[{"title":"Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity, behaviour and reproduction","pubrep_id":"704","article_processing_charge":"No","publisher":"Royal Society","date_created":"2018-12-11T11:50:58Z","external_id":{"isi":["000377969500026"]},"file_date_updated":"2020-07-14T12:44:41Z","ddc":["576","592"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","issue":"4","date_updated":"2026-08-12T06:25:23Z","language":[{"iso":"eng"}],"article_number":"160138","status":"public","author":[{"first_name":"Robert","last_name":"Peuß","full_name":"Peuß, Robert"},{"last_name":"Wensing","full_name":"Wensing, Kristina","first_name":"Kristina"},{"first_name":"Luisa","full_name":"Woestmann, Luisa","last_name":"Woestmann"},{"full_name":"Eggert, Hendrik","last_name":"Eggert","first_name":"Hendrik"},{"first_name":"Barbara","full_name":"Milutinovic, Barbara","last_name":"Milutinovic","id":"2CDC32B8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8214-4758"},{"first_name":"Marlene","full_name":"Sroka, Marlene","last_name":"Sroka"},{"full_name":"Scharsack, Jörn","last_name":"Scharsack","first_name":"Jörn"},{"first_name":"Joachim","last_name":"Kurtz","full_name":"Kurtz, Joachim"},{"first_name":"Sophie","last_name":"Armitage","full_name":"Armitage, Sophie"}],"year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"volume":3,"quality_controlled":"1","acknowledgement":"We thank Dietmar Schmucker for reading a draft of this manuscript and thank him and his group for\r\nhelpful discussions. We thank Barbara Hasert, Kevin Ferro and Manuel F. Talarico for technical support and helpful\r\ndiscussions. We also thank two anonymous reviewers for their comments. This study was supported by grants from the Volkswagen Stiftung (1/83 516 and AZ 86020: both to S.A.O.A.) and from the DFG priority programme 1399 ‘Host parasite coevolution’ (KU 1929/4-2 to R.P. and J.K.).","abstract":[{"text":"Down syndrome cell adhesion molecule 1 (Dscam1) has widereaching and vital neuronal functions although the role it plays in insect and crustacean immunity is less well understood. In this study, we combine different approaches to understand the roles that Dscam1 plays in fitness-related contexts in two model insect species. Contrary to our expectations, we found no short-term modulation of Dscam1 gene expression after haemocoelic or oral bacterial exposure in Tribolium castaneum, or after haemocoelic bacterial exposure in Drosophila melanogaster. Furthermore, RNAi-mediated Dscam1 knockdown and subsequent bacterial exposure did not reduce T. castaneum survival. However, Dscam1 knockdown in larvae resulted in adult locomotion defects, as well as dramatically reduced fecundity in males and females. We suggest that Dscam1 does not always play a straightforward role in immunity, but strongly influences behaviour and fecundity. This study takes a step towards understanding more about the role of this intriguing gene from different phenotypic perspectives.","lang":"eng"}],"publist_id":"6070","publication":"Royal Society Open Science","_id":"1255","oa":1,"month":"04","day":"01","intvolume":"         3","publication_status":"published","fulldoi":"https://doi.org/10.1098/rsos.160138","type":"journal_article","date_published":"2016-04-01T00:00:00Z","department":[{"_id":"SyCr"}],"has_accepted_license":"1","file":[{"access_level":"open_access","creator":"system","date_created":"2018-12-12T10:14:01Z","file_size":627377,"content_type":"application/pdf","date_updated":"2020-07-14T12:44:41Z","relation":"main_file","file_id":"5049","checksum":"c3cd84666c8dc0ce6a784f1c82c1cf68","file_name":"IST-2016-704-v1+1_160138.full.pdf"}],"scopus_import":"1","citation":{"ista":"Peuß R, Wensing K, Woestmann L, Eggert H, Milutinovic B, Sroka M, Scharsack J, Kurtz J, Armitage S. 2016. Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity, behaviour and reproduction. Royal Society Open Science. 3(4), 160138.","short":"R. Peuß, K. Wensing, L. Woestmann, H. Eggert, B. Milutinovic, M. Sroka, J. Scharsack, J. Kurtz, S. Armitage, Royal Society Open Science 3 (2016).","mla":"Peuß, Robert, et al. “Down Syndrome Cell Adhesion Molecule 1: Testing for a Role in Insect Immunity, Behaviour and Reproduction.” <i>Royal Society Open Science</i>, vol. 3, no. 4, 160138, Royal Society, 2016, doi:<a href=\"https://doi.org/10.1098/rsos.160138\">10.1098/rsos.160138</a>.","chicago":"Peuß, Robert, Kristina Wensing, Luisa Woestmann, Hendrik Eggert, Barbara Milutinovic, Marlene Sroka, Jörn Scharsack, Joachim Kurtz, and Sophie Armitage. “Down Syndrome Cell Adhesion Molecule 1: Testing for a Role in Insect Immunity, Behaviour and Reproduction.” <i>Royal Society Open Science</i>. Royal Society, 2016. <a href=\"https://doi.org/10.1098/rsos.160138\">https://doi.org/10.1098/rsos.160138</a>.","ama":"Peuß R, Wensing K, Woestmann L, et al. Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity, behaviour and reproduction. <i>Royal Society Open Science</i>. 2016;3(4). doi:<a href=\"https://doi.org/10.1098/rsos.160138\">10.1098/rsos.160138</a>","ieee":"R. Peuß <i>et al.</i>, “Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity, behaviour and reproduction,” <i>Royal Society Open Science</i>, vol. 3, no. 4. Royal Society, 2016.","apa":"Peuß, R., Wensing, K., Woestmann, L., Eggert, H., Milutinovic, B., Sroka, M., … Armitage, S. (2016). Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity, behaviour and reproduction. <i>Royal Society Open Science</i>. Royal Society. <a href=\"https://doi.org/10.1098/rsos.160138\">https://doi.org/10.1098/rsos.160138</a>"},"doi":"10.1098/rsos.160138"},{"publisher":"Royal Society","date_created":"2018-12-11T11:51:57Z","pubrep_id":"589","title":"Coevolutionary interactions between farmers and mafia induce host acceptance of avian brood parasites","article_processing_charge":"No","file_date_updated":"2020-07-14T12:44:53Z","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["000"],"issue":"5","external_id":{"isi":["000377969800008"]},"article_number":"160036","date_updated":"2026-08-12T06:24:55Z","language":[{"iso":"eng"}],"isi":1,"volume":3,"status":"public","author":[{"first_name":"Maria","last_name":"Chakra","full_name":"Chakra, Maria"},{"orcid":"0000-0001-5116-955X","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","full_name":"Hilbe, Christian","last_name":"Hilbe","first_name":"Christian"},{"last_name":"Traulsen","full_name":"Traulsen, Arne","first_name":"Arne"}],"year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Brood parasites exploit their host in order to increase their own fitness. Typically, this results in an arms race between parasite trickery and host defence. Thus, it is puzzling to observe hosts that accept parasitism without any resistance. The ‘mafia’ hypothesis suggests that these hosts accept parasitism to avoid retaliation. Retaliation has been shown to evolve when the hosts condition their response to mafia parasites, who use depredation as a targeted response to rejection. However, it is unclear if acceptance would also emerge when ‘farming’ parasites are present in the population. Farming parasites use depredation to synchronize the timing with the host, destroying mature clutches to force the host to re-nest. Herein, we develop an evolutionary model to analyse the interaction between depredatory parasites and their hosts. We show that coevolutionary cycles between farmers and mafia can still induce host acceptance of brood parasites. However, this equilibrium is unstable and in the long-run the dynamics of this host–parasite interaction exhibits strong oscillations: when farmers are the majority, accepters conditional to mafia (the host will reject first and only accept after retaliation by the parasite) have a higher fitness than unconditional accepters (the host always accepts parasitism). This leads to an increase in mafia parasites’ fitness and in turn induce an optimal environment for accepter hosts.","lang":"eng"}],"publist_id":"5776","publication":"Royal Society Open Science","quality_controlled":"1","acknowledgement":"C.H. gratefully acknowledges funding by the Schrödinger scholarship of the Austrian Science Fund (FWF) J3475.","_id":"1426","oa":1,"month":"05","day":"01","intvolume":"         3","fulldoi":"https://doi.org/10.1098/rsos.160036","publication_status":"published","type":"journal_article","file":[{"date_updated":"2020-07-14T12:44:53Z","relation":"main_file","file_size":937002,"content_type":"application/pdf","access_level":"open_access","creator":"system","date_created":"2018-12-12T10:14:49Z","file_name":"IST-2016-589-v1+1_160036.full.pdf","checksum":"bf84211b31fe87451e738ba301d729c3","file_id":"5104"}],"has_accepted_license":"1","scopus_import":"1","doi":"10.1098/rsos.160036","citation":{"ama":"Chakra M, Hilbe C, Traulsen A. Coevolutionary interactions between farmers and mafia induce host acceptance of avian brood parasites. <i>Royal Society Open Science</i>. 2016;3(5). doi:<a href=\"https://doi.org/10.1098/rsos.160036\">10.1098/rsos.160036</a>","apa":"Chakra, M., Hilbe, C., &#38; Traulsen, A. (2016). Coevolutionary interactions between farmers and mafia induce host acceptance of avian brood parasites. <i>Royal Society Open Science</i>. Royal Society. <a href=\"https://doi.org/10.1098/rsos.160036\">https://doi.org/10.1098/rsos.160036</a>","ieee":"M. Chakra, C. Hilbe, and A. Traulsen, “Coevolutionary interactions between farmers and mafia induce host acceptance of avian brood parasites,” <i>Royal Society Open Science</i>, vol. 3, no. 5. Royal Society, 2016.","short":"M. Chakra, C. Hilbe, A. Traulsen, Royal Society Open Science 3 (2016).","ista":"Chakra M, Hilbe C, Traulsen A. 2016. Coevolutionary interactions between farmers and mafia induce host acceptance of avian brood parasites. Royal Society Open Science. 3(5), 160036.","chicago":"Chakra, Maria, Christian Hilbe, and Arne Traulsen. “Coevolutionary Interactions between Farmers and Mafia Induce Host Acceptance of Avian Brood Parasites.” <i>Royal Society Open Science</i>. Royal Society, 2016. <a href=\"https://doi.org/10.1098/rsos.160036\">https://doi.org/10.1098/rsos.160036</a>.","mla":"Chakra, Maria, et al. “Coevolutionary Interactions between Farmers and Mafia Induce Host Acceptance of Avian Brood Parasites.” <i>Royal Society Open Science</i>, vol. 3, no. 5, 160036, Royal Society, 2016, doi:<a href=\"https://doi.org/10.1098/rsos.160036\">10.1098/rsos.160036</a>."