[{"_id":"1124","year":"2016","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","OA_place":"publisher","author":[{"id":"4863116E-F248-11E8-B48F-1D18A9856A87","full_name":"Morri, Maurizio","last_name":"Morri","first_name":"Maurizio"}],"publication_status":"published","date_published":"2016-03-01T00:00:00Z","date_updated":"2026-07-29T11:26:59Z","supervisor":[{"orcid":"0000-0002-8023-9315","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","first_name":"Harald L","full_name":"Janovjak, Harald L","last_name":"Janovjak"}],"article_processing_charge":"No","oa":1,"publication_identifier":{"issn":["2663-337X"]},"day":"01","page":"129","title":"Optical functionalization of human class A orphan G-protein coupled receptors","oa_version":"Published Version","date_created":"2018-12-11T11:50:17Z","alternative_title":["ISTA Thesis"],"type":"dissertation","has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"HaJa"},{"_id":"GradSch"}],"file":[{"file_id":"6812","file_size":4785167,"relation":"main_file","date_updated":"2019-08-13T10:50:00Z","file_name":"MORRI_PhD_thesis_FINALPLUSSIGNATURES (2).pdf","access_level":"closed","date_created":"2019-08-13T10:50:00Z","creator":"dernst","checksum":"b439803ac0827cdddd56562a54e3b53b","content_type":"application/pdf"},{"creator":"dernst","success":1,"checksum":"dd4136247fe472e7d47880ec68ac8de0","content_type":"application/pdf","date_created":"2021-02-22T11:42:06Z","access_level":"open_access","file_id":"9180","file_name":"2016_MORRI_Thesis.pdf","relation":"main_file","file_size":4495669,"date_updated":"2021-02-22T11:42:06Z"}],"ddc":["570"],"status":"public","file_date_updated":"2021-02-22T11:42:06Z","publist_id":"6236","publisher":"Institute of Science and Technology Austria","citation":{"ieee":"M. Morri, “Optical functionalization of human class A orphan G-protein coupled receptors,” Institute of Science and Technology Austria, 2016.","short":"M. Morri, Optical Functionalization of Human Class A Orphan G-Protein Coupled Receptors, Institute of Science and Technology Austria, 2016.","mla":"Morri, Maurizio. <i>Optical Functionalization of Human Class A Orphan G-Protein Coupled Receptors</i>. Institute of Science and Technology Austria, 2016.","ista":"Morri M. 2016. Optical functionalization of human class A orphan G-protein coupled receptors. Institute of Science and Technology Austria.","apa":"Morri, M. (2016). <i>Optical functionalization of human class A orphan G-protein coupled receptors</i>. Institute of Science and Technology Austria.","chicago":"Morri, Maurizio. “Optical Functionalization of Human Class A Orphan G-Protein Coupled Receptors.” Institute of Science and Technology Austria, 2016.","ama":"Morri M. Optical functionalization of human class A orphan G-protein coupled receptors. 2016."},"doi_confirm":"1","corr_author":"1","month":"03","degree_awarded":"PhD"},{"pubrep_id":"582","date_created":"2018-12-11T11:51:59Z","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"journal_article","file":[{"creator":"system","checksum":"7e84d0392348c874d473b62f1042de22","content_type":"application/pdf","file_id":"5355","relation":"main_file","file_size":4510512,"date_updated":"2020-07-14T12:44:53Z","file_name":"IST-2016-582-v1+1_ncomms11552.pdf","date_created":"2018-12-12T10:18:33Z","access_level":"open_access"}],"doi":"10.1038/ncomms11552","department":[{"_id":"PeJo"}],"acknowledgement":"We thank Jozsef Csicsvari and Nelson Spruston for critically reading the manuscript. We also thank A. Schlögl for programming, F. Marr for technical assistance and E. Kramberger for manuscript editing. ","title":"Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative networks","day":"13","oa_version":"Published Version","scopus_import":"1","citation":{"short":"R.K. Mishra, S. Kim, J. Guzmán, P.M. Jonas, Nature Communications 7 (2016).","ieee":"R. K. Mishra, S. Kim, J. Guzmán, and P. M. Jonas, “Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative networks,” <i>Nature Communications</i>, vol. 7. Nature Publishing Group, 2016.","mla":"Mishra, Rajiv Kumar, et al. “Symmetric Spike Timing-Dependent Plasticity at CA3–CA3 Synapses Optimizes Storage and Recall in Autoassociative Networks.” <i>Nature Communications</i>, vol. 7, 11552, Nature Publishing Group, 2016, doi:<a href=\"https://doi.org/10.1038/ncomms11552\">10.1038/ncomms11552</a>.","ista":"Mishra RK, Kim S, Guzmán J, Jonas PM. 2016. Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative networks. Nature Communications. 7, 11552.","chicago":"Mishra, Rajiv Kumar, Sooyun Kim, José Guzmán, and Peter M Jonas. “Symmetric Spike Timing-Dependent Plasticity at CA3–CA3 Synapses Optimizes Storage and Recall in Autoassociative Networks.” <i>Nature Communications</i>. Nature Publishing Group, 2016. <a href=\"https://doi.org/10.1038/ncomms11552\">https://doi.org/10.1038/ncomms11552</a>.","apa":"Mishra, R. K., Kim, S., Guzmán, J., &#38; Jonas, P. M. (2016). Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative networks. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncomms11552\">https://doi.org/10.1038/ncomms11552</a>","ama":"Mishra RK, Kim S, Guzmán J, Jonas PM. Symmetric spike timing-dependent plasticity at CA3–CA3 synapses optimizes storage and recall in autoassociative networks. <i>Nature Communications</i>. 