[{"volume":1,"has_accepted_license":"1","month":"05","publication":"Science Advances","file_date_updated":"2021-02-02T13:22:19Z","language":[{"iso":"eng"}],"oa_version":"Published Version","publication_identifier":{"issn":["2375-2548"]},"quality_controlled":"1","date_updated":"2023-02-23T13:47:52Z","article_type":"original","ddc":["530"],"title":"Artificial rheotaxis","arxiv":1,"external_id":{"pmid":["26601175"],"arxiv":["1505.05111"]},"article_number":"e1400214","type":"journal_article","issue":"4","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","file":[{"file_id":"9058","date_updated":"2021-02-02T13:22:19Z","file_name":"2015_ScienceAdvances_Palacci.pdf","file_size":2416780,"success":1,"creator":"cziletti","date_created":"2021-02-02T13:22:19Z","access_level":"open_access","checksum":"b97d62433581875c1b85210c5f6ae370","relation":"main_file","content_type":"application/pdf"}],"publication_status":"published","citation":{"ama":"Palacci JA, Sacanna S, Abramian A, et al. Artificial rheotaxis. <i>Science Advances</i>. 2015;1(4). doi:<a href=\"https://doi.org/10.1126/sciadv.1400214\">10.1126/sciadv.1400214</a>","short":"J.A. Palacci, S. Sacanna, A. Abramian, J. Barral, K. Hanson, A.Y. Grosberg, D.J. Pine, P.M. Chaikin, Science Advances 1 (2015).","apa":"Palacci, J. A., Sacanna, S., Abramian, A., Barral, J., Hanson, K., Grosberg, A. Y., … Chaikin, P. M. (2015). Artificial rheotaxis. <i>Science Advances</i>. American Association for the Advancement of Science . <a href=\"https://doi.org/10.1126/sciadv.1400214\">https://doi.org/10.1126/sciadv.1400214</a>","chicago":"Palacci, Jérémie A, Stefano Sacanna, Anaïs Abramian, Jérémie Barral, Kasey Hanson, Alexander Y. Grosberg, David J. Pine, and Paul M. Chaikin. “Artificial Rheotaxis.” <i>Science Advances</i>. American Association for the Advancement of Science , 2015. <a href=\"https://doi.org/10.1126/sciadv.1400214\">https://doi.org/10.1126/sciadv.1400214</a>.","ieee":"J. A. Palacci <i>et al.</i>, “Artificial rheotaxis,” <i>Science Advances</i>, vol. 1, no. 4. American Association for the Advancement of Science , 2015.","mla":"Palacci, Jérémie A., et al. “Artificial Rheotaxis.” <i>Science Advances</i>, vol. 1, no. 4, e1400214, American Association for the Advancement of Science , 2015, doi:<a href=\"https://doi.org/10.1126/sciadv.1400214\">10.1126/sciadv.1400214</a>.","ista":"Palacci JA, Sacanna S, Abramian A, Barral J, Hanson K, Grosberg AY, Pine DJ, Chaikin PM. 2015. Artificial rheotaxis. Science Advances. 1(4), e1400214."},"status":"public","oa":1,"date_published":"2015-05-01T00:00:00Z","intvolume":"         1","author":[{"id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","first_name":"Jérémie A","orcid":"0000-0002-7253-9465","last_name":"Palacci","full_name":"Palacci, Jérémie A"},{"full_name":"Sacanna, Stefano","last_name":"Sacanna","first_name":"Stefano"},{"first_name":"Anaïs","last_name":"Abramian","full_name":"Abramian, Anaïs"},{"full_name":"Barral, Jérémie","last_name":"Barral","first_name":"Jérémie"},{"last_name":"Hanson","full_name":"Hanson, Kasey","first_name":"Kasey"},{"first_name":"Alexander Y.","full_name":"Grosberg, Alexander Y.","last_name":"Grosberg"},{"full_name":"Pine, David J.","last_name":"Pine","first_name":"David J."},{"first_name":"Paul M.","last_name":"Chaikin","full_name":"Chaikin, Paul M."}],"publisher":"American Association for the Advancement of Science ","doi":"10.1126/sciadv.1400214","date_created":"2021-02-02T13:15:02Z","pmid":1,"scopus_import":"1","_id":"9057","tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"abstract":[{"lang":"eng","text":"Motility is a basic feature of living microorganisms, and how it works is often determined by environmental cues. Recent efforts have focused on developing artificial systems that can mimic microorganisms, in particular their self-propulsion. We report on the design and characterization of synthetic self-propelled particles that migrate upstream, known as positive rheotaxis. This phenomenon results from a purely physical mechanism involving the interplay between the polarity of the particles and their alignment by a viscous torque. We show quantitative agreement between experimental data and a simple model of an overdamped Brownian pendulum. The model notably predicts the existence of a stagnation point in a diverging flow. We take advantage of this property to demonstrate that our active particles can sense and predictably organize in an imposed flow. Our colloidal system represents an important step toward the realization of biomimetic microsystems with the ability to sense and respond to environmental changes."}],"year":"2015","extern":"1","article_processing_charge":"No","day":"01"},{"day":"11","article_processing_charge":"No","license":"https://creativecommons.org/publicdomain/zero/1.0/","OA_type":"gold","scopus_import":"1","_id":"906","acknowledgement":"Funding: The work has been supported by a grant of the HHMI International Early Career Scientist Program (55007424), the Spanish Ministry of Economy and Competitiveness (EUI-EURYIP-2011-4320) as part of the EMBO YIP program, two grants from the Spanish Ministry of Economy and Competitiveness, \"Centro de Excelencia Severo Ochoa 2013–2017 (Sev-2012-0208)\" and (BFU2012-31329), the European Union and the European Research Council under grant agreement 335980_EinME. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Our author Dr., Prof. Akimenko Vasilii K. (1942–2013) passed away during work on the article. Prof. Akimenko was a leading biochemist in IBPM RAS and active researcher until last days. A number of his work remains unfinished. We mourn premature care of Prof. Akimenko Vasilii. We thank Heinz Himmelbauer and the CRG Genomic Unit for the sequencing.","tmp":{"image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"abstract":[{"text":"The origin and evolution of novel biochemical functions remains one of the key questions in molecular evolution. We study recently emerged methacrylate reductase function that is thought to have emerged in the last century and reported in Geobacter sulfurreducens strain AM-1. We report the sequence and study the evolution of the operon coding for the flavin-containing methacrylate reductase (Mrd) and tetraheme cytochrome (Mcc) in the genome of G. sulfurreducens AM-1. Different types of signal peptides in functionally interlinked proteins Mrd and Mcc suggest a possible complex mechanism of biogenesis for chromoproteids of the methacrylate redox system. The homologs of the Mrd and Mcc sequence found in δ-Proteobacteria and Deferribacteres are also organized into an operon and their phylogenetic distribution suggested that these two genes tend to be horizontally transferred together. Specifically, the mrd and mcc genes from G. sulfurreducens AM-1 are not monophyletic with any of the homologs found in other Geobacter genomes. The acquisition of methacrylate reductase function by G. sulfurreducens AM-1 appears linked to a horizontal gene transfer event. However, the new function of the products of mrd and mcc may have evolved either prior or subsequent to their acquisition by G. sulfurreducens AM-1.","lang":"eng"}],"year":"2015","extern":"1","OA_place":"publisher","intvolume":"        10","author":[{"first_name":"Oksana","full_name":"Arkhipova, Oksana","last_name":"Arkhipova"},{"first_name":"Margarita","full_name":"Meer, Margarita","last_name":"Meer"},{"first_name":"Galina","full_name":"Mikoulinskaia, Galina","last_name":"Mikoulinskaia"},{"full_name":"Zakharova, Marina","last_name":"Zakharova","first_name":"Marina"},{"last_name":"Galushko","full_name":"Galushko, Alexander","first_name":"Alexander"},{"first_name":"Vasilii","full_name":"Akimenko, Vasilii","last_name":"Akimenko"},{"last_name":"Kondrashov","orcid":"0000-0001-8243-4694","full_name":"Kondrashov, Fyodor","first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Public Library of Science","doi":"10.1371/journal.pone.0125888","date_created":"2018-12-11T11:49:08Z","pmid":1,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1371/journal.pone.0125888"}],"citation":{"short":"O. Arkhipova, M. Meer, G. Mikoulinskaia, M. Zakharova, A. Galushko, V. Akimenko, F. Kondrashov, PLoS One 10 (2015).","ama":"Arkhipova O, Meer M, Mikoulinskaia G, et al. Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer. <i>PLoS One</i>. 2015;10(5). doi:<a href=\"https://doi.org/10.1371/journal.pone.0125888\">10.1371/journal.pone.0125888</a>","apa":"Arkhipova, O., Meer, M., Mikoulinskaia, G., Zakharova, M., Galushko, A., Akimenko, V., &#38; Kondrashov, F. (2015). Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0125888\">https://doi.org/10.1371/journal.pone.0125888</a>","ieee":"O. Arkhipova <i>et al.</i>, “Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer,” <i>PLoS One</i>, vol. 10, no. 5. Public Library of Science, 2015.","chicago":"Arkhipova, Oksana, Margarita Meer, Galina Mikoulinskaia, Marina Zakharova, Alexander Galushko, Vasilii Akimenko, and Fyodor Kondrashov. “Recent Origin of the Methacrylate Redox System in Geobacter Sulfurreducens AM-1 through Horizontal Gene Transfer.” <i>PLoS One</i>. Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pone.0125888\">https://doi.org/10.1371/journal.pone.0125888</a>.","ista":"Arkhipova O, Meer M, Mikoulinskaia G, Zakharova M, Galushko A, Akimenko V, Kondrashov F. 2015. Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer. PLoS One. 10(5).","mla":"Arkhipova, Oksana, et al. “Recent Origin of the Methacrylate Redox System in Geobacter Sulfurreducens AM-1 through Horizontal Gene Transfer.” <i>PLoS One</i>, vol. 10, no. 5, Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pone.0125888\">10.1371/journal.pone.0125888</a>."