},"date_published":"2016-05-01T00:00:00Z","department":[{"_id":"KrCh"}]},{"oa_version":"Published Version","issue":"7","title":"Tree level hydrodynamic approach for resolving aboveground water storage and stomatal conductance and modeling the effects of tree hydraulic strategy","article_processing_charge":"No","publisher":"American Geophysical Union","date_created":"2026-07-27T12:30:25Z","OA_place":"publisher","status":"public","author":[{"first_name":"Golnazalsadat","full_name":"Mirfenderesgi, Golnazalsadat","last_name":"Mirfenderesgi"},{"last_name":"Bohrer","full_name":"Bohrer, Gil","first_name":"Gil"},{"first_name":"Ashley M.","full_name":"Matheny, Ashley M.","last_name":"Matheny"},{"first_name":"Simone","full_name":"Fatichi, Simone","last_name":"Fatichi","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"first_name":"Renato Prata","last_name":"de Moraes Frasson","full_name":"de Moraes Frasson, Renato Prata"},{"first_name":"Karina V. R.","full_name":"Schäfer, Karina V. R.","last_name":"Schäfer"}],"year":"2016","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":121,"date_updated":"2026-08-12T07:59:30Z","language":[{"iso":"eng"}],"das_tickbox":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/2016JG003467"}],"page":"1792-1813","OA_type":"free access","_id":"22580","extern":"1","oa":1,"month":"07","quality_controlled":"1","abstract":[{"lang":"eng","text":"The finite difference ecosystem-scale tree crown hydrodynamics model version 2 (FETCH2) is a tree-scale hydrodynamic model of transpiration. The FETCH2 model employs a finite difference numerical methodology and a simplified single-beam conduit system to explicitly resolve xylem water potentials throughout the vertical extent of a tree. Empirical equations relate water potential within the stem to stomatal conductance of the leaves at each height throughout the crown. While highly simplified, this approach brings additional realism to the simulation of transpiration by linking stomatal responses to stem water potential rather than directly to soil moisture, as is currently the case in the majority of land surface models. FETCH2 accounts for plant hydraulic traits, such as the degree of anisohydric/isohydric response of stomata, maximal xylem conductivity, vertical distribution of leaf area, and maximal and minimal xylem water content. We used FETCH2 along with sap flow and eddy covariance data sets collected from a mixed plot of two genera (oak/pine) in Silas Little Experimental Forest, NJ, USA, to conduct an analysis of the intergeneric variation of hydraulic strategies and their effects on diurnal and seasonal transpiration dynamics. We define these strategies through the parameters that describe the genus level transpiration and xylem conductivity responses to changes in stem water potential. Our evaluation revealed that FETCH2 considerably improved the simulation of ecosystem transpiration and latent heat flux in comparison to more conventional models. A virtual experiment showed that the model was able to capture the effect of hydraulic strategies such as isohydric/anisohydric behavior on stomatal conductance under different soil-water availability conditions."}],"publication":"Journal of Geophysical Research: Biogeosciences","date_published":"2016-07-01T00:00:00Z","article_type":"original","scopus_import":"1","doi":"10.1002/2016jg003467","publication_identifier":{"issn":["2169-8953"],"eissn":["2169-8961"]},"citation":{"ista":"Mirfenderesgi G, Bohrer G, Matheny AM, Fatichi S, de Moraes Frasson RP, Schäfer KVR. 2016. Tree level hydrodynamic approach for resolving aboveground water storage and stomatal conductance and modeling the effects of tree hydraulic strategy. Journal of Geophysical Research: Biogeosciences. 121(7), 1792–1813.","short":"G. Mirfenderesgi, G. Bohrer, A.M. Matheny, S. Fatichi, R.P. de Moraes Frasson, K.V.R. Schäfer, Journal of Geophysical Research: Biogeosciences 121 (2016) 1792–1813.","chicago":"Mirfenderesgi, Golnazalsadat, Gil Bohrer, Ashley M. Matheny, Simone Fatichi, Renato Prata de Moraes Frasson, and Karina V. R. Schäfer. “Tree Level Hydrodynamic Approach for Resolving Aboveground Water Storage and Stomatal Conductance and Modeling the Effects of Tree Hydraulic Strategy.” <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union, 2016. <a href=\"https://doi.org/10.1002/2016jg003467\">https://doi.org/10.1002/2016jg003467</a>.","mla":"Mirfenderesgi, Golnazalsadat, et al. “Tree Level Hydrodynamic Approach for Resolving Aboveground Water Storage and Stomatal Conductance and Modeling the Effects of Tree Hydraulic Strategy.” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 121, no. 7, American Geophysical Union, 2016, pp. 1792–813, doi:<a href=\"https://doi.org/10.1002/2016jg003467\">10.1002/2016jg003467</a>.","ama":"Mirfenderesgi G, Bohrer G, Matheny AM, Fatichi S, de Moraes Frasson RP, Schäfer KVR. Tree level hydrodynamic approach for resolving aboveground water storage and stomatal conductance and modeling the effects of tree hydraulic strategy. <i>Journal of Geophysical Research: Biogeosciences</i>. 2016;121(7):1792-1813. doi:<a href=\"https://doi.org/10.1002/2016jg003467\">10.1002/2016jg003467</a>","ieee":"G. Mirfenderesgi, G. Bohrer, A. M. Matheny, S. Fatichi, R. P. de Moraes Frasson, and K. V. R. Schäfer, “Tree level hydrodynamic approach for resolving aboveground water storage and stomatal conductance and modeling the effects of tree hydraulic strategy,” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 121, no. 7. American Geophysical Union, pp. 1792–1813, 2016.","apa":"Mirfenderesgi, G., Bohrer, G., Matheny, A. M., Fatichi, S., de Moraes Frasson, R. P., &#38; Schäfer, K. V. R. (2016). Tree level hydrodynamic approach for resolving aboveground water storage and stomatal conductance and modeling the effects of tree hydraulic strategy. <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2016jg003467\">https://doi.org/10.1002/2016jg003467</a>"},"day":"01","intvolume":"       121","fulldoi":"https://doi.org/10.1002/2016jg003467","publication_status":"published","type":"journal_article"},{"quality_controlled":"1","abstract":[{"text":"Accurate assessment of erosion rates remains an elusive problem because soil loss is strongly nonunique with respect to the main drivers. In addressing the mechanistic causes of erosion responses, we discriminate between macroscale effects of external factors—long studied and referred to as “geomorphic external variability”, and microscale effects, introduced as “geomorphic internal variability.” The latter source of erosion variations represents the knowledge gap, an overlooked but vital element of geomorphic response, significantly impacting the low predictability skill of deterministic models at field-catchment scales. This is corroborated with experiments using a comprehensive physical model that dynamically updates the soil mass and particle composition. As complete knowledge of microscale conditions for arbitrary location and time is infeasible, we propose that new predictive frameworks of soil erosion should embed stochastic components in deterministic assessments of external and internal types of geomorphic variability.","lang":"eng"}],"publication":"Geophysical Research Letters","OA_type":"free access","extern":"1","_id":"22578","month":"12","oa":1,"intvolume":"        43","day":"28","type":"journal_article","fulldoi":"https://doi.org/10.1002/2016gl071480","publication_status":"published","article_type":"letter_note","date_published":"2016-12-28T00:00:00Z","scopus_import":"1","citation":{"apa":"Kim, J., Ivanov, V. Y., &#38; Fatichi, S. (2016). Soil erosion assessment—Mind the gap. <i>Geophysical Research Letters</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2016gl071480\">https://doi.org/10.1002/2016gl071480</a>","ieee":"J. Kim, V. Y. Ivanov, and S. Fatichi, “Soil erosion assessment—Mind the gap,” <i>Geophysical Research Letters</i>, vol. 43, no. 24. American Geophysical Union, p. 12,446-12,456, 2016.","ama":"Kim J, Ivanov VY, Fatichi S. Soil erosion assessment—Mind the gap. <i>Geophysical Research Letters</i>. 2016;43(24):12,446-12,456. doi:<a href=\"https://doi.org/10.1002/2016gl071480\">10.1002/2016gl071480</a>","chicago":"Kim, Jongho, Valeriy Y. Ivanov, and Simone Fatichi. “Soil Erosion Assessment—Mind the Gap.” <i>Geophysical Research Letters</i>. American Geophysical Union, 2016. <a href=\"https://doi.org/10.1002/2016gl071480\">https://doi.org/10.1002/2016gl071480</a>.","mla":"Kim, Jongho, et al. “Soil Erosion Assessment—Mind the Gap.” <i>Geophysical Research Letters</i>, vol. 43, no. 24, American Geophysical Union, 2016, p. 12,446-12,456, doi:<a href=\"https://doi.org/10.1002/2016gl071480\">10.1002/2016gl071480</a>.","ista":"Kim J, Ivanov VY, Fatichi S. 2016. Soil erosion assessment—Mind the gap. Geophysical Research Letters. 43(24), 12,446-12,456.","short":"J. Kim, V.Y. Ivanov, S. Fatichi, Geophysical Research Letters 43 (2016) 12,446-12,456."},"publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"doi":"10.1002/2016gl071480","title":"Soil erosion assessment—Mind the gap","article_processing_charge":"No","publisher":"American Geophysical Union","OA_place":"publisher","date_created":"2026-07-27T12:30:25Z","issue":"24","oa_version":"Published Version","date_updated":"2026-08-12T07:55:14Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/2016GL071480"}],"das_tickbox":"1","language":[{"iso":"eng"}],"page":"12,446-12,456","author":[{"last_name":"Kim","full_name":"Kim, Jongho","first_name":"Jongho"},{"last_name":"Ivanov","full_name":"Ivanov, Valeriy Y.","first_name":"Valeriy Y."},{"first_name":"Simone","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","last_name":"Fatichi","full_name":"Fatichi, Simone"}],"status":"public","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2016","volume":43},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1607.04406"}],"language":[{"iso":"eng"}],"das_tickbox":"1","date_updated":"2026-08-12T09:26:37Z","article_number":"143507","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","author":[{"first_name":"Gerard","last_name":"Verbiest","full_name":"Verbiest, Gerard"},{"id":"3454D55E-F248-11E8-B48F-1D18A9856A87","full_name":"Xu, Duo","last_name":"Xu","first_name":"Duo"},{"first_name":"Matthias","full_name":"Goldsche, Matthias","last_name":"Goldsche"},{"full_name":"Khodkov, Timofiy","last_name":"Khodkov","first_name":"Timofiy"},{"id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","full_name":"Barzanjeh, Shabir","last_name":"Barzanjeh","first_name":"Shabir","orcid":"0000-0003-0415-1423"},{"full_name":"Von Den Driesch, Nils","last_name":"Von Den Driesch","first_name":"Nils"},{"last_name":"Buca","full_name":"Buca, Dan","first_name":"Dan"},{"full_name":"Stampfer, Christoph","last_name":"Stampfer","first_name":"Christoph"}],"status":"public","volume":109,"isi":1,"article_processing_charge":"No","title":"Tunable mechanical coupling between driven microelectromechanical resonators","date_created":"2018-12-11T11:51:28Z","publisher":"American Institute of Physics","external_id":{"isi":["000386152800065"],"arxiv":["1607.04406"]},"oa_version":"Preprint","arxiv":1,"type":"journal_article","fulldoi":"https://doi.org/10.1063/1.4964122","publication_status":"published","intvolume":"       109","day":"04","department":[{"_id":"JoFi"}],"date_published":"2016-10-04T00:00:00Z","doi":"10.1063/1.4964122","citation":{"ieee":"G. Verbiest <i>et al.</i>, “Tunable mechanical coupling between driven microelectromechanical resonators,” <i>Applied Physics Letters</i>, vol. 109. American Institute of Physics, 2016.","apa":"Verbiest, G., Xu, D., Goldsche, M., Khodkov, T., Barzanjeh, S., Von Den Driesch, N., … Stampfer, C. (2016). Tunable mechanical coupling between driven microelectromechanical resonators. <i>Applied Physics Letters</i>. American Institute of Physics. <a href=\"https://doi.org/10.1063/1.4964122\">https://doi.org/10.1063/1.4964122</a>","ama":"Verbiest G, Xu D, Goldsche M, et al. Tunable mechanical coupling between driven microelectromechanical resonators. <i>Applied Physics Letters</i>. 