1007/s00205-013-0690-0\">10.1007/s00205-013-0690-0</a>","chicago":"Fischer, Julian L. “Upper Bounds on Waiting Times for the Thin-Film Equation: The Case of Weak Slippage.” <i>Archive for Rational Mechanics and Analysis</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s00205-013-0690-0\">https://doi.org/10.1007/s00205-013-0690-0</a>.","ista":"Fischer JL. 2014. Upper bounds on waiting times for the Thin-film equation: The case of weak slippage. Archive for Rational Mechanics and Analysis. 211(3), 771–818.","ieee":"J. L. Fischer, “Upper bounds on waiting times for the Thin-film equation: The case of weak slippage,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 211, no. 3. Springer, pp. 771–818, 2014.","short":"J.L. Fischer, Archive for Rational Mechanics and Analysis 211 (2014) 771–818."},"page":"771 - 818","status":"public","publication":"Archive for Rational Mechanics and Analysis","abstract":[{"lang":"eng","text":"We derive upper bounds on the waiting time of solutions to the thin-film equation in the regime of weak slippage n ∈ [2, 32\\11). In particular, we give sufficient conditions on the initial data for instantaneous forward motion of the free boundary. For n ∈ (2, 32\\11), our estimates are sharp, for n = 2, they are sharp up to a logarithmic correction term. Note that the case n = 2 corresponds-with a grain of salt-to the assumption of the Navier slip condition at the fluid-solid interface. We also obtain results in the regime of strong slippage n ∈ (1,2); however, in this regime we expect them not to be optimal. Our method is based on weighted backward entropy estimates, Hardy's inequality and singular weight functions; we deduce a differential inequality which would enforce blowup of the weighted entropy if the contact line were to remain stationary for too long."}],"publisher":"Springer","volume":211,"date_updated":"2021-01-12T06:49:48Z","publication_status":"published","type":"journal_article","date_created":"2018-12-11T11:51:18Z","author":[{"last_name":"Fischer","first_name":"Julian L","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","full_name":"Julian Fischer","orcid":"0000-0002-0479-558X"}],"quality_controlled":0},{"abstract":[{"text":"NADH-ubiquinone oxidoreductase (complex I) is the first and largest enzyme in the respiratory chain of mitochondria and many bacteria. It couples the transfer of two electrons between NADH and ubiquinone to the translocation of four protons across the membrane. Complex I is an L-shaped assembly formed by the hydrophilic (peripheral) arm, containing all the redox centres performing electron transfer and the membrane arm, containing proton-translocating machinery. Mitochondrial complex I consists of 44 subunits of about 1 MDa in total, whilst the prokaryotic enzyme is simpler and generally consists of 14 conserved “core” subunits. Recently we have determined the first atomic structure of the entire complex I, using the enzyme from Thermus thermophilus (536 kDa, 16 subunits, 9 Fe-S clusters, 64 TM helices). Structure suggests a unique coupling mechanism, with redox energy of electron transfer driving proton translocation via long-range (up to ~200 Å) conformational changes. It resembles a steam engine, with coupling elements (akin to coupling rods) linking parts of this molecular machine.","lang":"eng"}],"publication":"Journal of Bioenergetics and Biomembranes","publisher":"Springer","volume":46,"date_updated":"2021-01-12T06:54:28Z","type":"journal_article","publication_status":"published","quality_controlled":0,"author":[{"first_name":"Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","full_name":"Leonid Sazanov"}],"date_created":"2018-12-11T11:55:01Z","date_published":"2014-08-01T00:00:00Z","title":"The mechanism of coupling between electron transfer and proton translocation in respiratory complex I","extern":1,"doi":"10.1007/s10863-014-9554-z","month":"08","issue":"4","intvolume":"        46","_id":"1979","citation":{"ieee":"L. A. Sazanov, “The mechanism of coupling between electron transfer and proton translocation in respiratory complex I,” <i>Journal of Bioenergetics and Biomembranes</i>, vol. 46, no. 4. Springer, pp. 247–253, 2014.","short":"L.A. Sazanov, Journal of Bioenergetics and Biomembranes 46 (2014) 247–253.","apa":"Sazanov, L. A. (2014). The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. <i>Journal of Bioenergetics and Biomembranes</i>. Springer. <a href=\"https://doi.org/10.1007/s10863-014-9554-z\">https://doi.org/10.1007/s10863-014-9554-z</a>","ama":"Sazanov LA. The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. <i>Journal of Bioenergetics and Biomembranes</i>. 