2016;7. doi:<a href=\"https://doi.org/10.1038/ncomms11552\">10.1038/ncomms11552</a>"},"intvolume":"         7","month":"05","corr_author":"1","ddc":["570"],"article_number":"11552","file_date_updated":"2020-07-14T12:44:53Z","status":"public","publist_id":"5766","publisher":"Nature Publishing Group","publication_status":"published","date_updated":"2026-07-29T11:31:52Z","ec_funded":1,"date_published":"2016-05-13T00:00:00Z","external_id":{"isi":["000375938200001"]},"_id":"1432","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2016","related_material":{"record":[{"relation":"dissertation_contains","id":"1396","status":"public"}]},"author":[{"id":"46CB58F2-F248-11E8-B48F-1D18A9856A87","first_name":"Rajiv Kumar","full_name":"Mishra, Rajiv Kumar","last_name":"Mishra"},{"first_name":"Sooyun","full_name":"Kim, Sooyun","last_name":"Kim","id":"394AB1C8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"José","full_name":"Guzmán, José","last_name":"Guzmán","orcid":"0000-0003-2209-5242","id":"30CC5506-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","first_name":"Peter M","last_name":"Jonas","full_name":"Jonas, Peter M"}],"publication":"Nature Communications","quality_controlled":"1","abstract":[{"lang":"eng","text":"CA3–CA3 recurrent excitatory synapses are thought to play a key role in memory storage and pattern completion. Whether the plasticity properties of these synapses are consistent with their proposed network functions remains unclear. Here, we examine the properties of spike timing-dependent plasticity (STDP) at CA3–CA3 synapses. Low-frequency pairing of excitatory postsynaptic potentials (EPSPs) and action potentials (APs) induces long-term potentiation (LTP), independent of temporal order. The STDP curve is symmetric and broad (half-width ~150 ms). Consistent with these STDP induction properties, AP–EPSP sequences lead to supralinear summation of spine [Ca2+] transients. Furthermore, afterdepolarizations (ADPs) following APs efficiently propagate into dendrites of CA3 pyramidal neurons, and EPSPs summate with dendritic ADPs. In autoassociative network models, storage and recall are more robust with symmetric than with asymmetric STDP rules. Thus, a specialized STDP induction rule allows reliable storage and recall of information in the hippocampal CA3 network."}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"fulldoi":"https://doi.org/10.1038/ncomms11552","volume":7,"oa":1,"article_processing_charge":"No","project":[{"grant_number":"P24909-B24","_id":"25C26B1E-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Mechanisms of transmitter release at GABAergic synapses"},{"_id":"25C0F108-B435-11E9-9278-68D0E5697425","grant_number":"268548","name":"Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons","call_identifier":"FP7"}]},{"supervisor":[{"id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","last_name":"Jonas","full_name":"Jonas, Peter M","first_name":"Peter M"}],"oa":1,"article_processing_charge":"No","publication_status":"published","date_published":"2016-03-01T00:00:00Z","date_updated":"2026-07-29T11:31:52Z","_id":"1396","year":"2016","OA_place":"publisher","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","author":[{"full_name":"Mishra, Rajiv Kumar","last_name":"Mishra","first_name":"Rajiv Kumar","id":"46CB58F2-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"1432"}]},"abstract":[{"text":"CA3 pyramidal neurons are thought to pay a key role in memory storage and pattern completion by activity-dependent synaptic plasticity between CA3-CA3 recurrent excitatory synapses. To examine the induction rules of synaptic plasticity at CA3-CA3 synapses, we performed whole-cell patch-clamp recordings in acute hippocampal slices from rats (postnatal 21-24 days) at room temperature. Compound excitatory postsynaptic potentials (ESPSs) were recorded by tract stimulation in stratum oriens in the presence of 10 µM gabazine. High-frequency stimulation (HFS) induced N-methyl-D-aspartate (NMDA) receptor-dependent long-term potentiation (LTP). Although LTP by HFS did not requier postsynaptic spikes, it was blocked by Na+-channel blockers suggesting that local active processes (e.g.) dendritic spikes) may contribute to LTP induction without requirement of a somatic action potential (AP). We next examined the properties of spike timing-dependent plasticity (STDP) at CA3-CA3 synapses. Unexpectedly, low-frequency pairing of EPSPs and backpropagated action potentialy (bAPs) induced LTP, independent of temporal order. The STDP curve was symmetric and broad, with a half-width of ~150 ms. Consistent with these specific STDP induction properties, post-presynaptic sequences led to a supralinear summation of spine [Ca2+] transients. Furthermore, in autoassociative network models, storage and recall was substantially more robust with symmetric than with asymmetric STDP rules. In conclusion, we found associative forms of LTP at CA3-CA3 recurrent collateral synapses with distinct induction rules. LTP induced by HFS may be associated with dendritic spikes. In contrast, low frequency pairing of pre- and postsynaptic activity induced LTP only if EPSP-AP were temporally very close. Together, these induction mechanisms of synaptiic plasticity may contribute to memory storage in the CA3-CA3 microcircuit at different ranges of