2016;109. doi:<a href=\"https://doi.org/10.1063/1.4964122\">10.1063/1.4964122</a>","mla":"Verbiest, Gerard, et al. “Tunable Mechanical Coupling between Driven Microelectromechanical Resonators.” <i>Applied Physics Letters</i>, vol. 109, 143507, American Institute of Physics, 2016, doi:<a href=\"https://doi.org/10.1063/1.4964122\">10.1063/1.4964122</a>.","chicago":"Verbiest, Gerard, Duo Xu, Matthias Goldsche, Timofiy Khodkov, Shabir Barzanjeh, Nils Von Den Driesch, Dan Buca, and Christoph Stampfer. “Tunable Mechanical Coupling between Driven Microelectromechanical Resonators.” <i>Applied Physics Letters</i>. American Institute of Physics, 2016. <a href=\"https://doi.org/10.1063/1.4964122\">https://doi.org/10.1063/1.4964122</a>.","short":"G. Verbiest, D. Xu, M. Goldsche, T. Khodkov, S. Barzanjeh, N. Von Den Driesch, D. Buca, C. Stampfer, Applied Physics Letters 109 (2016).","ista":"Verbiest G, Xu D, Goldsche M, Khodkov T, Barzanjeh S, Von Den Driesch N, Buca D, Stampfer C. 2016. Tunable mechanical coupling between driven microelectromechanical resonators. Applied Physics Letters. 109, 143507."},"scopus_import":"1","acknowledgement":"We acknowledge the support from the Helmholtz Nanoelectronic Facility (HNF) and funding from the ERC (GA-Nr. 280140).","quality_controlled":"1","publication":"Applied Physics Letters","publist_id":"5928","abstract":[{"text":"We present a microelectromechanical system, in which a silicon beam is attached to a comb-drive\r\nactuator, which is used to tune the tension in the silicon beam and thus its resonance frequency. By\r\nmeasuring the resonance frequencies of the system, we show that the comb-drive actuator and the\r\nsilicon beam behave as two strongly coupled resonators. Interestingly, the effective coupling rate\r\n(1.5 MHz) is tunable with the comb-drive actuator (10%) as well as with a side-gate (10%)\r\nplaced close to the silicon beam. In contrast, the effective spring constant of the system is insensitive\r\nto either of them and changes only by 60.5%. Finally, we show that the comb-drive actuator\r\ncan be used to switch between different coupling rates with a frequency of at least 10 kHz.\r\n","lang":"eng"}],"month":"10","oa":1,"_id":"1339"},{"publication":"Scientific Reports","abstract":[{"text":"Understanding soil erosion by water is essential for a range of research areas but the predictive skill of\r\nprognostic models has been repeatedly questioned because of scale limitations of empirical data and\r\nthe high variability of soil loss across space and time scales. Improved understanding of the underlying\r\nprocesses and their interactions are needed to infer scaling properties of soil loss and better inform\r\npredictive methods. This study uses data from multiple environments to highlight temporal-scale\r\ndependency of soil loss: erosion variability decreases at larger scales but the reduction rate varies with\r\nenvironment. The reduction of variability of the geomorphic response is attributed to a ‘compensation\r\neffect’: temporal alternation of events that exhibit either source-limited or transport-limited regimes.\r\nThe rate of reduction is related to environment stochasticity and a novel index is derived to reflect the\r\nlevel of variability of intra- and inter-event hydrometeorologic conditions. A higher stochasticity index\r\nimplies a larger reduction of soil loss variability (enhanced predictability at the aggregated temporal\r\nscales) with respect to the mean hydrologic forcing, offering a promising indicator for estimating the\r\ndegree of uncertainty of erosion assessments.","lang":"eng"}],"quality_controlled":"1","oa":1,"month":"03","_id":"22451","extern":"1","OA_type":"gold","publication_status":"published","fulldoi":"https://doi.org/10.1038/srep22065","type":"journal_article","day":"01","intvolume":"         6","doi":"10.1038/srep22065","citation":{"ama":"Kim J, Ivanov VY, Fatichi S. Environmental stochasticity controls soil erosion variability. <i>Scientific Reports</i>. 2016;6. doi:<a href=\"https://doi.org/10.1038/srep22065\">10.1038/srep22065</a>","ieee":"J. Kim, V. Y. Ivanov, and S. Fatichi, “Environmental stochasticity controls soil erosion variability,” <i>Scientific Reports</i>, vol. 6. Springer Nature, 2016.","apa":"Kim, J., Ivanov, V. Y., &#38; Fatichi, S. (2016). Environmental stochasticity controls soil erosion variability. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/srep22065\">https://doi.org/10.1038/srep22065</a>","short":"J. Kim, V.Y. Ivanov, S. Fatichi, Scientific Reports 6 (2016).","ista":"Kim J, Ivanov VY, Fatichi S. 2016. Environmental stochasticity controls soil erosion variability. Scientific Reports. 6, 22065.","mla":"Kim, Jongho, et al. “Environmental Stochasticity Controls Soil Erosion Variability.” <i>Scientific Reports</i>, vol. 6, 22065, Springer Nature, 2016, doi:<a href=\"https://doi.org/10.1038/srep22065\">10.1038/srep22065</a>.","chicago":"Kim, Jongho, Valeriy Y. Ivanov, and Simone Fatichi. “Environmental Stochasticity Controls Soil Erosion Variability.” <i>Scientific Reports</i>. Springer Nature, 2016. <a href=\"https://doi.org/10.1038/srep22065\">https://doi.org/10.1038/srep22065</a>."},"publication_identifier":{"eissn":["2045-2322"]},"scopus_import":"1","date_published":"2016-03-01T00:00:00Z","article_type":"original","date_created":"2026-07-27T12:30:23Z","pmid":1,"OA_place":"publisher","publisher":"Springer Nature","article_processing_charge":"No","title":"Environmental stochasticity controls soil erosion variability","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["26925542"]},"article_number":"22065","language":[{"iso":"eng"}],"das_tickbox":"1","main_file_link":[{"url":"https://doi.org/10.1038/srep22065","open_access":"1"}],"date_updated":"2026-08-12T13:18:29Z","volume":6,"DOAJ_listed":"1","year":"2016","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","author":[{"first_name":"Jongho","full_name":"Kim, Jongho","last_name":"Kim"},{"last_name":"Ivanov","full_name":"Ivanov, Valeriy Y.","first_name":"Valeriy Y."},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","full_name":"Fatichi, Simone","last_name":"Fatichi","first_name":"Simone"}]},{"oa_version":"Published Version","issue":"19","article_processing_charge":"No","title":"Modification of land-atmosphere interactions by CO2 effects: Implications for summer dryness and heat wave amplitude","date_created":"2026-07-27T12:30:23Z","OA_place":"publisher","publisher":"American Geophysical Union","year":"2016","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","author":[{"first_name":"Léo","last_name":"Lemordant","full_name":"Lemordant, Léo"},{"full_name":"Gentine, Pierre","last_name":"Gentine","first_name":"Pierre"},{"first_name":"Marc","full_name":"Stéfanon, Marc","last_name":"Stéfanon"},{"last_name":"Drobinski","full_name":"Drobinski, Philippe","first_name":"Philippe"},{"first_name":"Simone","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","full_name":"Fatichi, Simone","last_name":"Fatichi"}],"volume":43,"das_tickbox":"1","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1002/2016GL069896","open_access":"1"}],"date_updated":"2026-08-12T13:28:33Z","page":"10,240-10,248","OA_type":"free access","oa":1,"month":"10","_id":"22484","extern":"1","quality_controlled":"1","publication":"Geophysical Research Letters","abstract":[{"lang":"eng","text":"Plant stomata couple the energy, water, and carbon cycles. We use the framework of Regional Climate Modeling to simulate the 2003 European heat wave and assess how higher levels of surface CO2 may affect such an extreme event through land-atmosphere interactions. Increased CO2 modifies the seasonality of the water cycle through stomatal regulation and increased leaf area. As a result, the water saved during the growing season through higher water use efficiency mitigates summer dryness and the heat wave impact. Land-atmosphere interactions and CO2 fertilization together synergistically contribute to increased summer transpiration. This, in turn, alters the surface energy budget and decreases sensible heat flux, mitigating air temperature rise. Accurate representation of the response to higher CO2 levels and of the coupling between the carbon and water cycles is therefore critical to forecasting seasonal climate, water cycle dynamics, and to enhance the accuracy of extreme event prediction under future climate."}],"date_published":"2016-10-16T00:00:00Z","article_type":"letter_note","citation":{"mla":"Lemordant, Léo, et al. “Modification of Land-Atmosphere Interactions by CO2 Effects: Implications for Summer Dryness and Heat Wave Amplitude.” <i>Geophysical Research Letters</i>, vol. 43, no. 19, American Geophysical Union, 2016, p. 10,240-10,248, doi:<a href=\"https://doi.org/10.1002/2016gl069896\">10.1002/2016gl069896</a>.","chicago":"Lemordant, Léo, Pierre Gentine, Marc Stéfanon, Philippe Drobinski, and Simone Fatichi. “Modification of Land-Atmosphere Interactions by CO2 Effects: Implications for Summer Dryness and Heat Wave Amplitude.” <i>Geophysical Research Letters</i>. American Geophysical Union, 2016. <a href=\"https://doi.org/10.1002/2016gl069896\">https://doi.org/10.1002/2016gl069896</a>.","ista":"Lemordant L, Gentine P, Stéfanon M, Drobinski P, Fatichi S. 2016. Modification of land-atmosphere interactions by CO2 effects: Implications for summer dryness and heat wave amplitude. Geophysical Research Letters. 43(19), 10,240-10,248.","short":"L. Lemordant, P. Gentine, M. Stéfanon, P. Drobinski, S. Fatichi, Geophysical Research Letters 43 (2016) 10,240-10,248.","ieee":"L. Lemordant, P. Gentine, M. Stéfanon, P. Drobinski, and S. Fatichi, “Modification of land-atmosphere interactions by CO2 effects: Implications for summer dryness and heat wave amplitude,” <i>Geophysical Research Letters</i>, vol. 43, no. 19. American Geophysical Union, p. 10,240-10,248, 2016.","apa":"Lemordant, L., Gentine, P., Stéfanon, M., Drobinski, P., &#38; Fatichi, S. (2016). Modification of land-atmosphere interactions by CO2 effects: Implications for summer dryness and heat wave amplitude. <i>Geophysical Research Letters</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2016gl069896\">https://doi.org/10.1002/2016gl069896</a>","ama":"Lemordant L, Gentine P, Stéfanon M, Drobinski P, Fatichi S. Modification of land-atmosphere interactions by CO2 effects: Implications for summer dryness and heat wave amplitude. <i>Geophysical Research Letters</i>. 2016;43(19):10,240-10,248. doi:<a href=\"https://doi.org/10.1002/2016gl069896\">10.1002/2016gl069896</a>"},"doi":"10.1002/2016gl069896","publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"scopus_import":"1","publication_status":"published","fulldoi":"https://doi.org/10.1002/2016gl069896","type":"journal_article","day":"16","intvolume":"        43"},{"date_published":"2016-05-01T00:00:00Z","article_type":"original","scopus_import":"1","citation":{"chicago":"Fatichi, Simone, Christoforos Pappas, and Valeriy Y. Ivanov. “Modeling Plant–Water Interactions: An Ecohydrological Overview from the Cell to the Global Scale.” <i>WIREs Water</i>. Wiley, 2016. <a href=\"https://doi.org/10.1002/wat2.1125\">https://doi.org/10.1002/wat2.1125</a>.","mla":"Fatichi, Simone, et al. “Modeling Plant–Water Interactions: An Ecohydrological Overview from the Cell to the Global Scale.” <i>WIREs Water</i>, vol. 3, no. 3, Wiley, 2016, pp. 327–68, doi:<a href=\"https://doi.org/10.1002/wat2.1125\">10.1002/wat2.1125</a>.","short":"S. Fatichi, C. Pappas, V.Y. Ivanov, WIREs Water 3 (2016) 327–368.","ista":"Fatichi S, Pappas C, Ivanov VY. 2016. Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale. WIREs Water. 3(3), 327–368.","apa":"Fatichi, S., Pappas, C., &#38; Ivanov, V. Y. (2016). Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale. <i>WIREs Water</i>. Wiley. <a href=\"https://doi.org/10.1002/wat2.1125\">https://doi.org/10.1002/wat2.1125</a>","ieee":"S. Fatichi, C. Pappas, and V. Y. Ivanov, “Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale,” <i>WIREs Water</i>, vol. 3, no. 3. Wiley, pp. 327–368, 2016.","ama":"Fatichi S, Pappas C, Ivanov VY. Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale. <i>WIREs Water</i>. 2016;3(3):327-368. doi:<a href=\"https://doi.org/10.1002/wat2.1125\">10.1002/wat2.1125</a>"},"publication_identifier":{"eissn":["2049-1948"]},"doi":"10.1002/wat2.1125","day":"01","intvolume":"         3","publication_status":"published","fulldoi":"https://doi.org/10.1002/wat2.1125","type":"journal_article","OA_type":"closed access","extern":"1","_id":"22439","month":"05","quality_controlled":"1","abstract":[{"lang":"eng","text":"Vegetation and the water cycles are inherently coupled across a wide range ofspatial and temporal scales. Water availability interacts with plant ecophysiologyand controls vegetation functioning. Concurrently, vegetation has direct andindirect effects on energy, water, carbon, and nutrient cycles. To better under-stand and model plant–water interactions, highly interdisciplinary approachesare required. We present an overview of the main processes and relevant inter-actions between water and plants across a range of spatial scales, from the celllevel of leaves, where stomatal controls occur, to drought stress at the level of asingle tree, to the integrating scales of a watershed, region, and the globe.A review of process representations in models at different scales is presented.More specifically, three main model families are identified: (1) models of planthydraulics that mechanistically simulate stomatal controls and/or water transportat the tree level; (2) ecohydrological models that simulate plot- to catchment-scale water, energy, and carbon fluxes; and (3) terrestrial biosphere models thatsimulate carbon, water, and nutrient dynamics at the regional and global scalesand address feedback between Earth’s vegetation and the climate system. Weidentify special features and similarities across the model families. Examplesof where plant–water interactions are especially important and have led to keyscientific findings are also highlighted. Finally, we discuss the various datasources that are currently available to force and validate existing models, and wepresent perspectives on the evolution of the field."}],"publication":"WIREs Water","status":"public","author":[{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","full_name":"Fatichi, Simone","last_name":"Fatichi","first_name":"Simone"},{"first_name":"Christoforos","full_name":"Pappas, Christoforos","last_name":"Pappas"},{"last_name":"Ivanov","full_name":"Ivanov, Valeriy Y.","first_name":"Valeriy Y."}],"year":"2016","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","volume":3,"date_updated":"2026-08-12T13:32:20Z","das_tickbox":"1","language":[{"iso":"eng"}],"page":"327-368","oa_version":"None","issue":"3","title":"Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale","article_processing_charge":"No","publisher":"Wiley","date_created":"2026-07-27T12:30:23Z"},{"_id":"1486","month":"02","oa":1,"quality_controlled":"1","abstract":[{"lang":"eng","text":"We review recent results concerning the mathematical properties of the Bardeen-Cooper-Schrieffer (BCS) functional of superconductivity, which were obtained in a series of papers, partly in collaboration with R. Frank, E. Hamza, S. Naboko, and J. P. Solovej. Our discussion includes, in particular, an investigation of the critical temperature for a general class of interaction potentials, as well as a study of its dependence on external fields. We shall explain how the Ginzburg-Landau model can be derived from the BCS theory in a suitable parameter regime."}],"publication":"Journal of Mathematical Physics","publist_id":"5701","date_published":"2016-02-24T00:00:00Z","department":[{"_id":"RoSe"}],"scopus_import":"1","citation":{"ama":"Hainzl C, Seiringer R. The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical properties. <i>Journal of Mathematical Physics</i>. 2016;57(2). doi:<a href=\"https://doi.org/10.1063/1.4941723\">10.1063/1.4941723</a>","ieee":"C. Hainzl and R. Seiringer, “The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical properties,” <i>Journal of Mathematical Physics</i>, vol. 57, no. 2. AIP Publishing, 2016.","apa":"Hainzl, C., &#38; Seiringer, R. (2016). The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical properties. <i>Journal of Mathematical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/1.4941723\">https://doi.org/10.1063/1.4941723</a>","short":"C. Hainzl, R. Seiringer, Journal of Mathematical Physics 57 (2016).","ista":"Hainzl C, Seiringer R. 2016. The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical properties. Journal of Mathematical Physics. 57(2), 021101.","chicago":"Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer Functional of Superconductivity and Its Mathematical Properties.” <i>Journal of Mathematical Physics</i>. AIP Publishing, 2016. <a href=\"https://doi.org/10.1063/1.4941723\">https://doi.org/10.1063/1.4941723</a>.","mla":"Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer Functional of Superconductivity and Its Mathematical Properties.” <i>Journal of Mathematical Physics</i>, vol. 57, no. 2, 021101, AIP Publishing, 2016, doi:<a href=\"https://doi.org/10.1063/1.4941723\">10.1063/1.4941723</a>."},"doi":"10.1063/1.4941723","intvolume":"        57","day":"24","type":"journal_article","fulldoi":"https://doi.org/10.1063/1.4941723","publication_status":"published","external_id":{"isi":["000371620000001"],"arxiv":["1511.01995"]},"arxiv":1,"issue":"2","oa_version":"Preprint","title":"The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical properties","article_processing_charge":"No","publisher":"AIP Publishing","date_created":"2018-12-11T11:52:18Z","author":[{"first_name":"Christian","full_name":"Hainzl, Christian","last_name":"Hainzl"},{"orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","isi":1,"volume":57,"date_updated":"2026-08-12T13:59:20Z","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1511.01995"}],"language":[{"iso":"eng"}],"article_number":"021101"},{"ec_funded":1,"arxiv":1,"oa_version":"Preprint","issue":"3","external_id":{"arxiv":["1508.06169"],"isi":["000371724100008"]},"publisher":"American Physical Society","date_created":"2018-12-11T11:52:21Z","title":"Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential model","article_processing_charge":"No","isi":1,"volume":93,"status":"public","author":[{"first_name":"Pedro","last_name":"Amaro","full_name":"Amaro, Pedro"},{"full_name":"Fratini, Filippo","last_name":"Fratini","first_name":"Filippo"},{"full_name":"Safari, Laleh","last_name":"Safari","id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","first_name":"Laleh"},{"last_name":"Machado","full_name":"Machado, Jorge","first_name":"Jorge"},{"first_name":"Mauro","last_name":"Guerra","full_name":"Guerra, Mauro"},{"last_name":"Indelicato","full_name":"Indelicato, Paul","first_name":"Paul"},{"first_name":"José","last_name":"Santos","full_name":"Santos, José"}],"year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_number":"032502","date_updated":"2026-08-12T14:21:10Z","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1508.06169"}],"_id":"1496","oa":1,"month":"03","abstract":[{"text":"The two-photon 1s2 2s 2p 3P0 1s22s2 1S0 transition in berylliumlike ions is theoretically investigated within a fully relativistic framework and a second-order perturbation theory. We focus our analysis on how electron correlation, as well as the negative-energy spectrum, can affect the forbidden E1M1 decay rate. For this purpose, we include the electronic correlation via an effective local potential and within a single configuration-state model. Due to its experimental interest, evaluations of decay rates are performed for berylliumlike xenon and uranium. We find that the negative-energy contribution can be neglected at the present level of accuracy in the evaluation of the decay rate. On the other hand, if contributions of electronic correlation are not carefully taken into account, it may change the lifetime of the metastable state by up to 20%. By performing a full-relativistic jj-coupling calculation, we found a decrease of the decay rate by two orders of magnitude compared to non-relativistic LS-coupling calculations, for the selected heavy ions.","lang":"eng"}],"publist_id":"5683","publication":"Physical Review A","quality_controlled":"1","acknowledgement":"This  research  was  supported  in  part  by  FCT, Portugal, through Project No. PTDC/FIS/117606/2010, financed by the European Community  Fund  FEDER  through  the  COMPETE. ","scopus_import":"1","citation":{"ama":"Amaro P, Fratini F, Safari L, et al. Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential model. <i>Physical Review A</i>. 2016;93(3). doi:<a href=\"https://doi.org/10.1103/PhysRevA.93.032502\">10.1103/PhysRevA.93.032502</a>","apa":"Amaro, P., Fratini, F., Safari, L., Machado, J., Guerra, M., Indelicato, P., &#38; Santos, J. (2016). Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential model. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.93.032502\">https://doi.org/10.1103/PhysRevA.93.032502</a>","ieee":"P. Amaro <i>et al.</i>, “Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential model,” <i>Physical Review A</i>, vol. 93, no. 3. American Physical Society, 2016.","short":"P. Amaro, F. Fratini, L. Safari, J. Machado, M. Guerra, P. Indelicato, J. Santos, Physical Review A 93 (2016).","ista":"Amaro P, Fratini F, Safari L, Machado J, Guerra M, Indelicato P, Santos J. 2016. Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential model. Physical Review A. 93(3), 032502.","mla":"Amaro, Pedro, et al. “Relativistic Evaluation of the Two-Photon Decay of the Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential Model.” <i>Physical Review A</i>, vol. 93, no. 3, 032502, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevA.93.032502\">10.1103/PhysRevA.93.032502</a>.","chicago":"Amaro, Pedro, Filippo Fratini, Laleh Safari, Jorge Machado, Mauro Guerra, Paul Indelicato, and José Santos. “Relativistic Evaluation of the Two-Photon Decay of the Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential Model.” <i>Physical Review A</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevA.93.032502\">https://doi.org/10.1103/PhysRevA.93.032502</a>."