2014;46(4):247-253. doi:<a href=\"https://doi.org/10.1007/s10863-014-9554-z\">10.1007/s10863-014-9554-z</a>","chicago":"Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and Proton Translocation in Respiratory Complex I.” <i>Journal of Bioenergetics and Biomembranes</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s10863-014-9554-z\">https://doi.org/10.1007/s10863-014-9554-z</a>.","ista":"Sazanov LA. 2014. The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes. 46(4), 247–253.","mla":"Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and Proton Translocation in Respiratory Complex I.” <i>Journal of Bioenergetics and Biomembranes</i>, vol. 46, no. 4, Springer, 2014, pp. 247–53, doi:<a href=\"https://doi.org/10.1007/s10863-014-9554-z\">10.1007/s10863-014-9554-z</a>."},"year":"2014","day":"01","publist_id":"5104","page":"247 - 253","status":"public"},{"volume":91,"publisher":"Wiley-Blackwell","publication":"Molecular Microbiology","abstract":[{"lang":"eng","text":"Non-proton pumping type II NADH dehydrogenase (NDH-2) plays a central role in the respiratory metabolism of bacteria, and in the mitochondria of fungi, plants and protists. The lack of NDH-2 in mammalian mitochondria and its essentiality in important bacterial pathogens suggests these enzymes may represent a potential new drug target to combat microbial pathogens. Here, we report the first crystal structure of a bacterial NDH-2 enzyme at 2.5Å resolution from Caldalkalibacillus thermarum. The NDH-2 structure reveals a homodimeric organization that has a unique dimer interface. NDH-2 is localized to the cytoplasmic membrane by two separated C-terminal membrane-anchoring regions that are essential for membrane localization and FAD binding, but not NDH-2 dimerization. Comparison of bacterial NDH-2 with the yeast NADH dehydrogenase (Ndi1) structure revealed non-overlapping binding sites for quinone and NADH in the bacterial enzyme. The bacterial NDH-2 structure establishes a framework for the structure-based design of small-molecule inhibitors."}],"date_created":"2018-12-11T11:55:01Z","author":[{"full_name":"Heikal, Adam ","last_name":"Heikal","first_name":"Adam"},{"last_name":"Nakatani","first_name":"Yoshio","full_name":"Nakatani, Yoshio"},{"last_name":"Dunn","first_name":"Elyse","full_name":"Dunn, Elyse A"},{"full_name":"Weimar, Marion R","last_name":"Weimar","first_name":"Marion"},{"full_name":"Day, Catherine","first_name":"Catherine","last_name":"Day"},{"full_name":"Baker, Edward N","first_name":"Edward","last_name":"Baker"},{"full_name":"Lott, Shaun J","first_name":"Shaun","last_name":"Lott"},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","first_name":"Leonid A","full_name":"Leonid Sazanov","orcid":"0000-0002-0977-7989"},{"last_name":"Cook","first_name":"Gregory","full_name":"Cook, Gregory"}],"quality_controlled":0,"publication_status":"published","type":"journal_article","date_updated":"2021-01-12T06:54:29Z","publist_id":"5103","day":"01","citation":{"mla":"Heikal, Adam, et al. “Structure of the Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential Role in Energy Generation.” <i>Molecular Microbiology</i>, vol. 91, no. 5, Wiley-Blackwell, 2014, pp. 950–64, doi:<a href=\"https://doi.org/10.1111/mmi.12507\">10.1111/mmi.12507</a>.","chicago":"Heikal, Adam, Yoshio Nakatani, Elyse Dunn, Marion Weimar, Catherine Day, Edward Baker, Shaun Lott, Leonid A Sazanov, and Gregory Cook. “Structure of the Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential Role in Energy Generation.” <i>Molecular Microbiology</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1111/mmi.12507\">https://doi.org/10.1111/mmi.12507</a>.","ista":"Heikal A, Nakatani Y, Dunn E, Weimar M, Day C, Baker E, Lott S, Sazanov LA, Cook G. 2014. Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. Molecular Microbiology. 91(5), 950–964.","apa":"Heikal, A., Nakatani, Y., Dunn, E., Weimar, M., Day, C., Baker, E., … Cook, G. (2014). Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. <i>Molecular Microbiology</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/mmi.12507\">https://doi.org/10.1111/mmi.12507</a>","ama":"Heikal A, Nakatani Y, Dunn E, et al. Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. <i>Molecular Microbiology</i>. 2014;91(5):950-964. doi:<a href=\"https://doi.org/10.1111/mmi.12507\">10.1111/mmi.12507</a>","short":"A. Heikal, Y. Nakatani, E. Dunn, M. Weimar, C. Day, E. Baker, S. Lott, L.A. Sazanov, G. Cook, Molecular Microbiology 91 (2014) 950–964.","ieee":"A. Heikal <i>et al.</i>, “Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation,” <i>Molecular Microbiology</i>, vol. 91, no. 5. Wiley-Blackwell, pp. 950–964, 2014."},"_id":"1980","year":"2014","intvolume":"        91","issue":"5","extern":1,"month":"03","doi":"10.1111/mmi.12507","acknowledgement":"Funded by      Health Research Council of New Zealand     Royal Society of New Zealand     University of Otago     New Zealand Synchrotron Group","title":"Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation","date_published":"2014-03-01T00:00:00Z","status":"public","page":"950 - 964"},{"intvolume":"       346","day":"10","publist_id":"5093","_id":"1989","year":"2014","citation":{"ista":"Nguyen P, Groen A, Loose M, Ishihara K, Wühr M, Field C, Mitchison T. 2014. Spatial organization of cytokinesis signaling reconstituted in a cell-free system. Science. 