activity.","lang":"eng"}],"citation":{"short":"R.K. Mishra, Synaptic Plasticity Rules at CA3-CA3 Recurrent Synapses in Hippocampus, Institute of Science and Technology Austria, 2016.","ieee":"R. K. Mishra, “Synaptic plasticity rules at CA3-CA3 recurrent synapses in hippocampus,” Institute of Science and Technology Austria, 2016.","mla":"Mishra, Rajiv Kumar. <i>Synaptic Plasticity Rules at CA3-CA3 Recurrent Synapses in Hippocampus</i>. Institute of Science and Technology Austria, 2016.","ista":"Mishra RK. 2016. Synaptic plasticity rules at CA3-CA3 recurrent synapses in hippocampus. Institute of Science and Technology Austria.","chicago":"Mishra, Rajiv Kumar. “Synaptic Plasticity Rules at CA3-CA3 Recurrent Synapses in Hippocampus.” Institute of Science and Technology Austria, 2016.","apa":"Mishra, R. K. (2016). <i>Synaptic plasticity rules at CA3-CA3 recurrent synapses in hippocampus</i>. Institute of Science and Technology Austria.","ama":"Mishra RK. Synaptic plasticity rules at CA3-CA3 recurrent synapses in hippocampus. 2016."},"doi_confirm":"1","corr_author":"1","month":"03","degree_awarded":"PhD","ddc":["570"],"status":"public","file_date_updated":"2021-02-22T11:48:44Z","publist_id":"5811","publisher":"Institute of Science and Technology Austria","alternative_title":["ISTA Thesis"],"date_created":"2018-12-11T11:51:46Z","has_accepted_license":"1","type":"dissertation","language":[{"iso":"eng"}],"department":[{"_id":"PeJo"},{"_id":"GradSch"}],"file":[{"checksum":"5a010a838faf040f7064f3cfb802f743","content_type":"application/pdf","creator":"dernst","date_updated":"2020-07-14T12:44:48Z","relation":"main_file","file_size":2407572,"file_name":"Thesis_Mishra_Rajiv (Final).pdf","file_id":"6782","access_level":"closed","date_created":"2019-08-09T12:14:46Z"},{"file_id":"9183","relation":"main_file","date_updated":"2021-02-22T11:48:44Z","file_size":2407572,"file_name":"2016_RajivMishra_Thesis.pdf","access_level":"open_access","date_created":"2021-02-22T11:48:44Z","success":1,"creator":"dernst","checksum":"81b26d9ede92c99f1d8cc6fa1d04cbbb","content_type":"application/pdf"}],"publication_identifier":{"issn":["2663-337X"]},"day":"01","page":"83","title":"Synaptic plasticity rules at CA3-CA3 recurrent synapses in hippocampus","oa_version":"Published Version"},{"oa_version":"Published Version","acknowledgement":"This PhD thesis may not have been completed without the help and care I received from some peo- ple during my PhD life. I am especially grateful to Tiago Paixao, Gasper Tkacik, Nick Barton, not only for their scientific advices but also for their patience and support. I thank Calin Guet and Jonathan Bollback for allowing me to “play around” in their labs and get some experience on experimental evolution. I thank Magdalena Steinrueck and Fabienne Jesse for collaborating and sharing their experimental data with me. I thank Johannes Jaeger for reviewing my thesis. I thank all members of Barton group (aka bartonians) for their feedback, and all workers of IST Austria for making the best working conditions. Lastly, I thank two special women, Nejla Sag ̆lam and Setenay Dog ̆an, for their continuous support and encouragement. I truly had a great chance of having right people around me.","publication_identifier":{"issn":["2663-337X"]},"day":"01","title":"Evolution of transcriptional regulatory sequences","page":"89","department":[{"_id":"NiBa"},{"_id":"GradSch"}],"file":[{"checksum":"66cb61a59943e4fb7447c6a86be5ef51","content_type":"application/pdf","creator":"dernst","date_created":"2019-08-13T08:53:52Z","access_level":"closed","relation":"main_file","file_size":3695257,"date_updated":"2019-08-13T08:53:52Z","file_name":"Tugrul_thesis_w_signature_page.pdf","file_id":"6810"},{"access_level":"open_access","date_created":"2021-02-22T11:45:20Z","file_id":"9182","relation":"main_file","date_updated":"2021-02-22T11:45:20Z","file_size":3880811,"file_name":"2016_Tugrul_Thesis.pdf","success":1,"creator":"dernst","content_type":"application/pdf","checksum":"293e388d70563760f6b24c3e66283dda"}],"date_created":"2018-12-11T11:50:19Z","alternative_title":["ISTA Thesis"],"type":"dissertation","has_accepted_license":"1","language":[{"iso":"eng"}],"publist_id":"6229","publisher":"Institute of Science and Technology Austria","ddc":["576"],"status":"public","file_date_updated":"2021-02-22T11:45:20Z","corr_author":"1","month":"07","degree_awarded":"PhD","citation":{"short":"M. Tugrul, Evolution of Transcriptional Regulatory Sequences, Institute of Science and Technology Austria, 2016.","ieee":"M. Tugrul, “Evolution of transcriptional regulatory sequences,” Institute of Science and Technology Austria, 2016.","mla":"Tugrul, Murat. <i>Evolution of Transcriptional Regulatory Sequences</i>. Institute of Science and Technology Austria, 2016.","ista":"Tugrul M. 2016. Evolution of transcriptional regulatory sequences. Institute of Science and Technology Austria.","chicago":"Tugrul, Murat. “Evolution of Transcriptional Regulatory Sequences.” Institute of Science and Technology Austria, 2016.","apa":"Tugrul, M. (2016). <i>Evolution of transcriptional regulatory sequences</i>. Institute of Science and Technology Austria.","ama":"Tugrul M. Evolution of transcriptional regulatory sequences. 2016."