},"publication_status":"published","DOAJ_listed":"1","status":"public","oa":1,"date_published":"2015-05-11T00:00:00Z","publist_id":"6742","title":"Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer","external_id":{"pmid":["25962149"]},"type":"journal_article","issue":"5","quality_controlled":"1","date_updated":"2026-05-19T08:57:00Z","article_type":"original","publication_identifier":{"eissn":["1932-6203"]},"oa_version":"Published Version","volume":10,"month":"05","publication":"PLoS One","language":[{"iso":"eng"}]},{"day":"08","article_processing_charge":"No","_id":"9141","year":"2015","abstract":[{"lang":"eng","text":"The breaking of internal tides is believed to provide a large part of the power needed to mix the abyssal ocean and sustain the meridional overturning circulation. Both the fraction of internal tide energy that is dissipated locally and the resulting vertical mixing distribution are crucial for the ocean state, but remain poorly quantified. Here we present a first worldwide estimate of mixing due to internal tides generated at small‐scale abyssal hills. Our estimate is based on linear wave theory, a nonlinear parameterization for wave breaking and uses quasi‐global small‐scale abyssal hill bathymetry, stratification, and tidal data. We show that a large fraction of abyssal‐hill generated internal tide energy is locally dissipated over mid‐ocean ridges in the Southern Hemisphere. Significant dissipation occurs above ridge crests, and, upon rescaling by the local stratification, follows a monotonic exponential decay with height off the bottom, with a nonuniform decay scale. We however show that a substantial part of the dissipation occurs over the smoother flanks of mid‐ocean ridges, and exhibits a middepth maximum due to the interplay of wave amplitude with stratification. We link the three‐dimensional map of dissipation to abyssal hills characteristics, ocean stratification, and tidal forcing, and discuss its potential implementation in time‐evolving parameterizations for global climate models. Current tidal parameterizations only account for waves generated at large‐scale satellite‐resolved bathymetry. Our results suggest that the presence of small‐scale, mostly unresolved abyssal hills could significantly enhance the spatial inhomogeneity of tidal mixing, particularly above mid‐ocean ridges in the Southern Hemisphere."}],"extern":"1","page":"4760-4777","author":[{"first_name":"Adrien","full_name":"Lefauve, Adrien","last_name":"Lefauve"},{"full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350","last_name":"Muller","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J"},{"full_name":"Melet, Angélique","last_name":"Melet","first_name":"Angélique"}],"intvolume":"       120","doi":"10.1002/2014jc010598","date_created":"2021-02-15T14:21:49Z","publisher":"American Geophysical Union","main_file_link":[{"url":"https://doi.org/10.1002/2014JC010598","open_access":"1"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa":1,"status":"public","citation":{"apa":"Lefauve, A., Muller, C. J., &#38; Melet, A. (2015). A three-dimensional map of tidal dissipation over abyssal hills. <i>Journal of Geophysical Research: Oceans</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2014jc010598\">https://doi.org/10.1002/2014jc010598</a>","short":"A. Lefauve, C.J. Muller, A. Melet, Journal of Geophysical Research: Oceans 120 (2015) 4760–4777.","ama":"Lefauve A, Muller CJ, Melet A. A three-dimensional map of tidal dissipation over abyssal hills. <i>Journal of Geophysical Research: Oceans</i>. 2015;120(7):4760-4777. doi:<a href=\"https://doi.org/10.1002/2014jc010598\">10.1002/2014jc010598</a>","mla":"Lefauve, Adrien, et al. “A Three-Dimensional Map of Tidal Dissipation over Abyssal Hills.” <i>Journal of Geophysical Research: Oceans</i>, vol. 120, no. 7, American Geophysical Union, 2015, pp. 4760–77, doi:<a href=\"https://doi.org/10.1002/2014jc010598\">10.1002/2014jc010598</a>.","ista":"Lefauve A, Muller CJ, Melet A. 2015. A three-dimensional map of tidal dissipation over abyssal hills. Journal of Geophysical Research: Oceans. 120(7), 4760–4777.","chicago":"Lefauve, Adrien, Caroline J Muller, and Angélique Melet. “A Three-Dimensional Map of Tidal Dissipation over Abyssal Hills.” <i>Journal of Geophysical Research: Oceans</i>. American Geophysical Union, 2015. <a href=\"https://doi.org/10.1002/2014jc010598\">https://doi.org/10.1002/2014jc010598</a>.","ieee":"A. Lefauve, C. J. Muller, and A. Melet, “A three-dimensional map of tidal dissipation over abyssal hills,” <i>Journal of Geophysical Research: Oceans</i>, vol. 120, no. 7. American Geophysical Union, pp. 4760–4777, 2015."},"publication_status":"published","date_published":"2015-06-08T00:00:00Z","title":"A three-dimensional map of tidal dissipation over abyssal hills","type":"journal_article","issue":"7","quality_controlled":"1","article_type":"original","date_updated":"2022-01-24T13:45:41Z","oa_version":"Published Version","publication_identifier":{"issn":["2169-9275"]},"volume":120,"publication":"Journal of Geophysical Research: Oceans","month":"06","language":[{"iso":"eng"}]},{"acknowledgement":"The work presented in this paper is supported by Alstom Transport, site de Tarbes (Contract number is 11099).","_id":"924","page":"1 - 8","extern":"1","abstract":[{"lang":"eng","text":"This paper presents a numerical study of a Capillary Pumped Loop evaporator. A two-dimensional unsteady mathematical model of a flat evaporator is developed to simulate heat and mass transfer in unsaturated porous wick with phase change. The liquid-vapor phase change inside the porous wick is described by Langmuir's law. The governing equations are solved by the Finite Element Method. The results are presented then for a sintered nickel wick and methanol as a working fluid. The heat flux required to the transition from the all-liquid wick to the vapor-liquid wick is calculated. The dynamic and thermodynamic behavior of the working fluid in the capillary structure are discussed in this paper."}],"date_updated":"2021-01-12T08:21:56Z","year":"2015","day":"05","article_processing_charge":"No","title":"Dynamic model of heat and mass transfer in an unsaturated porous wick of capillary pumped loop","type":"journal_article","citation":{"ama":"Boubaker R, Platel V, Bergès A, Bancelin M, Hannezo EB. Dynamic model of heat and mass transfer in an unsaturated porous wick of capillary pumped loop. <i>Applied Thermal Engineering</i>. 2015;76:1-8. doi:<a href=\"https://doi.org/10.1016/j.applthermaleng.2014.10.009\">10.1016/j.applthermaleng.2014.10.009</a>","short":"R. Boubaker, V. Platel, A. Bergès, M. Bancelin, E.B. Hannezo, Applied Thermal Engineering 76 (2015) 1–8.","apa":"Boubaker, R., Platel, V., Bergès, A., Bancelin, M., &#38; Hannezo, E. B. (2015). Dynamic model of heat and mass transfer in an unsaturated porous wick of capillary pumped loop. <i>Applied Thermal Engineering</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.applthermaleng.2014.10.009\">https://doi.org/10.1016/j.applthermaleng.2014.10.009</a>","chicago":"Boubaker, Riadh, Vincent Platel, Alexis Bergès, Mathieu Bancelin, and Edouard B Hannezo. “Dynamic Model of Heat and Mass Transfer in an Unsaturated Porous Wick of Capillary Pumped Loop.” <i>Applied Thermal Engineering</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.applthermaleng.2014.10.009\">https://doi.org/10.1016/j.applthermaleng.2014.10.009</a>.","ieee":"R. Boubaker, V. Platel, A. Bergès, M. Bancelin, and E. B. Hannezo, “Dynamic model of heat and mass transfer in an unsaturated porous wick of capillary pumped loop,” <i>Applied Thermal Engineering</i>, vol. 76. Elsevier, pp. 1–8, 2015.","mla":"Boubaker, Riadh, et al. “Dynamic Model of Heat and Mass Transfer in an Unsaturated Porous Wick of Capillary Pumped Loop.” <i>Applied Thermal Engineering</i>, vol. 76, Elsevier, 2015, pp. 1–8, doi:<a href=\"https://doi.org/10.1016/j.applthermaleng.2014.10.009\">10.1016/j.applthermaleng.2014.10.009</a>.","ista":"Boubaker R, Platel V, Bergès A, Bancelin M, Hannezo EB. 2015. Dynamic model of heat and mass transfer in an unsaturated porous wick of capillary pumped loop. Applied Thermal Engineering. 76, 1–8."},"publication_status":"published","publication":"Applied Thermal Engineering","status":"public","month":"02","volume":76,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"publist_id":"6514","date_published":"2015-02-05T00:00:00Z","publisher":"Elsevier","doi":"10.1016/j.applthermaleng.2014.10.009","date_created":"2018-12-11T11:49:13Z","oa_version":"None","intvolume":"        76","author":[{"full_name":"Boubaker, Riadh","last_name":"Boubaker","first_name":"Riadh"},{"last_name":"Platel","full_name":"Platel, Vincent","first_name":"Vincent"},{"last_name":"Bergès","full_name":"Bergès, Alexis","first_name":"Alexis"},{"first_name":"Mathieu","full_name":"Bancelin, Mathieu","last_name":"Bancelin"},{"orcid":"0000-0001-6005-1561","last_name":"Hannezo","full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","first_name":"Edouard B"}]},{"abstract":[{"text":"The actomyosin cytoskeleton is a primary force-generating mechanism in morphogenesis, thus a robust spatial control of cytoskeletal positioning is essential. In this report, we demonstrate that actomyosin contractility and planar cell polarity (PCP) interact in post-mitotic Ciona notochord cells to self-assemble and reposition actomyosin rings, which play an essential role for cell elongation. Intriguingly, rings always form at the cells′ anterior edge before migrating towards the center as contractility increases, reflecting a novel dynamical property of the cortex. Our drug and genetic manipulations uncover a tug-of-war between contractility, which localizes cortical flows toward the equator and PCP, which tries to reposition them. We develop a simple model of the physical forces underlying this tug-of-war, which quantitatively reproduces our results. We thus propose a quantitative framework for dissecting the relative contribution of contractility and PCP to the self-assembly and repositioning of cytoskeletal structures, which should be applicable to other morphogenetic events.","lang":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"year":"2015","extern":"1","_id":"928","day":"21","publist_id":"6512","date_published":"2015-10-21T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"file_name":"2015_eLife_Sehring.pdf","file_size":7202224,"date_updated":"2020-07-14T12:48:15Z","file_id":"5769","date_created":"2018-12-20T15:50:56Z","creator":"dernst","content_type":"application/pdf","relation":"main_file","checksum":"1e4024b3161adcae4a53a0b3dc8a946e","access_level":"open_access"}],"citation":{"ama":"Sehring I, Recho P, Denker E, et al. Assembly and positioning of actomyosin rings by contractility and planar cell polarity. <i>eLife</i>. 