346(6206), 244–247.","chicago":"Nguyen, Phuong, Aaron Groen, Martin Loose, Keisuke Ishihara, Martin Wühr, Christine Field, and Timothy Mitchison. “Spatial Organization of Cytokinesis Signaling Reconstituted in a Cell-Free System.” <i>Science</i>. American Association for the Advancement of Science, 2014. <a href=\"https://doi.org/10.1126/science.1256773\">https://doi.org/10.1126/science.1256773</a>.","apa":"Nguyen, P., Groen, A., Loose, M., Ishihara, K., Wühr, M., Field, C., &#38; Mitchison, T. (2014). Spatial organization of cytokinesis signaling reconstituted in a cell-free system. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1256773\">https://doi.org/10.1126/science.1256773</a>","ama":"Nguyen P, Groen A, Loose M, et al. Spatial organization of cytokinesis signaling reconstituted in a cell-free system. <i>Science</i>. 2014;346(6206):244-247. doi:<a href=\"https://doi.org/10.1126/science.1256773\">10.1126/science.1256773</a>","mla":"Nguyen, Phuong, et al. “Spatial Organization of Cytokinesis Signaling Reconstituted in a Cell-Free System.” <i>Science</i>, vol. 346, no. 6206, American Association for the Advancement of Science, 2014, pp. 244–47, doi:<a href=\"https://doi.org/10.1126/science.1256773\">10.1126/science.1256773</a>.","short":"P. Nguyen, A. Groen, M. Loose, K. Ishihara, M. Wühr, C. Field, T. Mitchison, Science 346 (2014) 244–247.","ieee":"P. Nguyen <i>et al.</i>, “Spatial organization of cytokinesis signaling reconstituted in a cell-free system,” <i>Science</i>, vol. 346, no. 6206. American Association for the Advancement of Science, pp. 244–247, 2014."},"date_published":"2014-10-10T00:00:00Z","extern":"1","issue":"6206","month":"10","doi":"10.1126/science.1256773","title":"Spatial organization of cytokinesis signaling reconstituted in a cell-free system","acknowledgement":"This work was supported by NIH grant GM39565 (T.J.M.); MBL fellowships from the Evans Foundation, MBL Associates, and the Colwin Fund (T.J.M. and C.M.F.); HFSP fellowship LT000466/2012-L (M.L.); and NIH grant GM103785 (M.W.). ","page":"244 - 247","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Association for the Advancement of Science","volume":346,"publication":"Science","abstract":[{"text":"During animal cell division, the cleavage furrow is positioned by microtubules that signal to the actin cortex at the cell midplane. We developed a cell-free system to recapitulate cytokinesis signaling using cytoplasmic extract from Xenopus eggs. Microtubules grew out as asters from artificial centrosomes and met to organize antiparallel overlap zones. These zones blocked the interpenetration of neighboring asters and recruited cytokinesis midzone proteins, including the chromosomal passenger complex (CPC) and centralspindlin. The CPC was transported to overlap zones, which required two motor proteins, Kif4A and a Kif20A paralog. Using supported lipid bilayers to mimic the plasma membrane, we observed the recruitment of cleavage furrow markers, including an active RhoA reporter, at microtubule overlaps. This system opens further approaches to understanding the biophysics of cytokinesis signaling.","lang":"eng"}],"oa_version":"None","publication_status":"published","type":"journal_article","date_created":"2018-12-11T11:55:04Z","author":[{"full_name":"Nguyen, Phuong","last_name":"Nguyen","first_name":"Phuong"},{"full_name":"Groen, Aaron","last_name":"Groen","first_name":"Aaron"},{"full_name":"Loose, Martin","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose","first_name":"Martin"},{"first_name":"Keisuke","last_name":"Ishihara","full_name":"Ishihara, Keisuke"},{"first_name":"Martin","last_name":"Wühr","full_name":"Wühr, Martin"},{"full_name":"Field, Christine","first_name":"Christine","last_name":"Field"},{"full_name":"Mitchison, Timothy","first_name":"Timothy","last_name":"Mitchison"}],"date_updated":"2025-08-05T14:39:34Z"},{"intvolume":"        16","_id":"1990","citation":{"ieee":"M. Loose and T. Mitchison, “The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns,” <i>Nature Cell Biology</i>, vol. 16. Nature Publishing Group, pp. 38–46, 2014.","short":"M. Loose, T. Mitchison, Nature Cell Biology 16 (2014) 38–46.","apa":"Loose, M., &#38; Mitchison, T. (2014). The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. <i>Nature Cell Biology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncb2885\">https://doi.org/10.1038/ncb2885</a>","ama":"Loose M, Mitchison T. The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. <i>Nature Cell Biology</i>. 