},"doi":"10.1103/PhysRevA.93.032502","date_published":"2016-03-07T00:00:00Z","department":[{"_id":"MiLe"}],"project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","grant_number":"291734"}],"day":"07","intvolume":"        93","fulldoi":"https://doi.org/10.1103/PhysRevA.93.032502","publication_status":"published","type":"journal_article"},{"publication_status":"published","fulldoi":"https://doi.org/10.1103/PhysRevA.94.041601","type":"journal_article","day":"13","intvolume":"        94","project":[{"call_identifier":"FP7","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme"}],"department":[{"_id":"MiLe"}],"date_published":"2016-10-13T00:00:00Z","doi":"10.1103/PhysRevA.94.041601","citation":{"ama":"Midya B, Tomza M, Schmidt R, Lemeshko M. Rotation of cold molecular ions inside a Bose-Einstein condensate. <i>Physical Review A</i>. 2016;94(4). doi:<a href=\"https://doi.org/10.1103/PhysRevA.94.041601\">10.1103/PhysRevA.94.041601</a>","ieee":"B. Midya, M. Tomza, R. Schmidt, and M. Lemeshko, “Rotation of cold molecular ions inside a Bose-Einstein condensate,” <i>Physical Review A</i>, vol. 94, no. 4. American Physical Society, 2016.","apa":"Midya, B., Tomza, M., Schmidt, R., &#38; Lemeshko, M. (2016). Rotation of cold molecular ions inside a Bose-Einstein condensate. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.94.041601\">https://doi.org/10.1103/PhysRevA.94.041601</a>","short":"B. Midya, M. Tomza, R. Schmidt, M. Lemeshko, Physical Review A 94 (2016).","ista":"Midya B, Tomza M, Schmidt R, Lemeshko M. 2016. Rotation of cold molecular ions inside a Bose-Einstein condensate. Physical Review A. 94(4), 041601.","chicago":"Midya, Bikashkali, Michał Tomza, Richard Schmidt, and Mikhail Lemeshko. “Rotation of Cold Molecular Ions inside a Bose-Einstein Condensate.” <i>Physical Review A</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevA.94.041601\">https://doi.org/10.1103/PhysRevA.94.041601</a>.","mla":"Midya, Bikashkali, et al. “Rotation of Cold Molecular Ions inside a Bose-Einstein Condensate.” <i>Physical Review A</i>, vol. 94, no. 4, 041601, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevA.94.041601\">10.1103/PhysRevA.94.041601</a>."},"scopus_import":"1","acknowledgement":"The work was supported by the NSF through a grant for the Institute for Theoretical Atomic, Molecular, and Optical Physics at Harvard University and the Smithsonian Astrophysical Observatory. B.M. acknowledges financial support received from the People Programme (Marie Curie Actions) of the European Union's Seventh Framework Programme (FP7/2007-2013) under REA grant agreement No. 291734. M.T. acknowledges support from the EU Marie Curie COFUND action (ICFOnest), the EU Grants ERC AdG OSYRIS, FP7 SIQS and EQuaM, FETPROACT QUIC, the Spanish Ministry Grants FOQUS (FIS2013-46768-P) and Severo Ochoa (SEV-2015-0522), Generalitat de Catalunya (SGR 874), Fundacio Cellex, the National Science Centre (2015/19/D/ST4/02173), and the PL-Grid Infrastructure.","quality_controlled":"1","publist_id":"6030","publication":"Physical Review A","abstract":[{"text":"We use recently developed angulon theory [R. Schmidt and M. Lemeshko, Phys. Rev. Lett. 114, 203001 (2015)PRLTAO0031-900710.1103/PhysRevLett.114.203001] to study the rotational spectrum of a cyanide molecular anion immersed into Bose-Einstein condensates of rubidium and strontium. Based on ab initio potential energy surfaces, we provide a detailed study of the rotational Lamb shift and many-body-induced fine structure which arise due to dressing of molecular rotation by a field of phonon excitations. We demonstrate that the magnitude of these effects is large enough in order to be observed in modern experiments on cold molecular ions. Furthermore, we introduce a novel method to construct pseudopotentials starting from the ab initio potential energy surfaces, which provides a means to obtain effective coupling constants for low-energy polaron models.","lang":"eng"}],"oa":1,"month":"10","_id":"1286","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1607.06092","open_access":"1"}],"date_updated":"2026-08-12T14:21:54Z","article_number":"041601","year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","corr_author":"1","author":[{"full_name":"Midya, Bikashkali","last_name":"Midya","id":"456187FC-F248-11E8-B48F-1D18A9856A87","first_name":"Bikashkali"},{"first_name":"Michał","last_name":"Tomza","full_name":"Tomza, Michał"},{"full_name":"Schmidt, Richard","last_name":"Schmidt","first_name":"Richard"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","first_name":"Mikhail"}],"volume":94,"isi":1,"article_processing_charge":"No","title":"Rotation of cold molecular ions inside a Bose-Einstein condensate","date_created":"2018-12-11T11:51:09Z","publisher":"American Physical Society","external_id":{"isi":["000385618500001"],"arxiv":["1607.06092"]},"oa_version":"Preprint","issue":"4","ec_funded":1,"arxiv":1},{"author":[{"orcid":"0000-0002-1629-3675","id":"46C405DE-F248-11E8-B48F-1D18A9856A87","full_name":"Kaczmarczyk, Jan","last_name":"Kaczmarczyk","first_name":"Jan"},{"first_name":"Tobias","full_name":"Schickling, Tobias","last_name":"Schickling"},{"last_name":"Bünemann","full_name":"Bünemann, Jörg","first_name":"Jörg"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","isi":1,"volume":94,"date_updated":"2026-08-12T14:23:24Z","main_file_link":[{"url":"http://arxiv.org/abs/1512.06688","open_access":"1"}],"language":[{"iso":"eng"}],"article_number":"085152","external_id":{"arxiv":["1512.06688"],"isi":["000382127700005"]},"arxiv":1,"ec_funded":1,"issue":"8","oa_version":"Preprint","title":"Coexistence of nematic order and superconductivity in the Hubbard model","article_processing_charge":"No","publisher":"American Physical Society","date_created":"2018-12-11T11:51:32Z","date_published":"2016-08-30T00:00:00Z","department":[{"_id":"MiLe"}],"scopus_import":"1","citation":{"ama":"Kaczmarczyk J, Schickling T, Bünemann J. Coexistence of nematic order and superconductivity in the Hubbard model. <i>Physical Review B</i>. 2016;94(8). doi:<a href=\"https://doi.org/10.1103/PhysRevB.94.085152\">10.1103/PhysRevB.94.085152</a>","apa":"Kaczmarczyk, J., Schickling, T., &#38; Bünemann, J. (2016). Coexistence of nematic order and superconductivity in the Hubbard model. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.94.085152\">https://doi.org/10.1103/PhysRevB.94.085152</a>","ieee":"J. Kaczmarczyk, T. Schickling, and J. Bünemann, “Coexistence of nematic order and superconductivity in the Hubbard model,” <i>Physical Review B</i>, vol. 94, no. 8. American Physical Society, 2016.","short":"J. Kaczmarczyk, T. Schickling, J. Bünemann, Physical Review B 94 (2016).","ista":"Kaczmarczyk J, Schickling T, Bünemann J. 2016. Coexistence of nematic order and superconductivity in the Hubbard model. Physical Review B. 94(8), 085152.","chicago":"Kaczmarczyk, Jan, Tobias Schickling, and Jörg Bünemann. “Coexistence of Nematic Order and Superconductivity in the Hubbard Model.” <i>Physical Review B</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevB.94.085152\">https://doi.org/10.1103/PhysRevB.94.085152</a>.","mla":"Kaczmarczyk, Jan, et al. “Coexistence of Nematic Order and Superconductivity in the Hubbard Model.” <i>Physical Review B</i>, vol. 94, no. 8, 085152, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevB.94.085152\">10.1103/PhysRevB.94.085152</a>."},"doi":"10.1103/PhysRevB.94.085152","intvolume":"        94","day":"30","type":"journal_article","fulldoi":"https://doi.org/10.1103/PhysRevB.94.085152","publication_status":"published","project":[{"grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"_id":"1352","month":"08","oa":1,"quality_controlled":"1","acknowledgement":"The authors are grateful to Florian Gebhard and Mikhail Lemeshko for discussions and critical reading of the manuscript. The work was supported by the Ministry of Science and Higher Education in Poland through the Iuventus Plus Grant No. IP2012 017172, as well as by the People Programme (Marie Curie Actions) of the European Union's Seventh Framework Programme (FP7/2007-2013) under REA Grant Agreement No. 291734. J.K. acknowledges hospitality of the Leibniz Universität in Hannover where a large part of the work was performed.","abstract":[{"lang":"eng","text":"We study the interplay of nematic and superconducting order in the two-dimensional Hubbard model and show that they can coexist, especially when superconductivity is not the energetically dominant phase. Due to a breaking of the C4 symmetry, the coexisting phase inherently contains admixture of the s-wave pairing components. As a result, the superconducting gap exhibits nonstandard features including changed nodal directions. Our results also show that in the optimally doped regime the pure superconducting phase is typically unstable towards developing nematicity (breaking of the C4 symmetry). This has implications for the cuprate high-Tc superconductors, for which in this regime the so-called intertwined orders have recently been observed. Namely, the coexisting phase may be viewed as a precursor to such more involved patterns of symmetry breaking."}],"publication":"Physical Review B","publist_id":"5897"},{"intvolume":"        94","day":"01","type":"journal_article","publication_status":"published","fulldoi":"https://doi.org/10.1103/PhysRevB.94.024517","project":[{"name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7"}],"date_published":"2016-07-01T00:00:00Z","department":[{"_id":"MiLe"}],"scopus_import":"1","doi":"10.1103/PhysRevB.94.024517","citation":{"chicago":"Wysokiński, Marcin, Jan Kaczmarczyk, and Jozef Spałek. “Correlation Driven d Wave Superconductivity in Anderson Lattice Model: Two Gaps.” <i>Physical Review B</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevB.94.024517\">https://doi.org/10.1103/PhysRevB.94.024517</a>.","mla":"Wysokiński, Marcin, et al. “Correlation Driven d Wave Superconductivity in Anderson Lattice Model: Two Gaps.” <i>Physical Review B</i>, vol. 94, no. 2, 024517, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevB.94.024517\">10.1103/PhysRevB.94.024517</a>.","ista":"Wysokiński M, Kaczmarczyk J, Spałek J. 2016. Correlation driven d wave superconductivity in Anderson lattice model: Two gaps. Physical Review B. 94(2), 024517.","short":"M. Wysokiński, J. Kaczmarczyk, J. Spałek, Physical Review B 94 (2016).","apa":"Wysokiński, M., Kaczmarczyk, J., &#38; Spałek, J. (2016). Correlation driven d wave superconductivity in Anderson lattice model: Two gaps. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.94.024517\">https://doi.org/10.1103/PhysRevB.94.024517</a>","ieee":"M. Wysokiński, J. Kaczmarczyk, and J. Spałek, “Correlation driven d wave superconductivity in Anderson lattice model: Two gaps,” <i>Physical Review B</i>, vol. 94, no. 2. American Physical Society, 2016.","ama":"Wysokiński M, Kaczmarczyk J, Spałek J. Correlation driven d wave superconductivity in Anderson lattice model: Two gaps. <i>Physical Review B</i>. 2016;94(2). doi:<a href=\"https://doi.org/10.1103/PhysRevB.94.024517\">10.1103/PhysRevB.94.024517</a>"},"quality_controlled":"1","acknowledgement":"The  work  has  been  supported  by  the  National Science  Center  (NCN)  under  the  Grant  MAESTRO,  No.