2015;4. doi:<a href=\"https://doi.org/10.7554/eLife.09206\">10.7554/eLife.09206</a>","apa":"Sehring, I., Recho, P., Denker, E., Kourakis, M., Mathiesen, B., Hannezo, E. B., … Jiang, D. (2015). Assembly and positioning of actomyosin rings by contractility and planar cell polarity. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.09206\">https://doi.org/10.7554/eLife.09206</a>","short":"I. Sehring, P. Recho, E. Denker, M. Kourakis, B. Mathiesen, E.B. Hannezo, B. Dong, D. Jiang, ELife 4 (2015).","ieee":"I. Sehring <i>et al.</i>, “Assembly and positioning of actomyosin rings by contractility and planar cell polarity,” <i>eLife</i>, vol. 4. eLife Sciences Publications, 2015.","chicago":"Sehring, Ivonne, Pierre Recho, Elsa Denker, Matthew Kourakis, Birthe Mathiesen, Edouard B Hannezo, Bo Dong, and Di Jiang. “Assembly and Positioning of Actomyosin Rings by Contractility and Planar Cell Polarity.” <i>ELife</i>. eLife Sciences Publications, 2015. <a href=\"https://doi.org/10.7554/eLife.09206\">https://doi.org/10.7554/eLife.09206</a>.","ista":"Sehring I, Recho P, Denker E, Kourakis M, Mathiesen B, Hannezo EB, Dong B, Jiang D. 2015. Assembly and positioning of actomyosin rings by contractility and planar cell polarity. eLife. 4, e09206.","mla":"Sehring, Ivonne, et al. “Assembly and Positioning of Actomyosin Rings by Contractility and Planar Cell Polarity.” <i>ELife</i>, vol. 4, e09206, eLife Sciences Publications, 2015, doi:<a href=\"https://doi.org/10.7554/eLife.09206\">10.7554/eLife.09206</a>."},"publication_status":"published","status":"public","oa":1,"intvolume":"         4","author":[{"full_name":"Sehring, Ivonne","last_name":"Sehring","first_name":"Ivonne"},{"first_name":"Pierre","last_name":"Recho","full_name":"Recho, Pierre"},{"last_name":"Denker","full_name":"Denker, Elsa","first_name":"Elsa"},{"first_name":"Matthew","last_name":"Kourakis","full_name":"Kourakis, Matthew"},{"last_name":"Mathiesen","full_name":"Mathiesen, Birthe","first_name":"Birthe"},{"orcid":"0000-0001-6005-1561","last_name":"Hannezo","full_name":"Hannezo, Edouard B","first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Bo","full_name":"Dong, Bo","last_name":"Dong"},{"first_name":"Di","last_name":"Jiang","full_name":"Jiang, Di"}],"publisher":"eLife Sciences Publications","doi":"10.7554/eLife.09206","date_created":"2018-12-11T11:49:15Z","date_updated":"2021-01-12T08:21:58Z","quality_controlled":"1","type":"journal_article","article_number":"e09206","title":"Assembly and positioning of actomyosin rings by contractility and planar cell polarity","ddc":["539","570"],"file_date_updated":"2020-07-14T12:48:15Z","language":[{"iso":"eng"}],"has_accepted_license":"1","volume":4,"month":"10","publication":"eLife","oa_version":"Published Version"},{"status":"public","month":"07","publication":"PNAS","citation":{"ama":"Hannezo EB, Dong B, Recho P, Joanny J, Hayashi S. Cortical instability drives periodic supracellular actin pattern formation in epithelial tubes. <i>PNAS</i>. 2015;112(28):8620-8625. doi:<a href=\"https://doi.org/10.1073/pnas.1504762112\">10.1073/pnas.1504762112</a>","short":"E.B. Hannezo, B. Dong, P. Recho, J. Joanny, S. Hayashi, PNAS 112 (2015) 8620–8625.","apa":"Hannezo, E. B., Dong, B., Recho, P., Joanny, J., &#38; Hayashi, S. (2015). Cortical instability drives periodic supracellular actin pattern formation in epithelial tubes. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1504762112\">https://doi.org/10.1073/pnas.1504762112</a>","chicago":"Hannezo, Edouard B, Bo Dong, Pierre Recho, Jean Joanny, and Shigeo Hayashi. “Cortical Instability Drives Periodic Supracellular Actin Pattern Formation in Epithelial Tubes.” <i>PNAS</i>. National Academy of Sciences, 2015. <a href=\"https://doi.org/10.1073/pnas.1504762112\">https://doi.org/10.1073/pnas.1504762112</a>.","ieee":"E. B. Hannezo, B. Dong, P. Recho, J. Joanny, and S. Hayashi, “Cortical instability drives periodic supracellular actin pattern formation in epithelial tubes,” <i>PNAS</i>, vol. 112, no. 28. National Academy of Sciences, pp. 8620–8625, 2015.","mla":"Hannezo, Edouard B., et al. “Cortical Instability Drives Periodic Supracellular Actin Pattern Formation in Epithelial Tubes.” <i>PNAS</i>, vol. 112, no. 28, National Academy of Sciences, 2015, pp. 8620–25, doi:<a href=\"https://doi.org/10.1073/pnas.1504762112\">10.1073/pnas.1504762112</a>.","ista":"Hannezo EB, Dong B, Recho P, Joanny J, Hayashi S. 2015. Cortical instability drives periodic supracellular actin pattern formation in epithelial tubes. PNAS. 112(28), 8620–8625."},"publication_status":"published","volume":112,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"6513","language":[{"iso":"eng"}],"date_published":"2015-07-14T00:00:00Z","doi":"10.1073/pnas.1504762112","date_created":"2018-12-11T11:49:15Z","publisher":"National Academy of Sciences","author":[{"full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","first_name":"Edouard B"},{"last_name":"Dong","full_name":"Dong, Bo","first_name":"Bo"},{"full_name":"Recho, Pierre","last_name":"Recho","first_name":"Pierre"},{"first_name":"Jean","full_name":"Joanny, Jean","last_name":"Joanny"},{"full_name":"Hayashi, Shigeo","last_name":"Hayashi","first_name":"Shigeo"}],"oa_version":"None","intvolume":"       112","acknowledgement":"We thank H. Oda, R. E. Ward, K. Saigo, T. Nishimura, D. Pinheiro, Y. Bellaiche, the Bloomington Stock Center, Drosophila Genetic Resource Center (Kyoto), and the Developmental Studies Hybridoma Bank for generously providing antibodies and fly stocks; A. Hayashi for sharing phalloidin staining samples; Y. H. Zhang for plasmid and protocol for CBP preparation; and T. Kondo and J. Prost for suggestions and discussion. This work was supported by the Taishan Scholar Program of Shandong and the Fundamental Research Funds for the Central Universities in China (3005000-841412019) (to B.D.) and a Grant-in-Aid for Scientific Research on Innovative Areas from Ministry of Education, Culture, Sports, Science and Technology of Japan (to S.H.). E.H. acknowledges support from the Young Researcher Prize of the Bettencourt-Schueller Foundation.","_id":"929","page":"8620 - 8625","extern":"1","year":"2015","abstract":[{"text":"An essential question of morphogenesis is how patterns arise without preexisting positional information, as inspired by Turing. In the past few years, cytoskeletal flows in the cell cortex have been identified as a key mechanism of molecular patterning at the subcellular level. Theoretical and in vitro studies have suggested that biological polymers such as actomyosin gels have the property to self-organize, but the applicability of this concept in an in vivo setting remains unclear. Here, we report that the regular spacing pattern of supracellular actin rings in the Drosophila tracheal tubule is governed by a self-organizing principle. We propose a simple biophysical model where pattern formation arises from the interplay of myosin contractility and actin turnover. We validate the hypotheses of the model using photobleaching experiments and report that the formation of actin rings is contractility dependent. Moreover, genetic and pharmacological perturbations of the physical properties of the actomyosin gel modify the spacing of the pattern, as the model predicted. In addition, our model posited a role of cortical friction in stabilizing the spacing pattern of actin rings. Consistently, genetic depletion of apical extracellular matrix caused strikingly dynamic movements of actin rings, mirroring our model prediction of a transition from steady to chaotic actin patterns at low cortical friction. Our results therefore demonstrate quantitatively that a hydrodynamical instability of the actin cortex can trigger regular pattern formation and drive morphogenesis in an in vivo setting. ","lang":"eng"}],"date_updated":"2021-01-12T08:21:59Z","article_processing_charge":"No","day":"14","title":"Cortical instability drives periodic supracellular actin pattern formation in epithelial tubes","issue":"28","type":"journal_article"},{"main_file_link":[{"url":"https://doi.org/10.1073/pnas.1510973112","open_access":"1"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","oa":1,"publication_status":"published","citation":{"short":"S. García, E.B. Hannezo, J. Elgeti, J. Joanny, P. Silberzan, N. Gov, PNAS 112 (2015) 15314–15319.","ama":"García S, Hannezo EB, Elgeti J, Joanny J, Silberzan P, Gov N. Physics of active jamming during collective cellular motion in a monolayer. <i>PNAS</i>. 2015;112(50):15314-15319. doi:<a href=\"https://doi.org/10.1073/pnas.1510973112\">10.1073/pnas.1510973112</a>","apa":"García, S., Hannezo, E. B., Elgeti, J., Joanny, J., Silberzan, P., &#38; Gov, N. (2015). Physics of active jamming during collective cellular motion in a monolayer. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1510973112\">https://doi.org/10.1073/pnas.1510973112</a>","ista":"García S, Hannezo EB, Elgeti J, Joanny J, Silberzan P, Gov N. 2015. Physics of active jamming during collective cellular motion in a monolayer. PNAS. 112(50), 15314–15319.","mla":"García, Simón, et al. “Physics of Active Jamming during Collective Cellular Motion in a Monolayer.” <i>PNAS</i>, vol. 112, no. 50, National Academy of Sciences, 2015, pp. 15314–19, doi:<a href=\"https://doi.org/10.1073/pnas.1510973112\">10.1073/pnas.1510973112</a>.","chicago":"García, Simón, Edouard B Hannezo, Jens Elgeti, Jean Joanny, Pascal Silberzan, and Nir Gov. “Physics of Active Jamming during Collective Cellular Motion in a Monolayer.” <i>PNAS</i>. National Academy of Sciences, 2015. <a href=\"https://doi.org/10.1073/pnas.1510973112\">https://doi.org/10.1073/pnas.1510973112</a>.","ieee":"S. García, E. B. Hannezo, J. Elgeti, J. Joanny, P. Silberzan, and N. Gov, “Physics of active jamming during collective cellular motion in a monolayer,” <i>PNAS</i>, vol. 112, no. 50. National Academy of Sciences, pp. 15314–15319, 2015."