2014;16:38-46. doi:<a href=\"https://doi.org/10.1038/ncb2885\">10.1038/ncb2885</a>","chicago":"Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” <i>Nature Cell Biology</i>. Nature Publishing Group, 2014. <a href=\"https://doi.org/10.1038/ncb2885\">https://doi.org/10.1038/ncb2885</a>.","ista":"Loose M, Mitchison T. 2014. The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. 16, 38–46.","mla":"Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” <i>Nature Cell Biology</i>, vol. 16, Nature Publishing Group, 2014, pp. 38–46, doi:<a href=\"https://doi.org/10.1038/ncb2885\">10.1038/ncb2885</a>."},"year":"2014","day":"01","publist_id":"5094","date_published":"2014-01-01T00:00:00Z","title":"The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns","acknowledgement":"M.L. is supported by fellowships from EMBO (ALTF 394-2011) and HFSP (LT000466/2012). Cytoskeleton dynamics research in the T.J.M. group is supported by NIH-GM39565.","doi":"10.1038/ncb2885","extern":"1","month":"01","page":"38 - 46","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","publisher":"Nature Publishing Group","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"pmid":["24316672"]},"pmid":1,"volume":16,"abstract":[{"text":"Bacterial cytokinesis is commonly initiated by the Z-ring, a cytoskeletal structure that assembles at the site of division. Its primary component is FtsZ, a tubulin superfamily GTPase, which is recruited to the membrane by the actin-related protein FtsA. Both proteins are required for the formation of the Z-ring, but if and how they influence each other's assembly dynamics is not known. Here, we reconstituted FtsA-dependent recruitment of FtsZ polymers to supported membranes, where both proteins self-organize into complex patterns, such as fast-moving filament bundles and chirally rotating rings. Using fluorescence microscopy and biochemical perturbations, we found that these large-scale rearrangements of FtsZ emerge from its polymerization dynamics and a dual, antagonistic role of FtsA: recruitment of FtsZ filaments to the membrane and negative regulation of FtsZ organization. Our findings provide a model for the initial steps of bacterial cell division and illustrate how dynamic polymers can self-organize into large-scale structures.","lang":"eng"}],"publication":"Nature Cell Biology","oa_version":"None","type":"journal_article","publication_status":"published","author":[{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","last_name":"Loose","orcid":"0000-0001-7309-9724","full_name":"Loose, Martin"},{"last_name":"Mitchison","first_name":"Timothy","full_name":"Mitchison, Timothy"}],"date_created":"2018-12-11T11:55:05Z","date_updated":"2025-08-05T14:41:58Z"},{"publisher":"Cell Press","publication":"Current Biology","quality_controlled":"1","publication_status":"published","type":"journal_article","corr_author":"1","department":[{"_id":"JiFr"}],"publist_id":"5088","isi":1,"day":"01","citation":{"short":"T. Viaene, K. Landberg, M. Thelander, E. Medvecka, E. Pederson, E. Feraru, E. Cooper, M. Karimi, C. Delwiche, K. Ljung, M. Geisler, E. Sundberg, J. Friml, Current Biology 24 (2014) 2786–2791.","ieee":"T. Viaene <i>et al.</i>, “Directional auxin transport mechanisms in early diverging land plants,” <i>Current Biology</i>, vol. 24, no. 23. Cell Press, pp. 2786–2791, 2014.","chicago":"Viaene, Tom, Katarina Landberg, Mattias Thelander, Eva Medvecka, Eric Pederson, Elena Feraru, Endymion Cooper, et al. “Directional Auxin Transport Mechanisms in Early Diverging Land Plants.” <i>Current Biology</i>. Cell Press, 2014. <a href=\"https://doi.org/10.1016/j.cub.2014.09.056\">https://doi.org/10.1016/j.cub.2014.09.056</a>.","ista":"Viaene T, Landberg K, Thelander M, Medvecka E, Pederson E, Feraru E, Cooper E, Karimi M, Delwiche C, Ljung K, Geisler M, Sundberg E, Friml J. 2014. Directional auxin transport mechanisms in early diverging land plants. Current Biology. 24(23), 2786–2791.","apa":"Viaene, T., Landberg, K., Thelander, M., Medvecka, E., Pederson, E., Feraru, E., … Friml, J. (2014). Directional auxin transport mechanisms in early diverging land plants. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2014.09.056\">https://doi.org/10.1016/j.cub.2014.09.056</a>","ama":"Viaene T, Landberg K, Thelander M, et al. Directional auxin transport mechanisms in early diverging land plants. <i>Current Biology</i>. 2014;24(23):2786-2791. doi:<a href=\"https://doi.org/10.1016/j.cub.2014.09.056\">10.1016/j.cub.2014.09.056</a>","mla":"Viaene, Tom, et al. “Directional Auxin Transport Mechanisms in Early Diverging Land Plants.” <i>Current Biology</i>, vol. 24, no. 23, Cell Press, 2014, pp. 2786–91, doi:<a href=\"https://doi.org/10.1016/j.cub.2014.09.056\">10.1016/j.cub.2014.09.056</a>."