\r\nDEC-2012/04/A/ST3/00342. ","abstract":[{"text":"Superconductivity in heavy-fermion systems has an unconventional nature and is considered to originate from the universal features of the electronic structure. Here, the Anderson lattice model is studied by means of the full variational Gutzwiller wave function incorporating nonlocal effects of the on-site interaction. We show that the d-wave superconducting ground state can be driven solely by interelectronic correlations. The proposed microscopic mechanism leads to a multigap superconductivity with the dominant contribution due to f electrons and in the dx2−y2-wave channel. Our results rationalize several important observations for CeCoIn5.","lang":"eng"}],"publication":"Physical Review B","publist_id":"5844","_id":"1368","month":"07","oa":1,"date_updated":"2026-08-12T14:22:55Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1510.00224"}],"language":[{"iso":"eng"}],"article_number":"024517","author":[{"first_name":"Marcin","full_name":"Wysokiński, Marcin","last_name":"Wysokiński"},{"orcid":"0000-0002-1629-3675","full_name":"Kaczmarczyk, Jan","last_name":"Kaczmarczyk","id":"46C405DE-F248-11E8-B48F-1D18A9856A87","first_name":"Jan"},{"first_name":"Jozef","full_name":"Spałek, Jozef","last_name":"Spałek"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","isi":1,"volume":94,"title":"Correlation driven d wave superconductivity in Anderson lattice model: Two gaps","article_processing_charge":"No","publisher":"American Physical Society","date_created":"2018-12-11T11:51:37Z","external_id":{"isi":["000380098600005"],"arxiv":["1510.00224"]},"arxiv":1,"ec_funded":1,"issue":"2","oa_version":"Preprint"},{"type":"journal_article","fulldoi":"https://doi.org/10.1103/PhysRevB.93.195145","publication_status":"published","intvolume":"        93","day":"15","citation":{"ama":"Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. Interaction-driven Lifshitz transition with dipolar fermions in optical lattices. <i>Physical Review B</i>. 2016;93(19). doi:<a href=\"https://doi.org/10.1103/PhysRevB.93.195145\">10.1103/PhysRevB.93.195145</a>","apa":"Van Loon, E., Katsnelson, M., Chomaz, L., &#38; Lemeshko, M. (2016). Interaction-driven Lifshitz transition with dipolar fermions in optical lattices. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.93.195145\">https://doi.org/10.1103/PhysRevB.93.195145</a>","ieee":"E. Van Loon, M. Katsnelson, L. Chomaz, and M. Lemeshko, “Interaction-driven Lifshitz transition with dipolar fermions in optical lattices,” <i>Physical Review B</i>, vol. 93, no. 19. American Physical Society, 2016.","short":"E. Van Loon, M. Katsnelson, L. Chomaz, M. Lemeshko, Physical Review B 93 (2016).","ista":"Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. 2016. Interaction-driven Lifshitz transition with dipolar fermions in optical lattices. Physical Review B. 93(19), 195145.","chicago":"Van Loon, Erik, Mikhail Katsnelson, Lauriane Chomaz, and Mikhail Lemeshko. “Interaction-Driven Lifshitz Transition with Dipolar Fermions in Optical Lattices.” <i>Physical Review B</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevB.93.195145\">https://doi.org/10.1103/PhysRevB.93.195145</a>.","mla":"Van Loon, Erik, et al. “Interaction-Driven Lifshitz Transition with Dipolar Fermions in Optical Lattices.” <i>Physical Review B</i>, vol. 93, no. 19, 195145, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevB.93.195145\">10.1103/PhysRevB.93.195145</a>."},"doi":"10.1103/PhysRevB.93.195145","scopus_import":"1","department":[{"_id":"MiLe"}],"date_published":"2016-05-15T00:00:00Z","publication":"Physical Review B","publist_id":"5791","abstract":[{"lang":"eng","text":"Anisotropic dipole-dipole interactions between ultracold dipolar fermions break the symmetry of the Fermi surface and thereby deform it. Here we demonstrate that such a Fermi surface deformation induces a topological phase transition - the so-called Lifshitz transition - in the regime accessible to present-day experiments. We describe the impact of the Lifshitz transition on observable quantities such as the Fermi surface topology, the density-density correlation function, and the excitation spectrum of the system. The Lifshitz transition in ultracold atoms can be controlled by tuning the dipole orientation and, in contrast to the transition studied in crystalline solids, is completely interaction driven."}],"quality_controlled":"1","month":"05","oa":1,"_id":"1416","article_number":"195145","main_file_link":[{"url":"http://arxiv.org/abs/1603.09358","open_access":"1"}],"language":[{"iso":"eng"}],"date_updated":"2026-08-12T14:22:37Z","volume":93,"isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","author":[{"first_name":"Erik","last_name":"Van Loon","full_name":"Van Loon, Erik"},{"first_name":"Mikhail","last_name":"Katsnelson","full_name":"Katsnelson, Mikhail"},{"first_name":"Lauriane","full_name":"Chomaz, Lauriane","last_name":"Chomaz"},{"orcid":"0000-0002-6990-7802","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko"}],"corr_author":"1","status":"public","date_created":"2018-12-11T11:51:54Z","publisher":"American Physical Society","article_processing_charge":"No","title":"Interaction-driven Lifshitz transition with dipolar fermions in optical lattices","issue":"19","oa_version":"Preprint","arxiv":1,"external_id":{"arxiv":["1603.09358"],"isi":["000376636900002"]}},{"acknowledgement":"The work of S.B. has been supported by the European Commission (Belgium) via the SCALEQIT program and by the Alexander von Humboldt Foundation.  ","quality_controlled":"1","publist_id":"5841","publication":"Physical Review A","abstract":[{"lang":"eng","text":"We study coherent phonon oscillations and tunneling between two coupled nonlinear nanomechanical resonators. We show that the coupling between two nanomechanical resonators creates an effective phonon Josephson junction, which exhibits two different dynamical behaviors: Josephson oscillation (phonon-Rabi oscillation) and macroscopic self-trapping (phonon blockade). Self-trapping originates from mechanical nonlinearities, meaning that when the nonlinearity exceeds its critical value, the energy exchange between the two resonators is suppressed, and phonon Josephson oscillations between them are completely blocked. An effective classical Hamiltonian for the phonon Josephson junction is derived and its mean-field dynamics is studied in phase space. Finally, we study the phonon-phonon coherence quantified by the mean fringe visibility, and show that the interaction between the two resonators may lead to the loss of coherence in the phononic junction."}],"oa":1,"month":"03","_id":"1370","fulldoi":"https://doi.org/10.1103/PhysRevA.93.033846","publication_status":"published","type":"journal_article","day":"28","intvolume":"        93","department":[{"_id":"JoFi"}],"date_published":"2016-03-28T00:00:00Z","doi":"10.1103/PhysRevA.93.033846","citation":{"chicago":"Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical Resonators.” <i>Physical Review A</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevA.93.033846\">https://doi.org/10.1103/PhysRevA.93.033846</a>.","mla":"Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical Resonators.” <i>Physical Review A</i>, vol. 93, no. 3, 033846, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevA.93.033846\">10.1103/PhysRevA.93.033846</a>.","ista":"Barzanjeh S, Vitali D. 2016. Phonon Josephson junction with nanomechanical resonators. Physical Review A. 93(3), 033846.","short":"S. Barzanjeh, D. Vitali, Physical Review A 93 (2016).","ieee":"S. Barzanjeh and D. Vitali, “Phonon Josephson junction with nanomechanical resonators,” <i>Physical Review A</i>, vol. 93, no. 3. American Physical Society, 2016.","apa":"Barzanjeh, S., &#38; Vitali, D. (2016). Phonon Josephson junction with nanomechanical resonators. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.93.033846\">https://doi.org/10.1103/PhysRevA.93.033846</a>","ama":"Barzanjeh S, Vitali D. Phonon Josephson junction with nanomechanical resonators. <i>Physical Review A</i>. 2016;93(3). doi:<a href=\"https://doi.org/10.1103/PhysRevA.93.033846\">10.1103/PhysRevA.93.033846</a>"},"scopus_import":"1","article_processing_charge":"No","title":"Phonon Josephson junction with nanomechanical resonators","date_created":"2018-12-11T11:51:38Z","publisher":"American Physical Society","external_id":{"arxiv":["1601.01818"],"isi":["000372797700010"]},"oa_version":"Preprint","issue":"3","arxiv":1,"language":[{"iso":"eng"}],"main_file_link":[{"url":"http://arxiv.org/abs/1601.01818","open_access":"1"}],"date_updated":"2026-08-12T14:21:27Z","article_number":"033846","year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","author":[{"first_name":"Shabir","id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","last_name":"Barzanjeh","full_name":"Barzanjeh, Shabir","orcid":"0000-0003-0415-1423"},{"first_name":"David","full_name":"Vitali, David","last_name":"Vitali"}],"volume":93,"isi":1},{"article_number":"022404","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1507.02562"}],"language":[{"iso":"eng"}],"date_updated":"2026-08-12T14:28:33Z","volume":93,"isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","author":[{"id":"3E999752-F248-11E8-B48F-1D18A9856A87","last_name":"Sokolowski","full_name":"Sokolowski, Thomas R","first_name":"Thomas R","orcid":"0000-0002-1287-3779"},{"first_name":"Aleksandra","full_name":"Walczak, Aleksandra","last_name":"Walczak"},{"last_name":"Bialek","full_name":"Bialek, William","first_name":"William"},{"first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkacik, Gasper","last_name":"Tkacik","orcid":"0000-0002-6699-1455"}],"status":"public","date_created":"2018-12-11T11:50:54Z","publisher":"American Physical Society","article_processing_charge":"No","title":"Extending the dynamic range of transcription factor action by translational regulation","issue":"2","oa_version":"Preprint","arxiv":1,"external_id":{"arxiv":["1507.02562"],"isi":["000369439100005"]},"project":[{"name":"Biophysics of information processing in gene regulation","_id":"254E9036-B435-11E9-9278-68D0E5697425","grant_number":"P28844-B27","call_identifier":"FWF"}],"type":"journal_article","publication_status":"published","fulldoi":"https://doi.org/10.1103/PhysRevE.93.022404","intvolume":"        93","day":"04","doi":"10.1103/PhysRevE.93.022404","citation":{"ama":"Sokolowski TR, Walczak A, Bialek W, Tkačik G. Extending the dynamic range of transcription factor action by translational regulation. <i>Physical Review E</i>. 