},"publist_id":"6511","date_published":"2015-12-15T00:00:00Z","OA_place":"publisher","author":[{"first_name":"Simón","full_name":"García, Simón","last_name":"García"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","first_name":"Edouard B","last_name":"Hannezo","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B"},{"last_name":"Elgeti","full_name":"Elgeti, Jens","first_name":"Jens"},{"first_name":"Jean","last_name":"Joanny","full_name":"Joanny, Jean"},{"first_name":"Pascal","full_name":"Silberzan, Pascal","last_name":"Silberzan"},{"first_name":"Nir","full_name":"Gov, Nir","last_name":"Gov"}],"intvolume":"       112","pmid":1,"doi":"10.1073/pnas.1510973112","date_created":"2018-12-11T11:49:16Z","publisher":"National Academy of Sciences","_id":"933","scopus_import":"1","OA_type":"hybrid","year":"2015","abstract":[{"text":"Although collective cell motion plays an important role, for example during wound healing, embryogenesis, or cancer progression, the fundamental rules governing this motion are still not well understood, in particular at high cell density. We study here the motion of human bronchial epithelial cells within a monolayer, over long times. We observe that, as the monolayer ages, the cells slow down monotonously, while the velocity correlation length first increases as the cells slow down but eventually decreases at the slowest motions. By comparing experiments, analytic model, and detailed particle-based simulations, we shed light on this biological amorphous solidification process, demonstrating that the observed dynamics can be explained as a consequence of the combined maturation and strengthening of cell-cell and cell-substrate adhesions. Surprisingly, the increase of cell surface density due to proliferation is only secondary in this process. This analysis is confirmed with two other cell types. The very general relations between the mean cell velocity and velocity correlation lengths, which apply for aggregates of self-propelled particles, as well as motile cells, can possibly be used to discriminate between various parameter changes in vivo, from noninvasive microscopy data.","lang":"eng"}],"extern":"1","page":"15314 - 15319","day":"15","article_processing_charge":"No","volume":112,"month":"12","publication":"PNAS","language":[{"iso":"eng"}],"oa_version":"Published Version","publication_identifier":{"eissn":["1091-6490"],"issn":[" 0027-8424"]},"quality_controlled":"1","article_type":"original","date_updated":"2026-05-19T10:19:15Z","title":"Physics of active jamming during collective cellular motion in a monolayer","external_id":{"pmid":["26627719"]},"type":"journal_article","issue":"50"},{"article_type":"review","date_updated":"2021-12-14T07:58:15Z","quality_controlled":"1","department":[{"_id":"DaZi"}],"issue":"24","type":"journal_article","external_id":{"pmid":["26680300"]},"ddc":["570"],"title":"Evolution and function of genomic imprinting in plants","language":[{"iso":"eng"}],"file_date_updated":"2021-06-08T09:55:10Z","publication":"Genes and Development","month":"12","volume":29,"has_accepted_license":"1","oa_version":"Published Version","publication_identifier":{"eissn":["1549-5477"],"issn":["0890-9369"]},"extern":"1","page":"2517–2531","year":"2015","tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"abstract":[{"lang":"eng","text":"Genomic imprinting, an inherently epigenetic phenomenon defined by parent of origin-dependent gene expression, is observed in mammals and flowering plants. Genome-scale surveys of imprinted expression and the underlying differential epigenetic marks have led to the discovery of hundreds of imprinted plant genes and confirmed DNA and histone methylation as key regulators of plant imprinting. However, the biological roles of the vast majority of imprinted plant genes are unknown, and the evolutionary forces shaping plant imprinting remain rather opaque. Here, we review the mechanisms of plant genomic imprinting and discuss theories of imprinting evolution and biological significance in light of recent findings."}],"_id":"9532","scopus_import":"1","day":"15","article_processing_charge":"No","date_published":"2015-12-15T00:00:00Z","oa":1,"status":"public","file":[{"success":1,"creator":"asandaue","date_created":"2021-06-08T09:55:10Z","checksum":"086a88cfca4677646da26ed960cb02e9","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_name":"2015_GenesAndDevelopment_Rodrigues.pdf","file_size":1116846,"file_id":"9533","date_updated":"2021-06-08T09:55:10Z"}],"citation":{"ista":"Rodrigues JA, Zilberman D. 2015. Evolution and function of genomic imprinting in plants. Genes and Development. 29(24), 2517–2531.","mla":"Rodrigues, Jessica A., and Daniel Zilberman. “Evolution and Function of Genomic Imprinting in Plants.” <i>Genes and Development</i>, vol. 29, no. 24, Cold Spring Harbor Laboratory Press, 2015, pp. 2517–2531, doi:<a href=\"https://doi.org/10.1101/gad.269902.115\">10.1101/gad.269902.115</a>.","chicago":"Rodrigues, Jessica A., and Daniel Zilberman. “Evolution and Function of Genomic Imprinting in Plants.” <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press, 2015. <a href=\"https://doi.org/10.1101/gad.269902.115\">https://doi.org/10.1101/gad.269902.115</a>.","ieee":"J. A. Rodrigues and D. Zilberman, “Evolution and function of genomic imprinting in plants,” <i>Genes and Development</i>, vol. 29, no. 24. Cold Spring Harbor Laboratory Press, pp. 2517–2531, 2015.","short":"J.A. Rodrigues, D. Zilberman, Genes and Development 29 (2015) 2517–2531.","apa":"Rodrigues, J. A., &#38; Zilberman, D. (2015). Evolution and function of genomic imprinting in plants. <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press. <a href=\"https://doi.org/10.1101/gad.269902.115\">https://doi.org/10.1101/gad.269902.115</a>","ama":"Rodrigues JA, Zilberman D. Evolution and function of genomic imprinting in plants. <i>Genes and Development</i>. 2015;29(24):2517–2531. doi:<a href=\"https://doi.org/10.1101/gad.269902.115\">10.1101/gad.269902.115</a>"},"publication_status":"published","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","doi":"10.1101/gad.269902.115","date_created":"2021-06-08T09:56:24Z","pmid":1,"publisher":"Cold Spring Harbor Laboratory Press","author":[{"first_name":"Jessica A.","full_name":"Rodrigues, Jessica A.","last_name":"Rodrigues"},{"last_name":"Zilberman","orcid":"0000-0002-0123-8649","full_name":"Zilberman, Daniel","first_name":"Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"}],"intvolume":"        29"},{"author":[{"first_name":"Michael","full_name":"Krivelevich, Michael","last_name":"Krivelevich"},{"full_name":"Kwan, Matthew Alan","last_name":"Kwan","orcid":"0000-0002-4003-7567","first_name":"Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3"},{"full_name":"Sudakov, Benny","last_name":"Sudakov","first_name":"Benny"}],"intvolume":"        49","date_created":"2021-06-21T06:40:34Z","doi":"10.1016/j.endm.2015.06.027","publisher":"Elsevier","date_published":"2015-11-01T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1501.04816"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","status":"public","oa":1,"publication_status":"published","citation":{"ista":"Krivelevich M, Kwan MA, Sudakov B. 2015. Cycles and matchings in randomly perturbed digraphs and hypergraphs. Electronic Notes in Discrete Mathematics. 49, 181–187.","mla":"Krivelevich, Michael, et al. “Cycles and Matchings in Randomly Perturbed Digraphs and Hypergraphs.” <i>Electronic Notes in Discrete Mathematics</i>, vol. 49, Elsevier, 2015, pp. 181–87, doi:<a href=\"https://doi.org/10.1016/j.endm.2015.06.027\">10.1016/j.endm.2015.06.027</a>.","ieee":"M. Krivelevich, M. A. Kwan, and B. Sudakov, “Cycles and matchings in randomly perturbed digraphs and hypergraphs,” <i>Electronic Notes in Discrete Mathematics</i>, vol. 49. Elsevier, pp. 181–187, 2015.","chicago":"Krivelevich, Michael, Matthew Alan Kwan, and Benny Sudakov. “Cycles and Matchings in Randomly Perturbed Digraphs and Hypergraphs.” <i>Electronic Notes in Discrete Mathematics</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.endm.2015.06.027\">https://doi.org/10.1016/j.endm.2015.06.027</a>.","apa":"Krivelevich, M., Kwan, M. A., &#38; Sudakov, B. (2015). Cycles and matchings in randomly perturbed digraphs and hypergraphs. <i>Electronic Notes in Discrete Mathematics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.endm.2015.06.027\">https://doi.org/10.1016/j.endm.2015.06.027</a>","ama":"Krivelevich M, Kwan MA, Sudakov B. Cycles and matchings in randomly perturbed digraphs and hypergraphs. <i>Electronic Notes in Discrete Mathematics</i>. 2015;49:181-187. doi:<a href=\"https://doi.org/10.1016/j.endm.2015.06.027\">10.1016/j.endm.2015.06.027</a>","short":"M. Krivelevich, M.A. Kwan, B. Sudakov, Electronic Notes in Discrete Mathematics 49 (2015) 181–187."},"day":"01","article_processing_charge":"No","year":"2015","abstract":[{"lang":"eng","text":"We give several results showing that different discrete structures typically gain certain spanning substructures (in particular, Hamilton cycles) after a modest random perturbation. First, we prove that adding linearly many random edges to a dense k-uniform hypergraph ensures the (asymptotically almost sure) existence of a perfect matching or a loose Hamilton cycle. The proof involves an interesting application of Szemerédi's Regularity Lemma, which might be independently useful. We next prove that digraphs with certain strong expansion properties are pancyclic, and use this to show that adding a linear number of random edges typically makes a dense digraph pancyclic. Finally, we prove that perturbing a certain (minimum-degree-dependent) number of random edges in a tournament typically ensures the existence of multiple edge-disjoint Hamilton cycles. All our results are tight."