},"doi_confirm":"1","author":[{"last_name":"Tugrul","full_name":"Tugrul, Murat","first_name":"Murat","id":"37C323C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8523-0758"}],"related_material":{"record":[{"status":"public","id":"5554","relation":"research_data"},{"status":"public","id":"1666","relation":"part_of_dissertation"}]},"abstract":[{"lang":"eng","text":"Evolution of gene regulation is important for phenotypic evolution and diversity. Sequence-specific binding of regulatory proteins is one of the key regulatory mechanisms determining gene expression. Although there has been intense interest in evolution of regulatory binding sites in the last decades, a theoretical understanding is far from being complete. In this thesis, I aim at a better understanding of the evolution of transcriptional regulatory binding sequences by using biophysical and population genetic models.\r\nIn the first part of the thesis, I discuss how to formulate the evolutionary dynamics of binding se- quences in a single isolated binding site and in promoter/enhancer regions. I develop a theoretical framework bridging between a thermodynamical model for transcription and a mutation-selection-drift model for monomorphic populations. I mainly address the typical evolutionary rates, and how they de- pend on biophysical parameters (e.g. binding length and specificity) and population genetic parameters (e.g. population size and selection strength).\r\nIn the second part of the thesis, I analyse empirical data for a better evolutionary and biophysical understanding of sequence-specific binding of bacterial RNA polymerase. First, I infer selection on regulatory and non-regulatory binding sites of RNA polymerase in the E. coli K12 genome. Second, I infer the chemical potential of RNA polymerase, an important but unknown physical parameter defining the threshold energy for strong binding. Furthermore, I try to understand the relation between the lac promoter sequence diversity and the LacZ activity variation among 20 bacterial isolates by constructing a simple but biophysically motivated gene expression model. Lastly, I lay out a statistical framework to predict adaptive point mutations in de novo promoter evolution in a selection experiment."}],"_id":"1131","year":"2016","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","OA_place":"publisher","date_published":"2016-07-01T00:00:00Z","date_updated":"2026-07-29T11:31:14Z","publication_status":"published","oa":1,"article_processing_charge":"No","supervisor":[{"last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240"}]},{"doi":"10.15479/AT:ISTA:43","license":"https://creativecommons.org/publicdomain/zero/1.0/","department":[{"_id":"NiBa"},{"_id":"JoBo"}],"file":[{"file_id":"5626","file_name":"IST-2016-43-v1+1_DATA_MTugrul_PhDThesis_Chapter3.zip","file_size":1123495,"relation":"main_file","date_updated":"2020-07-14T12:47:01Z","date_created":"2018-12-12T13:03:08Z","access_level":"open_access","creator":"system","content_type":"application/zip","checksum":"1fc0a10bb7ce110fcb5e1fbe3cf0c4e2"}],"date_published":"2016-05-12T00:00:00Z","date_updated":"2026-07-29T11:31:13Z","has_accepted_license":"1","type":"research_data","date_created":"2018-12-12T12:31:30Z","abstract":[{"lang":"eng","text":"The data stored here is used in Murat Tugrul's PhD thesis (Chapter 3), which is related to the evolution of bacterial RNA polymerase binding.\r\nMagdalena Steinrueck (PhD Student in Calin Guet's group at IST Austria) performed the experiments and created the data on de novo promoter evolution. Fabienne Jesse (PhD Student in Jon Bollback's group at IST Austria) performed the experiments and created the data on lac promoter evolution."}],"datarep_id":"43","contributor":[{"first_name":"Magdalena","last_name":"Steinrück","contributor_type":"researcher","id":"2C023F40-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Fabienne","last_name":"Jesse","contributor_type":"researcher","id":"4C8C26A4-F248-11E8-B48F-1D18A9856A87"}],"author":[{"first_name":"Murat","full_name":"Tugrul, Murat","last_name":"Tugrul","orcid":"0000-0002-8523-0758","id":"37C323C6-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"status":"public","id":"1131","relation":"used_in_publication"}]},"oa_version":"Published Version","day":"12","year":"2016","title":"Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"5554","article_processing_charge":"No","oa":1,"month":"05","fulldoi":"https://doi.org/10.15479/AT:ISTA:43","citation":{"mla":"Tugrul, Murat. <i>Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>.","short":"M. Tugrul, (2016).","ieee":"M. Tugrul, “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016.","apa":"Tugrul, M. (2016). Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:43\">https://doi.org/10.15479/AT:ISTA:43</a>","chicago":"Tugrul, Murat. “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:43\">https://doi.org/10.15479/AT:ISTA:43</a>.","ama":"Tugrul M. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>","ista":"Tugrul M. 2016. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>."