2016;93(2). doi:<a href=\"https://doi.org/10.1103/PhysRevE.93.022404\">10.1103/PhysRevE.93.022404</a>","ieee":"T. R. Sokolowski, A. Walczak, W. Bialek, and G. Tkačik, “Extending the dynamic range of transcription factor action by translational regulation,” <i>Physical Review E</i>, vol. 93, no. 2. American Physical Society, 2016.","apa":"Sokolowski, T. R., Walczak, A., Bialek, W., &#38; Tkačik, G. (2016). Extending the dynamic range of transcription factor action by translational regulation. <i>Physical Review E</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevE.93.022404\">https://doi.org/10.1103/PhysRevE.93.022404</a>","ista":"Sokolowski TR, Walczak A, Bialek W, Tkačik G. 2016. Extending the dynamic range of transcription factor action by translational regulation. Physical Review E. 93(2), 022404.","short":"T.R. Sokolowski, A. Walczak, W. Bialek, G. Tkačik, Physical Review E 93 (2016).","chicago":"Sokolowski, Thomas R, Aleksandra Walczak, William Bialek, and Gašper Tkačik. “Extending the Dynamic Range of Transcription Factor Action by Translational Regulation.” <i>Physical Review E</i>. American Physical Society, 2016. <a href=\"https://doi.org/10.1103/PhysRevE.93.022404\">https://doi.org/10.1103/PhysRevE.93.022404</a>.","mla":"Sokolowski, Thomas R., et al. “Extending the Dynamic Range of Transcription Factor Action by Translational Regulation.” <i>Physical Review E</i>, vol. 93, no. 2, 022404, American Physical Society, 2016, doi:<a href=\"https://doi.org/10.1103/PhysRevE.93.022404\">10.1103/PhysRevE.93.022404</a>."},"scopus_import":"1","department":[{"_id":"GaTk"}],"date_published":"2016-02-04T00:00:00Z","publication":"Physical Review E","publist_id":"6088","abstract":[{"lang":"eng","text":"A crucial step in the regulation of gene expression is binding of transcription factor (TF) proteins to regulatory sites along the DNA. But transcription factors act at nanomolar concentrations, and noise due to random arrival of these molecules at their binding sites can severely limit the precision of regulation. Recent work on the optimization of information flow through regulatory networks indicates that the lower end of the dynamic range of concentrations is simply inaccessible, overwhelmed by the impact of this noise. Motivated by the behavior of homeodomain proteins, such as the maternal morphogen Bicoid in the fruit fly embryo, we suggest a scheme in which transcription factors also act as indirect translational regulators, binding to the mRNA of other regulatory proteins. Intuitively, each mRNA molecule acts as an independent sensor of the input concentration, and averaging over these multiple sensors reduces the noise. We analyze information flow through this scheme and identify conditions under which it outperforms direct transcriptional regulation. Our results suggest that the dual role of homeodomain proteins is not just a historical accident, but a solution to a crucial physics problem in the regulation of gene expression."}],"acknowledgement":"We thank T. Gregor, A. Prochaintz, and others for\r\nhelpful discussions. This work was supported in part by\r\nGrants No. PHY-1305525 and No. CCF-0939370 from the\r\nUS National Science Foundation and by the W.M. Keck\r\nFoundation. A.M.W. acknowledges the support by European\r\nResearch Council (ERC) Grant No. MCCIG PCIG10–GA-\r\n2011–303561. G.T. and T.R.S. were supported by Austrian\r\nScience Fund (FWF) Grant No. P28844S.","quality_controlled":"1","month":"02","oa":1,"_id":"1242"},{"citation":{"chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Quantitative Automata under Probabilistic Semantics.” In <i>Proceedings of the 31st Annual ACM/IEEE Symposium</i>, 76–85. IEEE, 2016. <a href=\"https://doi.org/10.1145/2933575.2933588\">https://doi.org/10.1145/2933575.2933588</a>.","mla":"Chatterjee, Krishnendu, et al. “Quantitative Automata under Probabilistic Semantics.” <i>Proceedings of the 31st Annual ACM/IEEE Symposium</i>, IEEE, 2016, pp. 76–85, doi:<a href=\"https://doi.org/10.1145/2933575.2933588\">10.1145/2933575.2933588</a>.","short":"K. Chatterjee, T.A. Henzinger, J. Otop, in:, Proceedings of the 31st Annual ACM/IEEE Symposium, IEEE, 2016, pp. 76–85.","ista":"Chatterjee K, Henzinger TA, Otop J. 2016. Quantitative automata under probabilistic semantics. Proceedings of the 31st Annual ACM/IEEE Symposium. LICS: Logic in Computer Science, 76–85.","ieee":"K. Chatterjee, T. A. Henzinger, and J. Otop, “Quantitative automata under probabilistic semantics,” in <i>Proceedings of the 31st Annual ACM/IEEE Symposium</i>, New York, NY, USA, 2016, pp. 76–85.","apa":"Chatterjee, K., Henzinger, T. A., &#38; Otop, J. (2016). Quantitative automata under probabilistic semantics. In <i>Proceedings of the 31st Annual ACM/IEEE Symposium</i> (pp. 76–85). New York, NY, USA: IEEE. <a href=\"https://doi.org/10.1145/2933575.2933588\">https://doi.org/10.1145/2933575.2933588</a>","ama":"Chatterjee K, Henzinger TA, Otop J. Quantitative automata under probabilistic semantics. In: <i>Proceedings of the 31st Annual ACM/IEEE Symposium</i>. IEEE; 2016:76-85. doi:<a href=\"https://doi.org/10.1145/2933575.2933588\">10.1145/2933575.2933588</a>"},"doi":"10.1145/2933575.2933588","scopus_import":"1","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"date_published":"2016-07-05T00:00:00Z","project":[{"name":"Quantitative Reactive Modeling","_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989","call_identifier":"FP7"},{"name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF"},{"grant_number":"Z211","call_identifier":"FWF","name":"Formal methods for the design and analysis of complex systems","_id":"25F42A32-B435-11E9-9278-68D0E5697425"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","call_identifier":"FWF"},{"grant_number":"279307","call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"name":"Efficient Algorithms for Computer Aided Verification","_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003"}],"type":"conference","fulldoi":"https://doi.org/10.1145/2933575.2933588","publication_status":"published","day":"05","month":"07","oa":1,"_id":"1138","conference":{"name":"LICS: Logic in Computer Science","end_date":"2016-07-08","location":"New York, NY, USA","start_date":"2016-07-05"},"publication":"Proceedings of the 31st Annual ACM/IEEE Symposium","publist_id":"6220","abstract":[{"text":"Automata with monitor counters, where the transitions do not depend on counter values, and nested weighted automata are two expressive automata-theoretic frameworks for quantitative properties. For a well-studied and wide class of quantitative functions, we establish that automata with monitor counters and nested weighted automata are equivalent. We study for the first time such quantitative automata under probabilistic semantics. We show that several problems that are undecidable for the classical questions of emptiness and universality become decidable under the probabilistic semantics. We present a complete picture of decidability for such automata, and even an almost-complete picture of computational complexity, for the probabilistic questions we consider.","lang":"eng"}],"acknowledgement":"This research was funded in part by the European Research Council (ERC) under grant agreement 267989 (QUAREM), by the Austrian Science Fund (FWF) projects S11402-N23 (RiSE) and Z211-N23 (Wittgenstein Award), FWF Grant No P23499- N23, FWF NFN Grant No S114","quality_controlled":"1","isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","author":[{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","full_name":"Henzinger, Thomas A","first_name":"Thomas A","orcid":"0000−0002−2985−7724"},{"full_name":"Otop, Jan","last_name":"Otop","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87","first_name":"Jan"}],"status":"public","page":"76 - 85","main_file_link":[{"url":"https://arxiv.org/abs/1604.06764","open_access":"1"}],"language":[{"iso":"eng"}],"date_updated":"2026-08-19T09:35:52Z","oa_version":"Preprint","arxiv":1,"ec_funded":1,"external_id":{"arxiv":["1604.06764"],"isi":["000387609200008"]},"date_created":"2018-12-11T11:50:21Z","publisher":"IEEE","article_processing_charge":"No","title":"Quantitative automata under probabilistic semantics"},{"title":"Optimal cost almost-sure reachability in POMDPs","article_processing_charge":"No","publisher":"Elsevier","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"5425"},{"relation":"earlier_version","status":"public","id":"1820"}]},"date_created":"2018-12-11T11:52:33Z","external_id":{"isi":["000372683700002"],"arxiv":["1411.3880"]},"arxiv":1,"ec_funded":1,"oa_version":"Preprint","date_updated":"2026-08-19T09:31:46Z","main_file_link":[{"url":"http://arxiv.org/abs/1411.3880","open_access":"1"}],"language":[{"iso":"eng"}],"page":"26 - 48","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Chmelik, Martin","last_name":"Chmelik","id":"3624234E-F248-11E8-B48F-1D18A9856A87","first_name":"Martin"},{"first_name":"Raghav","last_name":"Gupta","full_name":"Gupta, Raghav"},{"full_name":"Kanodia, Ayush","last_name":"Kanodia","first_name":"Ayush"}],"corr_author":"1","status":"public","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2016","isi":1,"volume":234,"quality_controlled":"1","acknowledgement":"We thank Blai Bonet for helping us with RTDP-Bel. The research was partly supported by Austrian Science Fund (FWF) Grant No P23499-N23, FWF NFN Grant No S11407-N23 (RiSE), ERC Start grant (279307: Graph Games), and Microsoft faculty fellows award.","abstract":[{"text":"We consider partially observable Markov decision processes (POMDPs) with a set of target states and an integer cost associated with every transition. The optimization objective we study asks to minimize the expected total cost of reaching a state in the target set, while ensuring that the target set is reached almost surely (with probability 1). We show that for integer costs approximating the optimal cost is undecidable. For positive costs, our results are as follows: (i) we establish matching lower and upper bounds for the optimal cost, both double exponential in the POMDP state space size; (ii) we show that the problem of approximating the optimal cost is decidable and present approximation algorithms developing on the existing algorithms for POMDPs with finite-horizon objectives. While the worst-case running time of our algorithm is double exponential, we also present efficient stopping criteria for the algorithm and show experimentally that it performs well in many examples of interest.","lang":"eng"}],"publication":"Artificial Intelligence","publist_id":"5642","_id":"1529","month":"05","oa":1,"intvolume":"       234","day":"01","type":"journal_article","fulldoi":"https://doi.org/10.1016/j.artint.2016.01.007","publication_status":"published","project":[{"name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","call_identifier":"FWF"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7","grant_number":"279307"}],"date_published":"2016-05-01T00:00:00Z","department":[{"_id":"KrCh"}],"scopus_import":"1","citation":{"ama":"Chatterjee K, Chmelik M, Gupta R, Kanodia A. Optimal cost almost-sure reachability in POMDPs. <i>Artificial Intelligence</i>. 2016;234:26-48. doi:<a href=\"https://doi.org/10.1016/j.artint.2016.01.007\">10.1016/j.artint.2016.01.007</a>","apa":"Chatterjee, K., Chmelik, M., Gupta, R., &#38; Kanodia, A. (2016). Optimal cost almost-sure reachability in POMDPs. <i>Artificial Intelligence</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.artint.2016.01.007\">https://doi.org/10.1016/j.artint.2016.01.007</a>","ieee":"K. Chatterjee, M. Chmelik, R. Gupta, and A. Kanodia, “Optimal cost almost-sure reachability in POMDPs,” <i>Artificial Intelligence</i>, vol. 234. Elsevier, pp. 26–48, 2016.","ista":"Chatterjee K, Chmelik M, Gupta R, Kanodia A. 2016. Optimal cost almost-sure reachability in POMDPs. Artificial Intelligence. 