}],"extern":"1","page":"181-187","_id":"9575","scopus_import":"1","oa_version":"Preprint","publication_identifier":{"issn":["1571-0653"]},"language":[{"iso":"eng"}],"volume":49,"publication":"Electronic Notes in Discrete Mathematics","month":"11","type":"journal_article","title":"Cycles and matchings in randomly perturbed digraphs and hypergraphs","external_id":{"arxiv":["1501.04816"]},"arxiv":1,"article_type":"original","date_updated":"2023-02-23T14:01:28Z","quality_controlled":"1"},{"_id":"9673","scopus_import":"1","page":"1-25","extern":"1","article_type":"original","year":"2015","date_updated":"2023-02-23T14:04:28Z","abstract":[{"text":"Current strategies of computational crystal plasticity that focus on individual atoms or dislocations are impractical for real-scale, large-strain problems even with today’s computing power. Dislocation-density based approaches are a way forward but a critical issue to address is a realistic description of the interactions between dislocations. In this paper, a new scheme for computational dynamics of dislocation-density functions is proposed, which takes full consideration of the mutual elastic interactions between dislocations based on the Hirth–Lothe formulation. Other features considered include (i) the continuity nature of the movements of dislocation densities, (ii) forest hardening, (iii) generation according to high spatial gradients in dislocation densities, and (iv) annihilation. Numerical implementation by the finite-volume method, which is well suited for flow problems with high gradients, is discussed. Numerical examples performed for a single-crystal aluminum model show typical strength anisotropy behavior comparable to experimental observations. Furthermore, a detailed case study on small-scale crystal plasticity successfully captures a number of key experimental features, including power-law relation between strength and size, low dislocation storage and jerky deformation.","lang":"eng"}],"article_processing_charge":"No","day":"01","title":"A new dislocation-density-function dynamics scheme for computational crystal plasticity by explicit consideration of dislocation elastic interactions","type":"journal_article","status":"public","publication":"International Journal of Plasticity","month":"04","citation":{"short":"H.S. Leung, P.S.S. Leung, B. Cheng, A.H.W. Ngan, International Journal of Plasticity 67 (2015) 1–25.","apa":"Leung, H. S., Leung, P. S. S., Cheng, B., &#38; Ngan, A. H. W. (2015). A new dislocation-density-function dynamics scheme for computational crystal plasticity by explicit consideration of dislocation elastic interactions. <i>International Journal of Plasticity</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ijplas.2014.09.009\">https://doi.org/10.1016/j.ijplas.2014.09.009</a>","ama":"Leung HS, Leung PSS, Cheng B, Ngan AHW. A new dislocation-density-function dynamics scheme for computational crystal plasticity by explicit consideration of dislocation elastic interactions. <i>International Journal of Plasticity</i>. 2015;67:1-25. doi:<a href=\"https://doi.org/10.1016/j.ijplas.2014.09.009\">10.1016/j.ijplas.2014.09.009</a>","chicago":"Leung, H.S., P.S.S. Leung, Bingqing Cheng, and A.H.W. Ngan. “A New Dislocation-Density-Function Dynamics Scheme for Computational Crystal Plasticity by Explicit Consideration of Dislocation Elastic Interactions.” <i>International Journal of Plasticity</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.ijplas.2014.09.009\">https://doi.org/10.1016/j.ijplas.2014.09.009</a>.","ieee":"H. S. Leung, P. S. S. Leung, B. Cheng, and A. H. W. Ngan, “A new dislocation-density-function dynamics scheme for computational crystal plasticity by explicit consideration of dislocation elastic interactions,” <i>International Journal of Plasticity</i>, vol. 67. Elsevier, pp. 1–25, 2015.","mla":"Leung, H. S., et al. “A New Dislocation-Density-Function Dynamics Scheme for Computational Crystal Plasticity by Explicit Consideration of Dislocation Elastic Interactions.” <i>International Journal of Plasticity</i>, vol. 67, Elsevier, 2015, pp. 1–25, doi:<a href=\"https://doi.org/10.1016/j.ijplas.2014.09.009\">10.1016/j.ijplas.2014.09.009</a>.","ista":"Leung HS, Leung PSS, Cheng B, Ngan AHW. 2015. A new dislocation-density-function dynamics scheme for computational crystal plasticity by explicit consideration of dislocation elastic interactions. International Journal of Plasticity. 67, 1–25."},"publication_status":"published","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","volume":67,"language":[{"iso":"eng"}],"date_published":"2015-04-01T00:00:00Z","date_created":"2021-07-15T14:09:32Z","doi":"10.1016/j.ijplas.2014.09.009","publisher":"Elsevier","author":[{"first_name":"H.S.","last_name":"Leung","full_name":"Leung, H.S."},{"first_name":"P.S.S.","last_name":"Leung","full_name":"Leung, P.S.S."},{"last_name":"Cheng","orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing","first_name":"Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9"},{"first_name":"A.H.W.","full_name":"Ngan, A.H.W.","last_name":"Ngan"}],"oa_version":"None","intvolume":"        67","publication_identifier":{"issn":["0749-6419"]}},{"publication_identifier":{"issn":["0965-0393"],"eissn":["1361-651X"]},"intvolume":"        23","oa_version":"None","author":[{"full_name":"Leung, P S S","last_name":"Leung","first_name":"P S S"},{"first_name":"H S","last_name":"Leung","full_name":"Leung, H S"},{"orcid":"0000-0002-3584-9632","last_name":"Cheng","full_name":"Cheng, Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing"},{"first_name":"A H W","full_name":"Ngan, A H W","last_name":"Ngan"}],"publisher":"IOP Publishing","date_created":"2021-07-19T09:11:12Z","doi":"10.1088/0965-0393/23/3/035001","date_published":"2015-04-01T00:00:00Z","language":[{"iso":"eng"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","volume":23,"publication_status":"published","citation":{"short":"P.S.S. Leung, H.S. Leung, B. Cheng, A.H.W. Ngan, Modelling and Simulation in Materials Science and Engineering 23 (2015).","ama":"Leung PSS, Leung HS, Cheng B, Ngan AHW. Size dependence of yield strength simulated by a dislocation-density function dynamics approach. <i>Modelling and Simulation in Materials Science and Engineering</i>. 2015;23(3). doi:<a href=\"https://doi.org/10.1088/0965-0393/23/3/035001\">10.1088/0965-0393/23/3/035001</a>","apa":"Leung, P. S. S., Leung, H. S., Cheng, B., &#38; Ngan, A. H. W. (2015). Size dependence of yield strength simulated by a dislocation-density function dynamics approach. <i>Modelling and Simulation in Materials Science and Engineering</i>. IOP Publishing. <a href=\"https://doi.org/10.1088/0965-0393/23/3/035001\">https://doi.org/10.1088/0965-0393/23/3/035001</a>","chicago":"Leung, P S S, H S Leung, Bingqing Cheng, and A H W Ngan. “Size Dependence of Yield Strength Simulated by a Dislocation-Density Function Dynamics Approach.” <i>Modelling and Simulation in Materials Science and Engineering</i>. IOP Publishing, 2015. <a href=\"https://doi.org/10.1088/0965-0393/23/3/035001\">https://doi.org/10.1088/0965-0393/23/3/035001</a>.","ieee":"P. S. S. Leung, H. S. Leung, B. Cheng, and A. H. W. Ngan, “Size dependence of yield strength simulated by a dislocation-density function dynamics approach,” <i>Modelling and Simulation in Materials Science and Engineering</i>, vol. 23, no. 3. IOP Publishing, 2015.","mla":"Leung, P. S. S., et al. “Size Dependence of Yield Strength Simulated by a Dislocation-Density Function Dynamics Approach.” <i>Modelling and Simulation in Materials Science and Engineering</i>, vol. 23, no. 3, 035001, IOP Publishing, 2015, doi:<a href=\"https://doi.org/10.1088/0965-0393/23/3/035001\">10.1088/0965-0393/23/3/035001</a>.","ista":"Leung PSS, Leung HS, Cheng B, Ngan AHW. 2015. Size dependence of yield strength simulated by a dislocation-density function dynamics approach. Modelling and Simulation in Materials Science and Engineering. 23(3), 035001."},"publication":"Modelling and Simulation in Materials Science and Engineering","status":"public","month":"04","type":"journal_article","issue":"3","article_number":"035001","title":"Size dependence of yield strength simulated by a dislocation-density function dynamics approach","day":"01","article_processing_charge":"No","date_updated":"2023-02-23T14:04:54Z","abstract":[{"text":"The size dependence of the strength of nano- and micron-sized crystals is studied using a new simulation approach in which the dynamics of the density functions of dislocations are modeled. Since any quantity of dislocations can be represented by a density, this approach can handle large systems containing large quantities of dislocations, which may handicap discrete dislocation dynamics schemes due to the excessive computation time involved. For this reason, pillar sizes spanning a large range, from the sub-micron to micron regimes, can be simulated. The simulation results reveal the power-law relationship between strength and specimen size up to a certain size, beyond which the strength varies much more slowly with size. For specimens smaller than ~4000b, their strength is found to be controlled by the dislocation depletion condition, in which the total dislocation density remains almost constant throughout the loading process. In specimens larger than ~4000b, the initial dislocation distribution is of critical importance since the presence of dislocation entanglements is found to obstruct deformation in the neighboring regions within a distance of ~2000b. This length scale suggests that the effects of dense dislocation clusters are greater in intermediate-sized specimens (e.g. 4000b and 8000b) than in larger specimens (e.g. 16 000b), according to the weakest-link concept.","lang":"eng"}],"year":"2015","article_type":"original","extern":"1","scopus_import":"1","_id":"9684","quality_controlled":"1"},{"volume":92,"month":"11","publication":"Physical Review B - Condensed Matter and Materials Physics","language":[{"iso":"eng"}],"publication_identifier":{"issn":["1098-0121"],"eissn":["1550-235X"]},"oa_version":"Preprint","quality_controlled":"1","date_updated":"2021-08-09T12:38:49Z","article_type":"original","arxiv":1,"article_number":"180102","title":"Solid-liquid interfacial free energy out of equilibrium","external_id":{"arxiv":["1511.08668"]},"type":"journal_article","issue":"18","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1511.08668"}],"citation":{"short":"B. Cheng, G.A. Tribello, M. Ceriotti, Physical Review B - Condensed Matter and Materials Physics 92 (2015).","apa":"Cheng, B., Tribello, G. A., &#38; Ceriotti, M. (2015). Solid-liquid interfacial free energy out of equilibrium. <i>Physical Review B - Condensed Matter and Materials Physics</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.92.180102\">https://doi.org/10.1103/physrevb.92.180102</a>","ama":"Cheng B, Tribello GA, Ceriotti M. Solid-liquid interfacial free energy out of equilibrium. <i>Physical Review B - Condensed Matter and Materials Physics</i>. 