},"tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"publisher":"Institute of Science and Technology Austria","keyword":["RNAP binding","de novo promoter evolution","lac promoter"],"status":"public","file_date_updated":"2020-07-14T12:47:01Z"},{"related_material":{"record":[{"status":"public","id":"839","relation":"dissertation_contains"}]},"author":[{"first_name":"David","last_name":"Hahn","full_name":"Hahn, David","id":"357A6A66-F248-11E8-B48F-1D18A9856A87"},{"id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6646-5546","last_name":"Wojtan","full_name":"Wojtan, Christopher J","first_name":"Christopher J"}],"quality_controlled":"1","abstract":[{"text":"We present a boundary element based method for fast simulation of brittle fracture. By introducing simplifying assumptions that allow us to quickly estimate stress intensities and opening displacements during crack propagation, we build a fracture algorithm where the cost of each time step scales linearly with the length of the crackfront. The transition from a full boundary element method to our faster variant is possible at the beginning of any time step. This allows us to build a hybrid method, which uses the expensive but more accurate BEM while the number of degrees of freedom is low, and uses the fast method once that number exceeds a given threshold as the crack geometry becomes more complicated. Furthermore, we integrate this fracture simulation with a standard rigid-body solver. Our rigid-body coupling solves a Neumann boundary value problem by carefully separating translational, rotational and deformational components of the collision forces and then applying a Tikhonov regularizer to the resulting linear system. We show that our method produces physically reasonable results in standard test cases and is capable of dealing with complex scenes faster than previous finite- or boundary element approaches.","lang":"eng"}],"external_id":{"isi":["000380112400074"]},"isi":1,"_id":"1362","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2016","ec_funded":1,"date_updated":"2026-07-29T13:27:24Z","date_published":"2016-07-01T00:00:00Z","publication_status":"published","project":[{"grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425","name":"Big Splash: Efficient Simulation of Natural Phenomena at Extremely Large Scales","call_identifier":"H2020"}],"article_processing_charge":"No","oa":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"conference":{"end_date":"2016-07-28","start_date":"2016-07-24","name":"ACM SIGGRAPH","location":"Anaheim, CA, USA"},"volume":35,"fulldoi":"https://doi.org/10.1145/2897824.2925902","oa_version":"Published Version","title":"Fast approximations for boundary element based brittle fracture simulation","day":"01","file":[{"creator":"system","checksum":"943712d9c9dc8bb5048d4adc561d7d38","content_type":"application/pdf","file_id":"5121","file_name":"IST-2016-632-v1+2_a104-hahn.pdf","relation":"main_file","date_updated":"2020-07-14T12:44:46Z","file_size":12453704,"date_created":"2018-12-12T10:15:04Z","access_level":"open_access"}],"department":[{"_id":"ChWo"}],"doi":"10.1145/2897824.2925902","date_created":"2018-12-11T11:51:35Z","alternative_title":["ACM Transactions on Graphics"],"pubrep_id":"632","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"conference","publist_id":"5880","publisher":"ACM","ddc":["000"],"issue":"4","article_number":"104","file_date_updated":"2020-07-14T12:44:46Z","status":"public","month":"07","corr_author":"1","scopus_import":"1","citation":{"ista":"Hahn D, Wojtan C. 2016. Fast approximations for boundary element based brittle fracture simulation. ACM SIGGRAPH, ACM Transactions on Graphics, vol. 35, 104.","chicago":"Hahn, David, and Chris Wojtan. “Fast Approximations for Boundary Element Based Brittle Fracture Simulation,” Vol. 35. ACM, 2016. <a href=\"https://doi.org/10.1145/2897824.2925902\">https://doi.org/10.1145/2897824.2925902</a>.","apa":"Hahn, D., &#38; Wojtan, C. (2016). Fast approximations for boundary element based brittle fracture simulation (Vol. 35). Presented at the ACM SIGGRAPH, Anaheim, CA, USA: ACM. <a href=\"https://doi.org/10.1145/2897824.2925902\">https://doi.org/10.1145/2897824.2925902</a>","ama":"Hahn D, Wojtan C. Fast approximations for boundary element based brittle fracture simulation. In: Vol 35. ACM; 2016. doi:<a href=\"https://doi.org/10.1145/2897824.2925902\">10.1145/2897824.2925902</a>","ieee":"D. Hahn and C. Wojtan, “Fast approximations for boundary element based brittle fracture simulation,” presented at the ACM SIGGRAPH, Anaheim, CA, USA, 2016, vol. 35, no. 4.","short":"D. Hahn, C. Wojtan, in:, ACM, 2016.","mla":"Hahn, David, and Chris Wojtan. <i>Fast Approximations for Boundary Element Based Brittle Fracture Simulation</i>. Vol. 35, no. 4, 104, ACM, 2016, doi:<a href=\"https://doi.org/10.1145/2897824.2925902\">10.1145/2897824.2925902</a>."