234, 26–48.","short":"K. Chatterjee, M. Chmelik, R. Gupta, A. Kanodia, Artificial Intelligence 234 (2016) 26–48.","chicago":"Chatterjee, Krishnendu, Martin Chmelik, Raghav Gupta, and Ayush Kanodia. “Optimal Cost Almost-Sure Reachability in POMDPs.” <i>Artificial Intelligence</i>. Elsevier, 2016. <a href=\"https://doi.org/10.1016/j.artint.2016.01.007\">https://doi.org/10.1016/j.artint.2016.01.007</a>.","mla":"Chatterjee, Krishnendu, et al. “Optimal Cost Almost-Sure Reachability in POMDPs.” <i>Artificial Intelligence</i>, vol. 234, Elsevier, 2016, pp. 26–48, doi:<a href=\"https://doi.org/10.1016/j.artint.2016.01.007\">10.1016/j.artint.2016.01.007</a>."},"doi":"10.1016/j.artint.2016.01.007"},{"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"1077"}]},"date_created":"2021-08-10T08:29:47Z","abstract":[{"lang":"eng","text":"Viral capsids are structurally constrained by interactions among the amino acids (AAs) of their constituent proteins. Therefore, epistasis is expected to evolve among physically interacting sites and to influence the rates of substitution. To study the evolution of epistasis, we focused on the major structural protein of the ϕX174 phage family by, first, reconstructing the ancestral protein sequences of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each ancestral haplotype and the extant species, we estimated, in silico, the distribution of free energies and epistasis of the capsid structure. We found that free energy has not significantly increased but epistasis has. We decomposed epistasis up to fifth order and found that higher-order epistasis sometimes compensates pairwise interactions making the free energy seem additive. The dN/dS ratio is low, suggesting strong purifying selection, and that structure is under stabilizing selection. We synthesized phages carrying ancestral haplotypes of the coat protein gene and measured their fitness experimentally. Our findings indicate that stabilizing mutations can have higher fitness, and that fitness optima do not necessarily coincide with energy minima."}],"publisher":"The Royal Society","article_processing_charge":"No","title":"Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family","month":"12","oa_version":"Published Version","oa":1,"_id":"9864","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.4315652.v1","open_access":"1"}],"type":"research_data_reference","fulldoi":"https://doi.org/10.6084/m9.figshare.4315652.v1","date_updated":"2026-08-27T12:09:34Z","day":"14","doi":"10.6084/m9.figshare.4315652.v1","citation":{"ista":"Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family, The Royal Society, <a href=\"https://doi.org/10.6084/m9.figshare.4315652.v1\">10.6084/m9.figshare.4315652.v1</a>.","short":"R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, (2016).","chicago":"Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan P Bollback. “Data from Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” The Royal Society, 2016. <a href=\"https://doi.org/10.6084/m9.figshare.4315652.v1\">https://doi.org/10.6084/m9.figshare.4315652.v1</a>.","mla":"Fernandes Redondo, Rodrigo A., et al. <i>Data from Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family</i>. The Royal Society, 2016, doi:<a href=\"https://doi.org/10.6084/m9.figshare.4315652.v1\">10.6084/m9.figshare.4315652.v1</a>.","ama":"Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. 2016. doi:<a href=\"https://doi.org/10.6084/m9.figshare.4315652.v1\">10.6084/m9.figshare.4315652.v1</a>","apa":"Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., &#38; Bollback, J. P. (2016). Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. The Royal Society. <a href=\"https://doi.org/10.6084/m9.figshare.4315652.v1\">https://doi.org/10.6084/m9.figshare.4315652.v1</a>","ieee":"R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family.” The Royal Society, 2016."},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","department":[{"_id":"NiBa"},{"_id":"JoBo"}],"year":"2016","author":[{"orcid":"0000-0002-5837-2793","full_name":"Fernandes Redondo, Rodrigo A","last_name":"Fernandes Redondo","id":"409D5C96-F248-11E8-B48F-1D18A9856A87","first_name":"Rodrigo A"},{"id":"2A181218-F248-11E8-B48F-1D18A9856A87","full_name":"de Vladar, Harold","last_name":"de Vladar","first_name":"Harold","orcid":"0000-0002-5985-7653"},{"first_name":"Tomasz","full_name":"Włodarski, Tomasz","last_name":"Włodarski"},{"full_name":"Bollback, Jonathan P","last_name":"Bollback","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","first_name":"Jonathan P","orcid":"0000-0002-4624-4612"}],"status":"public","date_published":"2016-12-14T00:00:00Z"},{"article_number":"20160811","language":[{"iso":"eng"}],"date_updated":"2026-08-27T12:13:27Z","volume":283,"isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","author":[{"first_name":"Dino","last_name":"Mcmahon","full_name":"Mcmahon, Dino"},{"last_name":"Natsopoulou","full_name":"Natsopoulou, Myrsini","first_name":"Myrsini"},{"first_name":"Vincent","full_name":"Doublet, Vincent","last_name":"Doublet"},{"first_name":"Matthias","id":"393B1196-F248-11E8-B48F-1D18A9856A87","last_name":"Fürst","full_name":"Fürst, Matthias","orcid":"0000-0002-3712-925X"},{"full_name":"Weging, Silvio","last_name":"Weging","first_name":"Silvio"},{"first_name":"Mark","last_name":"Brown","full_name":"Brown, Mark"},{"last_name":"Gogol Döring","full_name":"Gogol Döring, Andreas","first_name":"Andreas"},{"full_name":"Paxton, Robert","last_name":"Paxton","first_name":"Robert"}],"status":"public","related_material":{"record":[{"id":"9704","relation":"research_data","status":"public"}]},"date_created":"2018-12-11T11:51:00Z","publisher":"Royal Society","article_processing_charge":"No","title":"Elevated virulence of an emerging viral genotype as a driver of honeybee loss","pubrep_id":"701","issue":"1833","ddc":["576","592"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","file_date_updated":"2020-07-14T12:44:42Z","external_id":{"isi":["000381247300009"]},"type":"journal_article","fulldoi":"https://doi.org/10.1098/rspb.2016.0811","publication_status":"published","intvolume":"       283","day":"29","doi":"10.1098/rspb.2016.0811","citation":{"short":"D. Mcmahon, M. Natsopoulou, V. Doublet, M. Fürst, S. Weging, M. Brown, A. Gogol Döring, R. Paxton, Proceedings of the Royal Society of London Series B Biological Sciences 283 (2016).","ista":"Mcmahon D, Natsopoulou M, Doublet V, Fürst M, Weging S, Brown M, Gogol Döring A, Paxton R. 2016. Elevated virulence of an emerging viral genotype as a driver of honeybee loss. Proceedings of the Royal Society of London Series B Biological Sciences. 283(1833), 20160811.","chicago":"Mcmahon, Dino, Myrsini Natsopoulou, Vincent Doublet, Matthias Fürst, Silvio Weging, Mark Brown, Andreas Gogol Döring, and Robert Paxton. “Elevated Virulence of an Emerging Viral Genotype as a Driver of Honeybee Loss.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society, 2016. <a href=\"https://doi.org/10.1098/rspb.2016.0811\">https://doi.org/10.1098/rspb.2016.0811</a>.","mla":"Mcmahon, Dino, et al. “Elevated Virulence of an Emerging Viral Genotype as a Driver of Honeybee Loss.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 283, no. 1833, 20160811, Royal Society, 2016, doi:<a href=\"https://doi.org/10.1098/rspb.2016.0811\">10.1098/rspb.2016.0811</a>.","ama":"Mcmahon D, Natsopoulou M, Doublet V, et al. Elevated virulence of an emerging viral genotype as a driver of honeybee loss. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. 2016;283(1833). doi:<a href=\"https://doi.org/10.1098/rspb.2016.0811\">10.1098/rspb.2016.0811</a>","apa":"Mcmahon, D., Natsopoulou, M., Doublet, V., Fürst, M., Weging, S., Brown, M., … Paxton, R. (2016). Elevated virulence of an emerging viral genotype as a driver of honeybee loss. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society. <a href=\"https://doi.org/10.1098/rspb.2016.0811\">https://doi.org/10.1098/rspb.2016.0811</a>","ieee":"D. Mcmahon <i>et al.</i>, “Elevated virulence of an emerging viral genotype as a driver of honeybee loss,” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 283, no. 1833. Royal Society, 2016."},"scopus_import":"1","file":[{"file_id":"4708","file_name":"IST-2016-701-v1+1_20160811.full.pdf","checksum":"0b0d1be38b497d004064650acb3baced","date_created":"2018-12-12T10:08:46Z","creator":"system","access_level":"open_access","relation":"main_file","date_updated":"2020-07-14T12:44:42Z","file_size":796872,"content_type":"application/pdf"}],"has_accepted_license":"1","department":[{"_id":"SyCr"}],"date_published":"2016-06-29T00:00:00Z","publication":"Proceedings of the Royal Society of London Series B Biological Sciences","publist_id":"6060","abstract":[{"lang":"eng","text":"Emerging infectious diseases (EIDs) have contributed significantly to the current biodiversity crisis, leading to widespread epidemics and population loss. Owing to genetic variation in pathogen virulence, a complete understanding of species decline requires the accurate identification and characterization of EIDs. We explore this issue in the Western honeybee, where increasing mortality of populations in the Northern Hemisphere has caused major concern. Specifically, we investigate the importance of genetic identity of the main suspect in mortality, deformed wing virus (DWV), in driving honeybee loss. Using laboratory experiments and a systematic field survey, we demonstrate that an emerging DWV genotype (DWV-B) is more virulent than the established DWV genotype (DWV-A) and is widespread in the landscape. Furthermore, we show in a simple model that colonies infected with DWV-B collapse sooner than colonies infected with DWV-A. We also identify potential for rapid DWV evolution by revealing extensive genome-wide recombination in vivo. The emergence of DWV-B in naive honeybee populations, including via recombination with DWV-A, could be of significant ecological and economic importance. Our findings emphasize that knowledge of pathogen genetic identity and diversity is critical to understanding drivers of species decline."}],"acknowledgement":"This work was supported by the Federal Ministry of Food, Agriculture and Consumer Protection (Germany): Fit Bee project (grant 511-06.01-28-1-71.007-10), the EU: BeeDoc (grant 244956), iDiv (2013 NGS-Fast Track grant W47004118) and the Insect Pollinators Initiative (IPI grant BB/I000100/1 and BB/I000151/1). The IPI is funded jointly by the Biotechnology and Biological Sciences Research Council, the Department for Environment, Food and Rural Affairs, the Natural Environment Research Council, the Scottish Government and the Wellcome Trust, under the Living with Environmental Change Partnership. We thank A. Abrahams, M. Husemann and A. Soro\r\nfor support in obtaining\r\nV.  destructor\r\n-free honeybees; and BBKA\r\nPresident D. Aston for access to records of colony overwinter\r\n2011–2012 mortality in the UK. We also thank the anonymous refe-\r\nrees and Stephen Martin for comments that led to substantial\r\nimprovement of the manuscript.","quality_controlled":"1","month":"06","oa":1,"_id":"1262"}]