2015;92(18). doi:<a href=\"https://doi.org/10.1103/physrevb.92.180102\">10.1103/physrevb.92.180102</a>","chicago":"Cheng, Bingqing, Gareth A. Tribello, and Michele Ceriotti. “Solid-Liquid Interfacial Free Energy out of Equilibrium.” <i>Physical Review B - Condensed Matter and Materials Physics</i>. American Physical Society, 2015. <a href=\"https://doi.org/10.1103/physrevb.92.180102\">https://doi.org/10.1103/physrevb.92.180102</a>.","ieee":"B. Cheng, G. A. Tribello, and M. Ceriotti, “Solid-liquid interfacial free energy out of equilibrium,” <i>Physical Review B - Condensed Matter and Materials Physics</i>, vol. 92, no. 18. American Physical Society, 2015.","ista":"Cheng B, Tribello GA, Ceriotti M. 2015. Solid-liquid interfacial free energy out of equilibrium. Physical Review B - Condensed Matter and Materials Physics. 92(18), 180102.","mla":"Cheng, Bingqing, et al. “Solid-Liquid Interfacial Free Energy out of Equilibrium.” <i>Physical Review B - Condensed Matter and Materials Physics</i>, vol. 92, no. 18, 180102, American Physical Society, 2015, doi:<a href=\"https://doi.org/10.1103/physrevb.92.180102\">10.1103/physrevb.92.180102</a>."},"publication_status":"published","oa":1,"status":"public","date_published":"2015-11-01T00:00:00Z","intvolume":"        92","author":[{"full_name":"Cheng, Bingqing","last_name":"Cheng","orcid":"0000-0002-3584-9632","first_name":"Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9"},{"last_name":"Tribello","full_name":"Tribello, Gareth A.","first_name":"Gareth A."},{"full_name":"Ceriotti, Michele","last_name":"Ceriotti","first_name":"Michele"}],"publisher":"American Physical Society","doi":"10.1103/physrevb.92.180102","date_created":"2021-07-19T10:07:22Z","scopus_import":"1","_id":"9688","abstract":[{"lang":"eng","text":"The properties of the interface between solid and melt are key to solidification and melting, as the interfacial free energy introduces a kinetic barrier to phase transitions. This makes solidification happen below the melting temperature, in out-of-equilibrium conditions at which the interfacial free energy is ill defined. Here we draw a connection between the atomistic description of a diffuse solid-liquid interface and its thermodynamic characterization. This framework resolves the ambiguities in defining the solid-liquid interfacial free energy above and below the melting temperature. In addition, we introduce a simulation protocol that allows solid-liquid interfaces to be reversibly created and destroyed at conditions relevant for experiments. We directly evaluate the value of the interfacial free energy away from the melting point for a simple but realistic atomic potential, and find a more complex temperature dependence than the constant positive slope that has been generally assumed based on phenomenological considerations and that has been used to interpret experiments. This methodology could be easily extended to the study of other phase transitions, from condensation to precipitation. Our analysis can help reconcile the textbook picture of classical nucleation theory with the growing body of atomistic studies and mesoscale models of solidification."}],"year":"2015","extern":"1","day":"01","article_processing_charge":"No"},{"type":"research_data_reference","day":"18","article_processing_charge":"No","title":"Excel file containing the raw data for all figures","year":"2015","date_updated":"2025-09-23T09:58:54Z","department":[{"_id":"ToBo"}],"_id":"9711","date_created":"2021-07-23T11:53:50Z","doi":"10.1371/journal.pbio.1002299.s001","publisher":"Public Library of Science","author":[{"last_name":"Chevereau","full_name":"Chevereau, Guillaume","id":"424D78A0-F248-11E8-B48F-1D18A9856A87","first_name":"Guillaume"},{"full_name":"Lukacisinova, Marta","orcid":"0000-0002-2519-8004","last_name":"Lukacisinova","first_name":"Marta","id":"4342E402-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Batur","full_name":"Batur, Tugce","first_name":"Tugce"},{"last_name":"Guvenek","full_name":"Guvenek, Aysegul","first_name":"Aysegul"},{"full_name":"Ayhan, Dilay Hazal","last_name":"Ayhan","first_name":"Dilay Hazal"},{"last_name":"Toprak","full_name":"Toprak, Erdal","first_name":"Erdal"},{"last_name":"Bollenbach","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Mark Tobias","first_name":"Mark Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"Published Version","date_published":"2015-11-18T00:00:00Z","related_material":{"record":[{"relation":"used_in_publication","id":"1619","status":"public"}]},"status":"public","month":"11","citation":{"short":"G. Chevereau, M. Lukacisinova, T. Batur, A. Guvenek, D.H. Ayhan, E. Toprak, M.T. Bollenbach, (2015).","apa":"Chevereau, G., Lukacisinova, M., Batur, T., Guvenek, A., Ayhan, D. H., Toprak, E., &#38; Bollenbach, M. T. (2015). Excel file containing the raw data for all figures. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.1002299.s001\">https://doi.org/10.1371/journal.pbio.1002299.s001</a>","ama":"Chevereau G, Lukacisinova M, Batur T, et al. Excel file containing the raw data for all figures. 2015. doi:<a href=\"https://doi.org/10.1371/journal.pbio.1002299.s001\">10.1371/journal.pbio.1002299.s001</a>","ista":"Chevereau G, Lukacisinova M, Batur T, Guvenek A, Ayhan DH, Toprak E, Bollenbach MT. 2015. Excel file containing the raw data for all figures, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pbio.1002299.s001\">10.1371/journal.pbio.1002299.s001</a>.","mla":"Chevereau, Guillaume, et al. <i>Excel File Containing the Raw Data for All Figures</i>. Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pbio.1002299.s001\">10.1371/journal.pbio.1002299.s001</a>.","chicago":"Chevereau, Guillaume, Marta Lukacisinova, Tugce Batur, Aysegul Guvenek, Dilay Hazal Ayhan, Erdal Toprak, and Mark Tobias Bollenbach. “Excel File Containing the Raw Data for All Figures.” Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pbio.1002299.s001\">https://doi.org/10.1371/journal.pbio.1002299.s001</a>.","ieee":"G. Chevereau <i>et al.</i>, “Excel file containing the raw data for all figures.” Public Library of Science, 2015."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf"},{"department":[{"_id":"NiBa"},{"_id":"CaGu"},{"_id":"GaTk"}],"_id":"9712","year":"2015","date_updated":"2025-09-23T08:31:14Z","day":"06","article_processing_charge":"No","title":"Other fitness models for comparison & for interacting TFBSs","type":"research_data_reference","month":"11","status":"public","citation":{"ieee":"M. Tugrul, T. Paixao, N. H. Barton, and G. Tkačik, “Other fitness models for comparison &#38; for interacting TFBSs.” Public Library of Science, 2015.","chicago":"Tugrul, Murat, Tiago Paixao, Nicholas H Barton, and Gašper Tkačik. “Other Fitness Models for Comparison &#38; for Interacting TFBSs.” Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pgen.1005639.s001\">https://doi.org/10.1371/journal.pgen.1005639.s001</a>.","mla":"Tugrul, Murat, et al. <i>Other Fitness Models for Comparison &#38; for Interacting TFBSs</i>. Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1005639.s001\">10.1371/journal.pgen.1005639.s001</a>.","ista":"Tugrul M, Paixao T, Barton NH, Tkačik G. 2015. Other fitness models for comparison &#38; for interacting TFBSs, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pgen.1005639.s001\">10.1371/journal.pgen.1005639.s001</a>.","apa":"Tugrul, M., Paixao, T., Barton, N. H., &#38; Tkačik, G. (2015). Other fitness models for comparison &#38; for interacting TFBSs. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1005639.s001\">https://doi.org/10.1371/journal.pgen.1005639.s001</a>","ama":"Tugrul M, Paixao T, Barton NH, Tkačik G. Other fitness models for comparison &#38; for interacting TFBSs. 2015. doi:<a href=\"https://doi.org/10.1371/journal.pgen.1005639.s001\">10.1371/journal.pgen.1005639.s001</a>","short":"M. Tugrul, T. Paixao, N.H. Barton, G. Tkačik, (2015)."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_published":"2015-11-06T00:00:00Z","related_material":{"record":[{"relation":"used_in_publication","id":"1666","status":"public"}]},"doi":"10.1371/journal.pgen.1005639.s001","date_created":"2021-07-23T12:00:37Z","publisher":"Public Library of Science","author":[{"last_name":"Tugrul","orcid":"0000-0002-8523-0758","full_name":"Tugrul, Murat","id":"37C323C6-F248-11E8-B48F-1D18A9856A87","first_name":"Murat"},{"last_name":"Paixao","orcid":"0000-0003-2361-3953","full_name":"Paixao, Tiago","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","first_name":"Tiago"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","full_name":"Barton, Nicholas H"},{"last_name":"Tkačik","orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper","first_name":"Gašper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"Published Version"},{"_id":"9715","department":[{"_id":"NiBa"}],"year":"2015","date_updated":"2025-09-23T09:21:54Z","title":"Mathematical inference of the results","day":"18","article_processing_charge":"No","type":"research_data_reference","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","month":"05","status":"public","citation":{"short":"B. Trubenova, S. Novak, R. Hager, (2015).","apa":"Trubenova, B., Novak, S., &#38; Hager, R. (2015). Mathematical inference of the results. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0126907.s001\">https://doi.org/10.1371/journal.pone.0126907.s001</a>","ama":"Trubenova B, Novak S, Hager R. Mathematical inference of the results. 2015. doi:<a href=\"https://doi.org/10.1371/journal.pone.0126907.s001\">10.1371/journal.pone.0126907.s001</a>","ieee":"B. Trubenova, S. Novak, and R. Hager, “Mathematical inference of the results.” Public Library of Science, 2015.","chicago":"Trubenova, Barbora, Sebastian Novak, and Reinmar Hager. “Mathematical Inference of the Results.” Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pone.0126907.s001\">https://doi.org/10.1371/journal.pone.0126907.s001</a>.","ista":"Trubenova B, Novak S, Hager R. 2015. Mathematical inference of the results, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pone.0126907.s001\">10.1371/journal.pone.0126907.s001</a>.","mla":"Trubenova, Barbora, et al. <i>Mathematical Inference of the Results</i>. Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pone.0126907.s001\">10.1371/journal.pone.0126907.s001</a>."},"related_material":{"record":[{"id":"1809","relation":"used_in_publication","status":"public"}]},"date_published":"2015-05-18T00:00:00Z","author":[{"id":"42302D54-F248-11E8-B48F-1D18A9856A87","first_name":"Barbora","last_name":"Trubenova","orcid":"0000-0002-6873-2967","full_name":"Trubenova, Barbora"},{"first_name":"Sebastian","id":"461468AE-F248-11E8-B48F-1D18A9856A87","full_name":"Novak, Sebastian","orcid":"0000-0002-2519-824X","last_name":"Novak"},{"last_name":"Hager","full_name":"Hager, Reinmar","first_name":"Reinmar"}],"oa_version":"Published Version","doi":"10.1371/journal.pone.0126907.s001","date_created":"2021-07-23T12:11:30Z","publisher":"Public Library of Science"},{"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"chicago":"Friedlander, Tamar, Avraham E. Mayo, Tsvi Tlusty, and Uri Alon. “Supporting Information Text.” Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pcbi.1004055.s001\">https://doi.org/10.1371/journal.pcbi.1004055.s001</a>.","ieee":"T. Friedlander, A. E. Mayo, T. Tlusty, and U. Alon, “Supporting information text.” Public Library of Science, 2015.","ista":"Friedlander T, Mayo AE, Tlusty T, Alon U. 2015. Supporting information text, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pcbi.1004055.s001\">10.1371/journal.pcbi.1004055.s001</a>.","mla":"Friedlander, Tamar, et al. <i>Supporting Information Text</i>. Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1004055.s001\">10.1371/journal.pcbi.1004055.s001</a>.","ama":"Friedlander T, Mayo AE, Tlusty T, Alon U. Supporting information text. 2015. doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1004055.s001\">10.1371/journal.pcbi.1004055.s001</a>","short":"T. Friedlander, A.E. Mayo, T. Tlusty, U. Alon, (2015).","apa":"Friedlander, T., Mayo, A. E., Tlusty, T., &#38; Alon, U. (2015). Supporting information text. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1004055.s001\">https://doi.org/10.1371/journal.pcbi.1004055.s001</a>"},"status":"public","month":"03","related_material":{"record":[{"id":"1827","relation":"used_in_publication","status":"public"}]},"date_published":"2015-03-23T00:00:00Z","oa_version":"Published Version","author":[{"first_name":"Tamar","id":"36A5845C-F248-11E8-B48F-1D18A9856A87","last_name":"Friedlander","full_name":"Friedlander, Tamar"},{"first_name":"Avraham E.","full_name":"Mayo, Avraham E.","last_name":"Mayo"},{"full_name":"Tlusty, Tsvi","last_name":"Tlusty","first_name":"Tsvi"},{"first_name":"Uri","last_name":"Alon","full_name":"Alon, Uri"}],"publisher":"Public Library of Science","doi":"10.1371/journal.pcbi.1004055.s001","date_created":"2021-07-26T08:35:23Z","_id":"9718","department":[{"_id":"GaTk"}],"date_updated":"2025-09-23T08:43:16Z","year":"2015","title":"Supporting information text","article_processing_charge":"No","day":"23","type":"research_data_reference"},{"day":"21","article_processing_charge":"No","title":"Data from: Adaptation to parasites and costs of parasite resistance in mutator and non-mutator bacteria","type":"research_data_reference","department":[{"_id":"CaGu"}],"_id":"9719","year":"2015","date_updated":"2026-04-29T05:57:01Z","abstract":[{"text":"Parasitism creates selection for resistance mechanisms in host populations and is hypothesized to promote increased host evolvability. However, the influence of these traits on host evolution when parasites are no longer present is unclear. We used experimental evolution and whole-genome sequencing of Escherichia coli to determine the effects of past and present exposure to parasitic viruses (phages) on the spread of mutator alleles, resistance, and bacterial competitive fitness. We found that mutator alleles spread rapidly during adaptation to any of four different phage species, and this pattern was even more pronounced with multiple phages present simultaneously. However, hypermutability did not detectably accelerate adaptation in the absence of phages and recovery of fitness costs associated with resistance. Several lineages evolved phage resistance through elevated mucoidy, and during subsequent evolution in phage-free conditions they rapidly reverted to nonmucoid, phage-susceptible phenotypes. Genome sequencing revealed that this phenotypic reversion was achieved by additional genetic changes rather than by genotypic reversion of the initial resistance mutations. Insertion sequence (IS) elements played a key role in both the acquisition of resistance and adaptation in the absence of parasites; unlike single nucleotide polymorphisms, IS insertions were not more frequent in mutator lineages. Our results provide a genetic explanation for rapid reversion of mucoidy, a phenotype observed in other bacterial species including human pathogens. Moreover, this demonstrates that the types of genetic change underlying adaptation to fitness costs, and consequently the impact of evolvability mechanisms such as increased point-mutation rates, depend critically on the mechanism of resistance.","lang":"eng"}],"doi":"10.5061/dryad.cj910","date_created":"2021-07-26T08:44:04Z","publisher":"Dryad","author":[{"full_name":"Wielgoss, Sébastien","last_name":"Wielgoss","first_name":"Sébastien"},{"first_name":"Tobias","id":"2C471CFA-F248-11E8-B48F-1D18A9856A87","last_name":"Bergmiller","orcid":"0000-0001-5396-4346","full_name":"Bergmiller, Tobias"},{"first_name":"Anna M.","full_name":"Bischofberger, Anna M.","last_name":"Bischofberger"},{"first_name":"Alex R.","full_name":"Hall, Alex R.","last_name":"Hall"}],"oa_version":"Published Version","month":"12","status":"public","oa":1,"citation":{"ama":"Wielgoss S, Bergmiller T, Bischofberger AM, Hall AR. Data from: Adaptation to parasites and costs of parasite resistance in mutator and non-mutator bacteria. 2015. doi:<a href=\"https://doi.org/10.5061/dryad.cj910\">10.5061/dryad.cj910</a>","short":"S. Wielgoss, T. Bergmiller, A.M. Bischofberger, A.R. Hall, (2015).","apa":"Wielgoss, S., Bergmiller, T., Bischofberger, A. M., &#38; Hall, A. R. (2015). Data from: Adaptation to parasites and costs of parasite resistance in mutator and non-mutator bacteria. Dryad. <a href=\"https://doi.org/10.5061/dryad.cj910\">https://doi.org/10.5061/dryad.cj910</a>","ieee":"S. Wielgoss, T. Bergmiller, A. M. Bischofberger, and A. R. Hall, “Data from: Adaptation to parasites and costs of parasite resistance in mutator and non-mutator bacteria.” Dryad, 2015.","chicago":"Wielgoss, Sébastien, Tobias Bergmiller, Anna M. Bischofberger, and Alex R. Hall. “Data from: Adaptation to Parasites and Costs of Parasite Resistance in Mutator and Non-Mutator Bacteria.” Dryad, 2015. <a href=\"https://doi.org/10.5061/dryad.cj910\">https://doi.org/10.5061/dryad.cj910</a>.","ista":"Wielgoss S, Bergmiller T, Bischofberger AM, Hall AR. 2015. Data from: Adaptation to parasites and costs of parasite resistance in mutator and non-mutator bacteria, Dryad, <a href=\"https://doi.org/10.5061/dryad.cj910\">10.5061/dryad.cj910</a>.","mla":"Wielgoss, Sébastien, et al. <i>Data from: Adaptation to Parasites and Costs of Parasite Resistance in Mutator and Non-Mutator Bacteria</i>. Dryad, 2015, doi:<a href=\"https://doi.org/10.5061/dryad.cj910\">10.5061/dryad.cj910</a>."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.cj910"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_published":"2015-12-21T00:00:00Z","related_material":{"record":[{"status":"public","id":"5749","relation":"used_in_publication"}]}},{"publisher":"Dryad","doi":"10.5061/dryad.dj2bf","date_created":"2021-07-26T09:38:36Z","oa_version":"Published Version","author":[{"full_name":"Theis, Fabian","last_name":"Theis","first_name":"Fabian"},{"full_name":"Ugelvig, Line V","last_name":"Ugelvig","orcid":"0000-0003-1832-8883","first_name":"Line V","id":"3DC97C8E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Carsten","full_name":"Marr, Carsten","last_name":"Marr"},{"full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","last_name":"Cremer","first_name":"Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2015-12-29T00:00:00Z","related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"1830"}]},"citation":{"chicago":"Theis, Fabian, Line V Ugelvig, Carsten Marr, and Sylvia Cremer. “Data from: Opposing Effects of Allogrooming on Disease Transmission in Ant Societies.” Dryad, 2015. <a href=\"https://doi.org/10.5061/dryad.dj2bf\">https://doi.org/10.5061/dryad.dj2bf</a>.","ieee":"F. Theis, L. V. Ugelvig, C. Marr, and S. Cremer, “Data from: Opposing effects of allogrooming on disease transmission in ant societies.” Dryad, 2015.","ista":"Theis F, Ugelvig LV, Marr C, Cremer S. 2015. Data from: Opposing effects of allogrooming on disease transmission in ant societies, Dryad, <a href=\"https://doi.org/10.5061/dryad.dj2bf\">10.5061/dryad.dj2bf</a>.","mla":"Theis, Fabian, et al. <i>Data from: Opposing Effects of Allogrooming on Disease Transmission in Ant Societies</i>. Dryad, 2015, doi:<a href=\"https://doi.org/10.5061/dryad.dj2bf\">10.5061/dryad.dj2bf</a>.","short":"F. Theis, L.V. Ugelvig, C. Marr, S. Cremer, (2015).","apa":"Theis, F., Ugelvig, L. V., Marr, C., &#38; Cremer, S. (2015). Data from: Opposing effects of allogrooming on disease transmission in ant societies. Dryad. <a href=\"https://doi.org/10.5061/dryad.dj2bf\">https://doi.org/10.5061/dryad.dj2bf</a>","ama":"Theis F, Ugelvig LV, Marr C, Cremer S. Data from: Opposing effects of allogrooming on disease transmission in ant societies. 