},"doi":"10.1016/j.cub.2014.09.056","issue":"23","page":"2786 - 2791","volume":24,"external_id":{"isi":["000345808700019"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"None","abstract":[{"text":"The emergence and radiation of multicellular land plants was driven by crucial innovations to their body plans [1]. The directional transport of the phytohormone auxin represents a key, plant-specific mechanism for polarization and patterning in complex seed plants [2-5]. Here, we show that already in the early diverging land plant lineage, as exemplified by the moss Physcomitrella patens, auxin transport by PIN transporters is operational and diversified into ER-localized and plasma membrane-localized PIN proteins. Gain-of-function and loss-of-function analyses revealed that PIN-dependent intercellular auxin transport in Physcomitrella mediates crucial developmental transitions in tip-growing filaments and waves of polarization and differentiation in leaf-like structures. Plasma membrane PIN proteins localize in a polar manner to the tips of moss filaments, revealing an unexpected relation between polarization mechanisms in moss tip-growing cells and multicellular tissues of seed plants. Our results trace the origins of polarization and auxin-mediated patterning mechanisms and highlight the crucial role of polarized auxin transport during the evolution of multicellular land plants.","lang":"eng"}],"date_created":"2018-12-11T11:55:06Z","author":[{"last_name":"Viaene","first_name":"Tom","full_name":"Viaene, Tom"},{"last_name":"Landberg","first_name":"Katarina","full_name":"Landberg, Katarina"},{"full_name":"Thelander, Mattias","last_name":"Thelander","first_name":"Mattias"},{"first_name":"Eva","last_name":"Medvecka","full_name":"Medvecka, Eva"},{"first_name":"Eric","last_name":"Pederson","full_name":"Pederson, Eric"},{"full_name":"Feraru, Elena","last_name":"Feraru","first_name":"Elena"},{"full_name":"Cooper, Endymion","first_name":"Endymion","last_name":"Cooper"},{"last_name":"Karimi","first_name":"Mansour","full_name":"Karimi, Mansour"},{"full_name":"Delwiche, Charles","first_name":"Charles","last_name":"Delwiche"},{"full_name":"Ljung, Karin","first_name":"Karin","last_name":"Ljung"},{"first_name":"Markus","last_name":"Geisler","full_name":"Geisler, Markus"},{"full_name":"Sundberg, Eva","last_name":"Sundberg","first_name":"Eva"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml"}],"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"date_updated":"2025-09-29T12:07:20Z","year":"2014","_id":"1994","intvolume":"        24","scopus_import":"1","month":"12","title":"Directional auxin transport mechanisms in early diverging land plants","date_published":"2014-12-01T00:00:00Z","status":"public","ec_funded":1,"article_processing_charge":"No","language":[{"iso":"eng"}]},{"oa_version":"Submitted Version","arxiv":1,"abstract":[{"lang":"eng","text":"Optical transport represents a natural route towards fast communications, and it is currently used in large scale data transfer. The progressive miniaturization of devices for information processing calls for the microscopic tailoring of light transport and confinement at length scales appropriate for upcoming technologies. With this goal in mind, we present a theoretical analysis of a one-dimensional Fabry-Perot interferometer built with two highly saturable nonlinear mirrors: a pair of two-level systems. Our approach captures nonlinear and nonreciprocal effects of light transport that were not reported previously. Remarkably, we show that such an elementary device can operate as a microscopic integrated optical rectifier."}],"volume":113,"oa":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","external_id":{"isi":["000346049700005"],"arxiv":["1410.5972"]},"date_updated":"2025-09-29T12:06:45Z","date_created":"2018-12-11T11:55:06Z","author":[{"full_name":"Fratini, Filippo","last_name":"Fratini","first_name":"Filippo"},{"full_name":"Mascarenhas, Eduardo","last_name":"Mascarenhas","first_name":"Eduardo"},{"first_name":"Laleh","last_name":"Safari","id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","full_name":"Safari, Laleh"},{"full_name":"Poizat, Jean","first_name":"Jean","last_name":"Poizat"},{"last_name":"Valente","first_name":"Daniel","full_name":"Valente, Daniel"},{"full_name":"Auffèves, Alexia","first_name":"Alexia","last_name":"Auffèves"},{"first_name":"Dario","last_name":"Gerace","full_name":"Gerace, Dario"},{"full_name":"Santos, Marcelo","first_name":"Marcelo","last_name":"Santos"}],"project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"month":"12","scopus_import":"1","title":"Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification","date_published":"2014-12-08T00:00:00Z","_id":"1995","year":"2014","intvolume":"       113","article_processing_charge":"No","language":[{"iso":"eng"}],"status":"public","ec_funded":1,"publication":"Physical Review Letters","publisher":"American Physical Society","department":[{"_id":"MiLe"}],"quality_controlled":"1","publication_status":"published","type":"journal_article","issue":"24","doi":"10.1103/PhysRevLett.113.243601","article_number":"243601","day":"08","isi":1,"publist_id":"5085","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1410.5972"}],"citation":{"mla":"Fratini, Filippo, et al. “Fabry-Perot Interferometer with Quantum Mirrors: Nonlinear Light Transport and Rectification.” <i>Physical Review Letters</i>, vol. 113, no. 24, 243601, American Physical Society, 2014, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.113.243601\">10.1103/PhysRevLett.113.243601</a>.","ama":"Fratini F, Mascarenhas E, Safari L, et al. Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. <i>Physical Review Letters</i>. 2014;113(24). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.113.243601\">10.1103/PhysRevLett.113.243601</a>","apa":"Fratini, F., Mascarenhas, E., Safari, L., Poizat, J., Valente, D., Auffèves, A., … Santos, M. (2014). Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.113.243601\">https://doi.org/10.1103/PhysRevLett.113.243601</a>","ista":"Fratini F, Mascarenhas E, Safari L, Poizat J, Valente D, Auffèves A, Gerace D, Santos M. 2014. Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. Physical Review Letters. 113(24), 243601.","chicago":"Fratini, Filippo, Eduardo Mascarenhas, Laleh Safari, Jean Poizat, Daniel Valente, Alexia Auffèves, Dario Gerace, and Marcelo Santos. “Fabry-Perot Interferometer with Quantum Mirrors: Nonlinear Light Transport and Rectification.” <i>Physical Review Letters</i>. American Physical Society, 2014. <a href=\"https://doi.org/10.1103/PhysRevLett.113.243601\">https://doi.org/10.1103/PhysRevLett.113.243601</a>.","ieee":"F. Fratini <i>et al.</i>, “Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification,” <i>Physical Review Letters</i>, vol. 113, no. 24. American Physical Society, 2014.","short":"F. Fratini, E. Mascarenhas, L. Safari, J. Poizat, D. Valente, A. Auffèves, D. Gerace, M. Santos, Physical Review Letters 113 (2014)."}},{"publication":"PNAS","publisher":"National Academy of Sciences","department":[{"_id":"JiFr"}],"type":"journal_article","publication_status":"published","quality_controlled":"1","doi":"10.1073/pnas.1413918111","issue":"50","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273421/","open_access":"1"}],"citation":{"short":"O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, S. Yalovsky, PNAS 111 (2014) E5471–E5479.","ieee":"O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, and S. Yalovsky, “Bimodal regulation of ICR1 levels generates self-organizing auxin distribution,” <i>PNAS</i>, vol. 111, no. 50. National Academy of Sciences, pp. E5471–E5479, 2014.","chicago":"Hazak, Ora, Uri Obolski, Tomas Prat, Jiří Friml, Lilach Hadany, and Shaul Yalovsky. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.” <i>PNAS</i>. National Academy of Sciences, 2014. <a href=\"https://doi.org/10.1073/pnas.1413918111\">https://doi.org/10.1073/pnas.1413918111</a>.","ista":"Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. 2014. Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. PNAS. 111(50), E5471–E5479.","ama":"Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. <i>PNAS</i>. 2014;111(50):E5471-E5479. doi:<a href=\"https://doi.org/10.1073/pnas.1413918111\">10.1073/pnas.1413918111</a>","apa":"Hazak, O., Obolski, U., Prat, T., Friml, J., Hadany, L., &#38; Yalovsky, S. (2014). Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1413918111\">https://doi.org/10.1073/pnas.1413918111</a>","mla":"Hazak, Ora, et al. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.” <i>PNAS</i>, vol. 111, no. 50, National Academy of Sciences, 2014, pp. E5471–79, doi:<a href=\"https://doi.org/10.1073/pnas.1413918111\">10.1073/pnas.1413918111</a>."},"day":"16","isi":1,"publist_id":"5083","page":"E5471 - E5479","abstract":[{"lang":"eng","text":"Auxin polar transport, local maxima, and gradients have become an importantmodel system for studying self-organization. Auxin distribution is regulated by auxin-dependent positive feedback loops that are not well-understood at the molecular level. Previously, we showed the involvement of the RHO of Plants (ROP) effector INTERACTOR of CONSTITUTIVELY active ROP 1 (ICR1) in regulation of auxin transport and that ICR1 levels are posttranscriptionally repressed at the site of maximum auxin accumulation at the root tip. Here, we show that bimodal regulation of ICR1 levels by auxin is essential for regulating formation of auxin local maxima and gradients. ICR1 levels increase concomitant with increase in auxin response in lateral root primordia, cotyledon tips, and provascular tissues. However, in the embryo hypophysis and root meristem, when auxin exceeds critical levels, ICR1 is rapidly destabilized by an SCF(TIR1/AFB) [SKP, Cullin, F-box (transport inhibitor response 1/auxin signaling F-box protein)]-dependent auxin signaling mechanism. Furthermore, ectopic expression of ICR1 in the embryo