},"intvolume":"        35"},{"project":[{"name":"Provable Security for Physical Cryptography","call_identifier":"FP7","grant_number":"259668","_id":"258C570E-B435-11E9-9278-68D0E5697425"},{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425"}],"volume":9696,"fulldoi":"https://doi.org/10.1007/978-3-319-39555-5_16","conference":{"end_date":"2016-06-22","start_date":"2016-06-19","name":"ACNS: Applied Cryptography and Network Security","location":"Guildford, UK"},"oa":1,"article_processing_charge":"No","year":"2016","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"1229","isi":1,"external_id":{"isi":["000386324500016"]},"abstract":[{"lang":"eng","text":"Witness encryption (WE) was introduced by Garg et al. [GGSW13]. A WE scheme is defined for some NP language L and lets a sender encrypt messages relative to instances x. A ciphertext for x can be decrypted using w witnessing x ∈ L, but hides the message if x ∈ L. Garg et al. construct WE from multilinear maps and give another construction [GGH+13b] using indistinguishability obfuscation (iO) for circuits. Due to the reliance on such heavy tools, WE can cur- rently hardly be implemented on powerful hardware and will unlikely be realizable on constrained devices like smart cards any time soon. We construct a WE scheme where encryption is done by simply computing a Naor-Yung ciphertext (two CPA encryptions and a NIZK proof). To achieve this, our scheme has a setup phase, which outputs public parameters containing an obfuscated circuit (only required for decryption), two encryption keys and a common reference string (used for encryption). This setup need only be run once, and the parame- ters can be used for arbitrary many encryptions. Our scheme can also be turned into a functional WE scheme, where a message is encrypted w.r.t. a statement and a function f, and decryption with a witness w yields f (m, w). Our construction is inspired by the functional encryption scheme by Garg et al. and we prove (selective) security assuming iO and statistically simulation-sound NIZK. We give a construction of the latter in bilinear groups and combining it with ElGamal encryption, our ciphertexts are of size 1.3 kB at a 128-bit security level and can be computed on a smart card."}],"quality_controlled":"1","author":[{"id":"40297222-F248-11E8-B48F-1D18A9856A87","full_name":"Abusalah, Hamza M","last_name":"Abusalah","first_name":"Hamza M"},{"first_name":"Georg","last_name":"Fuchsbauer","full_name":"Fuchsbauer, Georg","id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Pietrzak","full_name":"Pietrzak, Krzysztof Z","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"83"}]},"publication_status":"published","date_published":"2016-06-09T00:00:00Z","date_updated":"2026-07-29T13:38:08Z","ec_funded":1,"status":"public","file_date_updated":"2020-07-14T12:44:39Z","ddc":["005","600"],"publisher":"Springer","publist_id":"6105","intvolume":"      9696","citation":{"ista":"Abusalah HM, Fuchsbauer G, Pietrzak KZ. 2016. Offline witness encryption. ACNS: Applied Cryptography and Network Security, LNCS, vol. 9696, 285–303.","apa":"Abusalah, H. M., Fuchsbauer, G., &#38; Pietrzak, K. Z. (2016). Offline witness encryption (Vol. 9696, pp. 285–303). Presented at the ACNS: Applied Cryptography and Network Security, Guildford, UK: Springer. <a href=\"https://doi.org/10.1007/978-3-319-39555-5_16\">https://doi.org/10.1007/978-3-319-39555-5_16</a>","chicago":"Abusalah, Hamza M, Georg Fuchsbauer, and Krzysztof Z Pietrzak. “Offline Witness Encryption,” 9696:285–303. Springer, 2016. <a href=\"https://doi.org/10.1007/978-3-319-39555-5_16\">https://doi.org/10.1007/978-3-319-39555-5_16</a>.","ama":"Abusalah HM, Fuchsbauer G, Pietrzak KZ. Offline witness encryption. In: Vol 9696. Springer; 2016:285-303. doi:<a href=\"https://doi.org/10.1007/978-3-319-39555-5_16\">10.1007/978-3-319-39555-5_16</a>","ieee":"H. M. Abusalah, G. Fuchsbauer, and K. Z. Pietrzak, “Offline witness encryption,” presented at the ACNS: Applied Cryptography and Network Security, Guildford, UK, 2016, vol. 9696, pp. 285–303.","short":"H.M. Abusalah, G. Fuchsbauer, K.Z. Pietrzak, in:, Springer, 2016, pp. 285–303.","mla":"Abusalah, Hamza M., et al. <i>Offline Witness Encryption</i>. Vol. 9696, Springer, 2016, pp. 285–303, doi:<a href=\"https://doi.org/10.1007/978-3-319-39555-5_16\">10.1007/978-3-319-39555-5_16</a>."},"scopus_import":"1","month":"06","day":"09","page":"285 - 303","title":"Offline witness encryption","acknowledgement":"Research  supported  by  the  European  Research  Council,  ERC  starting  grant (259668-PSPC) and ERC consolidator grant (682815 - TOCNeT).","oa_version":"Submitted Version","type":"conference","has_accepted_license":"1","language":[{"iso":"eng"}],"alternative_title":["LNCS"],"date_created":"2018-12-11T11:50:50Z","pubrep_id":"765","doi":"10.1007/978-3-319-39555-5_16","department":[{"_id":"KrPi"}],"file":[{"checksum":"34fa9ce681da845a1ba945ba3dc57867","content_type":"application/pdf","creator":"system","access_level":"open_access","date_created":"2018-12-12T10:17:20Z","file_size":515000,"date_updated":"2020-07-14T12:44:39Z","relation":"main_file","file_name":"IST-2017-765-v1+1_838.pdf","file_id":"5273"}]},{"scopus_import":"1","citation":{"ieee":"H. M. Abusalah, G. Fuchsbauer, and K. Z. Pietrzak, “Constrained PRFs for unbounded inputs,” presented at the CT-RSA: Topics in Cryptology, San Francisco, CA, USA, 2016, vol. 9610, pp. 413–428.","short":"H.M. Abusalah, G. Fuchsbauer, K.Z. Pietrzak, in:, Springer, 2016, pp. 413–428.","mla":"Abusalah, Hamza M., et al. <i>Constrained PRFs for Unbounded Inputs</i>. Vol. 9610, Springer, 2016, pp. 413–28, doi:<a href=\"https://doi.org/10.1007/978-3-319-29485-8_24\">10.1007/978-3-319-29485-8_24</a>.","ista":"Abusalah HM, Fuchsbauer G, Pietrzak KZ. 2016. Constrained PRFs for unbounded inputs. CT-RSA: Topics in Cryptology, LNCS, vol. 9610, 413–428.","apa":"Abusalah, H. M., Fuchsbauer, G., &#38; Pietrzak, K. Z. (2016). Constrained PRFs for unbounded inputs (Vol. 9610, pp. 413–428). Presented at the CT-RSA: Topics in