2015. doi:<a href=\"https://doi.org/10.5061/dryad.dj2bf\">10.5061/dryad.dj2bf</a>"},"status":"public","oa":1,"month":"12","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.dj2bf"}],"type":"research_data_reference","day":"29","article_processing_charge":"No","title":"Data from: Opposing effects of allogrooming on disease transmission in ant societies","abstract":[{"lang":"eng","text":"To prevent epidemics, insect societies have evolved collective disease defences that are highly effective at curing exposed individuals and limiting disease transmission to healthy group members. Grooming is an important sanitary behaviour—either performed towards oneself (self-grooming) or towards others (allogrooming)—to remove infectious agents from the body surface of exposed individuals, but at the risk of disease contraction by the groomer. We use garden ants (Lasius neglectus) and the fungal pathogen Metarhizium as a model system to study how pathogen presence affects self-grooming and allogrooming between exposed and healthy individuals. We develop an epidemiological SIS model to explore how experimentally observed grooming patterns affect disease spread within the colony, thereby providing a direct link between the expression and direction of sanitary behaviours, and their effects on colony-level epidemiology. We find that fungus-exposed ants increase self-grooming, while simultaneously decreasing allogrooming. This behavioural modulation seems universally adaptive and is predicted to contain disease spread in a great variety of host–pathogen systems. In contrast, allogrooming directed towards pathogen-exposed individuals might both increase and decrease disease risk. Our model reveals that the effect of allogrooming depends on the balance between pathogen infectiousness and efficiency of social host defences, which are likely to vary across host–pathogen systems."}],"date_updated":"2025-09-23T09:44:52Z","year":"2015","department":[{"_id":"SyCr"}],"_id":"9721"},{"publisher":"Public Library of Science","doi":"10.1371/journal.pone.0127657.s001","date_created":"2021-07-28T06:20:13Z","oa_version":"Published Version","author":[{"full_name":"Symonova, Olga","orcid":"0000-0003-2012-9947","last_name":"Symonova","first_name":"Olga","id":"3C0C7BC6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Topp, Christopher","last_name":"Topp","first_name":"Christopher"},{"orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2015-06-01T00:00:00Z","related_material":{"record":[{"status":"public","id":"1793","relation":"used_in_publication"}]},"citation":{"apa":"Symonova, O., Topp, C., &#38; Edelsbrunner, H. (2015). Root traits computed by DynamicRoots for the maize root shown in fig 2. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0127657.s001\">https://doi.org/10.1371/journal.pone.0127657.s001</a>","ama":"Symonova O, Topp C, Edelsbrunner H. Root traits computed by DynamicRoots for the maize root shown in fig 2. 2015. doi:<a href=\"https://doi.org/10.1371/journal.pone.0127657.s001\">10.1371/journal.pone.0127657.s001</a>","short":"O. Symonova, C. Topp, H. Edelsbrunner, (2015).","ieee":"O. Symonova, C. Topp, and H. Edelsbrunner, “Root traits computed by DynamicRoots for the maize root shown in fig 2.” Public Library of Science, 2015.","chicago":"Symonova, Olga, Christopher Topp, and Herbert Edelsbrunner. “Root Traits Computed by DynamicRoots for the Maize Root Shown in Fig 2.” Public Library of Science, 2015. <a href=\"https://doi.org/10.1371/journal.pone.0127657.s001\">https://doi.org/10.1371/journal.pone.0127657.s001</a>.","ista":"Symonova O, Topp C, Edelsbrunner H. 2015. Root traits computed by DynamicRoots for the maize root shown in fig 2, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pone.0127657.s001\">10.1371/journal.pone.0127657.s001</a>.","mla":"Symonova, Olga, et al. <i>Root Traits Computed by DynamicRoots for the Maize Root Shown in Fig 2</i>. Public Library of Science, 2015, doi:<a href=\"https://doi.org/10.1371/journal.pone.0127657.s001\">10.1371/journal.pone.0127657.s001</a>."},"status":"public","month":"06","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","type":"research_data_reference","article_processing_charge":"No","day":"01","title":"Root traits computed by DynamicRoots for the maize root shown in fig 2","date_updated":"2025-09-23T08:30:43Z","year":"2015","department":[{"_id":"MaJö"},{"_id":"HeEd"}],"_id":"9737"},{"citation":{"ista":"Westhus C, Ugelvig LV, Tourdot E, Heinze J, Doums C, Cremer S. 2015. Data from: Increased grooming after repeated brood care provides sanitary benefits in a clonal ant, Dryad, <a href=\"https://doi.org/10.5061/dryad.7kc79\">10.5061/dryad.7kc79</a>.","mla":"Westhus, Claudia, et al. <i>Data from: Increased Grooming after Repeated Brood Care Provides Sanitary Benefits in a Clonal Ant</i>. Dryad, 2015, doi:<a href=\"https://doi.org/10.5061/dryad.7kc79\">10.5061/dryad.7kc79</a>.","ieee":"C. Westhus, L. V. Ugelvig, E. Tourdot, J. Heinze, C. Doums, and S. Cremer, “Data from: Increased grooming after repeated brood care provides sanitary benefits in a clonal ant.” Dryad, 2015.","chicago":"Westhus, Claudia, Line V Ugelvig, Edouard Tourdot, Jürgen Heinze, Claudie Doums, and Sylvia Cremer. “Data from: Increased Grooming after Repeated Brood Care Provides Sanitary Benefits in a Clonal Ant.” Dryad, 2015. <a href=\"https://doi.org/10.5061/dryad.7kc79\">https://doi.org/10.5061/dryad.7kc79</a>.","short":"C. Westhus, L.V. Ugelvig, E. Tourdot, J. Heinze, C. Doums, S. Cremer, (2015).","apa":"Westhus, C., Ugelvig, L. V., Tourdot, E., Heinze, J., Doums, C., &#38; Cremer, S. (2015). Data from: Increased grooming after repeated brood care provides sanitary benefits in a clonal ant. Dryad. <a href=\"https://doi.org/10.5061/dryad.7kc79\">https://doi.org/10.5061/dryad.7kc79</a>","ama":"Westhus C, Ugelvig LV, Tourdot E, Heinze J, Doums C, Cremer S. Data from: Increased grooming after repeated brood care provides sanitary benefits in a clonal ant. 2015. doi:<a href=\"https://doi.org/10.5061/dryad.7kc79\">10.5061/dryad.7kc79</a>"},"month":"07","oa":1,"status":"public","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.7kc79"}],"date_published":"2015-07-09T00:00:00Z","related_material":{"record":[{"id":"2161","relation":"used_in_publication","status":"public"}]},"publisher":"Dryad","doi":"10.5061/dryad.7kc79","date_created":"2021-07-28T08:52:53Z","oa_version":"Published Version","author":[{"full_name":"Westhus, Claudia","last_name":"Westhus","first_name":"Claudia"},{"last_name":"Ugelvig","orcid":"0000-0003-1832-8883","full_name":"Ugelvig, Line V","id":"3DC97C8E-F248-11E8-B48F-1D18A9856A87","first_name":"Line V"},{"first_name":"Edouard","last_name":"Tourdot","full_name":"Tourdot, Edouard"},{"full_name":"Heinze, Jürgen","last_name":"Heinze","first_name":"Jürgen"},{"last_name":"Doums","full_name":"Doums, Claudie","first_name":"Claudie"},{"id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","first_name":"Sylvia","full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","last_name":"Cremer"}],"department":[{"_id":"SyCr"}],"_id":"9742","abstract":[{"lang":"eng","text":"Repeated pathogen exposure is a common threat in colonies of social insects, posing selection pressures on colony members to respond with improved disease-defense performance. We here tested whether experience gained by repeated tending of low-level fungus-exposed (Metarhizium robertsii) larvae may alter the performance of sanitary brood care in the clonal ant, Platythyrea punctata. We trained ants individually over nine consecutive trials to either sham-treated or fungus-exposed larvae. We then compared the larval grooming behavior of naive and trained ants and measured how effectively they removed infectious fungal conidiospores from the fungus-exposed larvae. We found that the ants changed the duration of larval grooming in response to both, larval treatment and their level of experience: (1) sham-treated larvae received longer grooming than the fungus-exposed larvae and (2) trained ants performed less self-grooming but longer larval grooming than naive ants, which was true for both, ants trained to fungus-exposed and also to sham-treated larvae. Ants that groomed the fungus-exposed larvae for longer periods removed a higher number of fungal conidiospores from the surface of the fungus-exposed larvae. As experienced ants performed longer larval grooming, they were more effective in fungal removal, thus making them better caretakers under pathogen attack of the colony. By studying this clonal ant, we can thus conclude that even in the absence of genetic variation between colony members, differences in experience levels of brood care may affect performance of sanitary brood care in social insects."}],"date_updated":"2025-09-29T11:42:25Z","year":"2015","article_processing_charge":"No","day":"09","title":"Data from: Increased grooming after repeated brood care provides sanitary benefits in a clonal ant","type":"research_data_reference"}]