hypophysis resulted in reduction of auxin accumulation and concomitant root growth arrest. ICR1 disappeared during root regeneration and lateral root initiation concomitantly with the formation of a local auxin maximum in response to external auxin treatments and transiently after gravitropic stimulation. Destabilization of ICR1 was impaired after inhibition of auxin transport and signaling, proteasome function, and protein synthesis. A mathematical model based on these findings shows that an in vivo-like auxin distribution, rootward auxin flux, and shootward reflux can be simulated without assuming preexisting tissue polarity. Our experimental results and mathematical modeling indicate that regulation of auxin distribution is tightly associated with auxin-dependent ICR1 levels."}],"oa_version":"Submitted Version","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","external_id":{"isi":["000346366500020"]},"oa":1,"volume":111,"date_updated":"2025-09-29T12:06:13Z","author":[{"first_name":"Ora","last_name":"Hazak","full_name":"Hazak, Ora"},{"first_name":"Uri","last_name":"Obolski","full_name":"Obolski, Uri"},{"full_name":"Prat, Tomas","last_name":"Prat","first_name":"Tomas","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hadany, Lilach","last_name":"Hadany","first_name":"Lilach"},{"full_name":"Yalovsky, Shaul","last_name":"Yalovsky","first_name":"Shaul"}],"date_created":"2018-12-11T11:55:07Z","date_published":"2014-12-16T00:00:00Z","title":"Bimodal regulation of ICR1 levels generates self-organizing auxin distribution","month":"12","scopus_import":"1","intvolume":"       111","_id":"1996","year":"2014","language":[{"iso":"eng"}],"article_processing_charge":"No","status":"public"},{"page":"471 - 482","doi":"10.1016/j.it.2014.08.005","issue":"10","acknowledgement":"This work was funded by an ERC Starting Grant by the European Research Council (to S.C.) and the ISTFELLOW program (Co-fund Marie Curie Actions of the European Commission; to L.M.).\r\nWe thank Christopher D. Pull, Sophie A.O. Armitage, Hinrich Schulenburg, Line V. Ugelvig, Matthias Konrad, Matthias Fürst, Miriam Stock, Barbara Casillas-Perez and three anonymous referees for comments on the manuscript. ","isi":1,"publist_id":"5081","day":"01","citation":{"short":"L. El Masri, S. Cremer, Trends in Immunology 35 (2014) 471–482.","ieee":"L. El Masri and S. Cremer, “Individual and social immunisation in insects,” <i>Trends in Immunology</i>, vol. 35, no. 10. Elsevier, pp. 471–482, 2014.","mla":"El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in Insects.” <i>Trends in Immunology</i>, vol. 35, no. 10, Elsevier, 2014, pp. 471–82, doi:<a href=\"https://doi.org/10.1016/j.it.2014.08.005\">10.1016/j.it.2014.08.005</a>.","ista":"El Masri L, Cremer S. 2014. Individual and social immunisation in insects. Trends in Immunology. 35(10), 471–482.","chicago":"El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in Insects.” <i>Trends in Immunology</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.it.2014.08.005\">https://doi.org/10.1016/j.it.2014.08.005</a>.","ama":"El Masri L, Cremer S. Individual and social immunisation in insects. <i>Trends in Immunology</i>. 2014;35(10):471-482. doi:<a href=\"https://doi.org/10.1016/j.it.2014.08.005\">10.1016/j.it.2014.08.005</a>","apa":"El Masri, L., &#38; Cremer, S. (2014). Individual and social immunisation in insects. <i>Trends in Immunology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.it.2014.08.005\">https://doi.org/10.1016/j.it.2014.08.005</a>"},"corr_author":"1","department":[{"_id":"SyCr"}],"quality_controlled":"1","publication_status":"published","type":"journal_article","publication":"Trends in Immunology","publisher":"Elsevier","article_processing_charge":"No","language":[{"iso":"eng"}],"status":"public","month":"10","scopus_import":"1","title":"Individual and social immunisation in insects","date_published":"2014-10-01T00:00:00Z","_id":"1998","year":"2014","intvolume":"        35","date_updated":"2025-09-29T12:05:29Z","date_created":"2018-12-11T11:55:07Z","author":[{"full_name":"El Masri, Leila","id":"349A6E66-F248-11E8-B48F-1D18A9856A87","last_name":"El Masri","first_name":"Leila"},{"full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","last_name":"Cremer","first_name":"Sylvia"}],"oa_version":"None","abstract":[{"text":"Immune systems are able to protect the body against secondary infection with the same parasite. In insect colonies, this protection is not restricted to the level of the individual organism, but also occurs at the societal level. Here, we review recent evidence for and insights into the mechanisms underlying individual and social immunisation in insects. We disentangle general immune-protective effects from specific immune memory (priming), and examine immunisation in the context of the lifetime of an individual and that of a colony, and of