Cryptology, San Francisco, CA, USA: Springer. <a href=\"https://doi.org/10.1007/978-3-319-29485-8_24\">https://doi.org/10.1007/978-3-319-29485-8_24</a>","chicago":"Abusalah, Hamza M, Georg Fuchsbauer, and Krzysztof Z Pietrzak. “Constrained PRFs for Unbounded Inputs,” 9610:413–28. Springer, 2016. <a href=\"https://doi.org/10.1007/978-3-319-29485-8_24\">https://doi.org/10.1007/978-3-319-29485-8_24</a>.","ama":"Abusalah HM, Fuchsbauer G, Pietrzak KZ. Constrained PRFs for unbounded inputs. In: Vol 9610. Springer; 2016:413-428. doi:<a href=\"https://doi.org/10.1007/978-3-319-29485-8_24\">10.1007/978-3-319-29485-8_24</a>"},"intvolume":"      9610","month":"02","ddc":["005","600"],"file_date_updated":"2020-07-14T12:44:41Z","status":"public","publist_id":"6097","publisher":"Springer","date_created":"2018-12-11T11:50:52Z","alternative_title":["LNCS"],"pubrep_id":"764","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"conference","file":[{"content_type":"application/pdf","checksum":"3851cee49933ae13b1272e516f213e13","creator":"system","date_created":"2018-12-12T10:08:05Z","access_level":"open_access","file_name":"IST-2017-764-v1+1_279.pdf","relation":"main_file","file_size":495176,"date_updated":"2020-07-14T12:44:41Z","file_id":"4664"}],"doi":"10.1007/978-3-319-29485-8_24","department":[{"_id":"KrPi"}],"acknowledgement":"Supported by the European Research Council, ERC Starting Grant (259668-PSPC).","title":"Constrained PRFs for unbounded inputs","page":"413 - 428","day":"02","oa_version":"Submitted Version","conference":{"end_date":"2016-03-04","start_date":"2016-02-29","location":"San Francisco, CA, USA","name":"CT-RSA: Topics in Cryptology"},"fulldoi":"https://doi.org/10.1007/978-3-319-29485-8_24","volume":9610,"article_processing_charge":"No","oa":1,"project":[{"call_identifier":"FP7","name":"Provable Security for Physical Cryptography","_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668"}],"publication_status":"published","date_updated":"2026-07-29T13:38:07Z","ec_funded":1,"date_published":"2016-02-02T00:00:00Z","external_id":{"isi":["000374102500024"]},"isi":1,"_id":"1236","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2016","related_material":{"record":[{"status":"public","id":"83","relation":"dissertation_contains"}]},"author":[{"first_name":"Hamza M","last_name":"Abusalah","full_name":"Abusalah, Hamza M","id":"40297222-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Fuchsbauer","full_name":"Fuchsbauer, Georg","first_name":"Georg","id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87"},{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","last_name":"Pietrzak","full_name":"Pietrzak, Krzysztof Z","first_name":"Krzysztof Z"}],"quality_controlled":"1","abstract":[{"lang":"eng","text":"A constrained pseudorandom function F: K × X → Y for a family T ⊆ 2X of subsets of X is a function where for any key k ∈ K and set S ∈ T one can efficiently compute a constrained key kS which allows to evaluate F (k, ·) on all inputs x ∈ S, while even given this key, the outputs on all inputs x ∉ S look random. At Asiacrypt’13 Boneh and Waters gave a construction which supports the most general set family so far. Its keys kc are defined for sets decided by boolean circuits C and enable evaluation of the PRF on any x ∈ X where C(x) = 1. In their construction the PRF input length and the size of the circuits C for which constrained keys can be computed must be fixed beforehand during key generation. We construct a constrained PRF that has an unbounded input length and whose constrained keys can be defined for any set recognized by a Turing machine. The only a priori bound we make is on the description size of the machines. We prove our construction secure assuming publiccoin differing-input obfuscation. As applications of our constrained PRF we build a broadcast encryption scheme where the number of potential receivers need not be fixed at setup (in particular, the length of the keys is independent of the number of parties) and the first identity-based non-interactive key exchange protocol with no bound on the number of parties that can agree on a shared key."}]},{"oa_version":"Submitted Version","acknowledgement":"H. Abusalah—Research supported by the European Research Council, ERC starting grant (259668-PSPC) and ERC consolidator grant (682815 - TOCNeT).","title":"Constrained PRFs for unbounded inputs with short keys","page":"445 - 463","day":"01","doi":"10.1007/978-3-319-39555-5_24","department":[{"_id":"KrPi"}],"alternative_title":["LNCS"],"date_created":"2018-12-11T11:50:52Z","language":[{"iso":"eng"}],"type":"conference","publist_id":"6098","publisher":"Springer","status":"public","month":"01","scopus_import":"1","citation":{"mla":"Abusalah, Hamza M., and Georg Fuchsbauer. <i>Constrained PRFs for Unbounded Inputs with Short Keys</i>. Vol. 9696, Springer, 2016, pp. 445–63, doi:<a href=\"https://doi.org/10.1007/978-3-319-39555-5_24\">10.1007/978-3-319-39555-5_24</a>.","ieee":"H. M. Abusalah and G. Fuchsbauer, “Constrained PRFs for unbounded inputs with short keys,” presented at the ACNS: Applied Cryptography and Network Security, Guildford, UK, 2016, vol. 9696, pp. 445–463.","short":"H.M. Abusalah, G. Fuchsbauer, in:, Springer, 2016, pp. 445–463.","chicago":"Abusalah, Hamza M, and Georg Fuchsbauer. “Constrained