transgenerational immunisation that benefits offspring. When appropriate, we discuss parallels with disease defence strategies in human societies. We propose that recurrent parasitic threats have shaped the evolution of both the individual immune systems and colony-level social immunity in insects.","lang":"eng"}],"volume":35,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","external_id":{"isi":["000343632600006"]}},{"status":"public","article_processing_charge":"No","language":[{"iso":"eng"}],"day":"30","citation":{"mla":"Dupret, David, and Jozsef L. Csicsvari. “Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep.” <i>Analysis and Modeling of Coordinated Multi-Neuronal Activity</i>, vol. 12, Springer Nature, 2014, doi:<a href=\"https://doi.org/10.1007/978-1-4939-1969-7_6\">10.1007/978-1-4939-1969-7_6</a>.","chicago":"Dupret, David, and Jozsef L Csicsvari. “Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep.” In <i>Analysis and Modeling of Coordinated Multi-Neuronal Activity</i>, Vol. 12. NEUROSCI. Springer Nature, 2014. <a href=\"https://doi.org/10.1007/978-1-4939-1969-7_6\">https://doi.org/10.1007/978-1-4939-1969-7_6</a>.","ista":"Dupret D, Csicsvari JL. 2014.Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep. In: Analysis and Modeling of Coordinated Multi-neuronal Activity. Springer Series in Computational Neuroscience, vol. 12.","ama":"Dupret D, Csicsvari JL. Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep. In: <i>Analysis and Modeling of Coordinated Multi-Neuronal Activity</i>. Vol 12. NEUROSCI. Springer Nature; 2014. doi:<a href=\"https://doi.org/10.1007/978-1-4939-1969-7_6\">10.1007/978-1-4939-1969-7_6</a>","apa":"Dupret, D., &#38; Csicsvari, J. L. (2014). Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep. In <i>Analysis and Modeling of Coordinated Multi-neuronal Activity</i> (Vol. 12). Springer Nature. <a href=\"https://doi.org/10.1007/978-1-4939-1969-7_6\">https://doi.org/10.1007/978-1-4939-1969-7_6</a>","short":"D. Dupret, J.L. Csicsvari, in:, Analysis and Modeling of Coordinated Multi-Neuronal Activity, Springer Nature, 2014.","ieee":"D. Dupret and J. L. Csicsvari, “Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep,” in <i>Analysis and Modeling of Coordinated Multi-neuronal Activity</i>, vol. 12, Springer Nature, 2014."},"_id":"19994","year":"2014","intvolume":"        12","doi":"10.1007/978-1-4939-1969-7_6","scopus_import":"1","month":"10","title":"Reorganization of Hippocampal Place-Selective Patterns During Goal-Directed Learning and Their Reactivation During Sleep","date_published":"2014-10-30T00:00:00Z","date_created":"2025-07-10T14:06:05Z","author":[{"full_name":"Dupret, David","first_name":"David","last_name":"Dupret"},{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari","first_name":"Jozsef L","full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036"}],"series_title":"NEUROSCI","quality_controlled":"1","publication_status":"published","type":"book_chapter","alternative_title":["Springer Series in Computational Neuroscience"],"date_updated":"2025-09-23T09:36:44Z","publication_identifier":{"eissn":["2197-1919"],"issn":["2197-1900"],"isbn":["9781493919680"],"eisbn":["9781493919697"]},"department":[{"_id":"JoCs"}],"volume":12,"OA_type":"closed access","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","oa_version":"None","publication":"Analysis and Modeling of Coordinated Multi-neuronal Activity","abstract":[{"lang":"eng","text":"Firing patterns of hippocampal principal cells are thought to participate in the formation of mnemonic representations of place, which ultimately can be used to guide the behavior of animals in space. Past studies have suggested that place-selective activity in the hippocampus can emphasize the representation of discrete locations associated with a strong behavioral salience. In the first part of this book chapter, we review work that has described how that hippocampal neuronal activity patterns reorganize during spatial learning. These studies revealed that new hippocampal maps emerge during spatial learning to represent the location of goal locations and demonstrated that, during recall, the reinstatement of these maps predicts successful memory performance. In the second part of this chapter, we discuss the role of sleep in memory consolidation in the context of goal-oriented spatial learning. We summarize work that has demonstrated the replay of goal-oriented neuronal assembly patterns that predict subsequent memory recall. Moreover, we argue that the initial strengthening of new maps may in fact take place during learning, triggered by waking sharp-wave/ripple patterns occurring at goal locations. These reviewed studies highlight that the reorganization and replay of place cell firing patterns might constitute a circuit signature for the expression of newly acquired hippocampal engrams."}]}]