PRFs for Unbounded Inputs with Short Keys,” 9696:445–63. Springer, 2016. <a href=\"https://doi.org/10.1007/978-3-319-39555-5_24\">https://doi.org/10.1007/978-3-319-39555-5_24</a>.","apa":"Abusalah, H. M., &#38; Fuchsbauer, G. (2016). Constrained PRFs for unbounded inputs with short keys (Vol. 9696, pp. 445–463). Presented at the ACNS: Applied Cryptography and Network Security, Guildford, UK: Springer. <a href=\"https://doi.org/10.1007/978-3-319-39555-5_24\">https://doi.org/10.1007/978-3-319-39555-5_24</a>","ama":"Abusalah HM, Fuchsbauer G. Constrained PRFs for unbounded inputs with short keys. In: Vol 9696. Springer; 2016:445-463. doi:<a href=\"https://doi.org/10.1007/978-3-319-39555-5_24\">10.1007/978-3-319-39555-5_24</a>","ista":"Abusalah HM, Fuchsbauer G. 2016. Constrained PRFs for unbounded inputs with short keys. ACNS: Applied Cryptography and Network Security, LNCS, vol. 9696, 445–463."},"intvolume":"      9696","related_material":{"record":[{"id":"83","status":"public","relation":"dissertation_contains"}]},"author":[{"full_name":"Abusalah, Hamza M","last_name":"Abusalah","first_name":"Hamza M","id":"40297222-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Fuchsbauer","full_name":"Fuchsbauer, Georg","first_name":"Georg","id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87"}],"quality_controlled":"1","abstract":[{"text":"A constrained pseudorandom function (CPRF) F: K×X → Y for a family T of subsets of χ is a function where for any key k ∈ K and set S ∈ T one can efficiently compute a short constrained key kS, which allows to evaluate F(k, ·) on all inputs x ∈ S, while the outputs on all inputs x /∈ S look random even given kS. Abusalah et al. recently constructed the first constrained PRF for inputs of arbitrary length whose sets S are decided by Turing machines. They use their CPRF to build broadcast encryption and the first ID-based non-interactive key exchange for an unbounded number of users. Their constrained keys are obfuscated circuits and are therefore large. In this work we drastically reduce the key size and define a constrained key for a Turing machine M as a short signature on M. For this, we introduce a new signature primitive with constrained signing keys that let one only sign certain messages, while forging a signature on others is hard even when knowing the coins for key generation.","lang":"eng"}],"external_id":{"isi":["000386324500024"]},"isi":1,"_id":"1235","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2016","date_updated":"2026-07-29T13:38:07Z","ec_funded":1,"date_published":"2016-01-01T00:00:00Z","publication_status":"published","project":[{"_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","call_identifier":"FP7","name":"Provable Security for Physical Cryptography"},{"_id":"258AA5B2-B435-11E9-9278-68D0E5697425","grant_number":"682815","call_identifier":"H2020","name":"Teaching Old Crypto New Tricks"}],"main_file_link":[{"url":"https://eprint.iacr.org/2016/279.pdf","open_access":"1"}],"article_processing_charge":"No","oa":1,"conference":{"end_date":"2016-06-22","start_date":"2016-06-19","location":"Guildford, UK","name":"ACNS: Applied Cryptography and Network Security"},"volume":9696,"fulldoi":"https://doi.org/10.1007/978-3-319-39555-5_24"},{"fulldoi":"https://doi.org/10.15479/AT:ISTA:TH_526 ","supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","oa":1,"publication_status":"published","date_updated":"2026-07-30T14:56:14Z","date_published":"2016-02-18T00:00:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","OA_place":"publisher","year":"2016","_id":"1398","abstract":[{"text":"Hybrid zones represent evolutionary laboratories, where recombination brings together alleles in combinations which have not previously been tested by selection. This provides an excellent opportunity to test the effect of molecular variation on fitness, and how this variation is able to spread through populations in a natural context. The snapdragon Antirrhinum majus is polymorphic in the wild for two loci controlling the distribution of yellow and magenta floral pigments. Where the yellow A. m. striatum and the magenta A. m. pseudomajus meet along a valley in the Spanish Pyrenees they form a stable hybrid zone Alleles at these loci recombine to give striking transgressive variation for flower colour. The sharp transition in phenotype over ~1km implies strong selection maintaining the hybrid zone. An indirect assay of pollinator visitation in the field found that pollinators forage in a positive-frequency dependent manner on Antirrhinum, matching previous data on fruit set. Experimental arrays and paternity analysis of wild-pollinated seeds demonstrated assortative mating for pigmentation alleles, and that pollinator behaviour alone is sufficient to explain this pattern. Selection by pollinators should be sufficiently strong to maintain the hybrid zone, although other mechanisms may be at work. At a broader scale I examined evolutionary transitions between yellow and anthocyanin pigmentation in the tribe Antirrhinae, and found that selection has acted strate that pollinators are a major determinant of reproductive success and mating patterns in wild Antirrhinum.","lang":"eng"}],"related_material":{"record":[{"id":"5553","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"5551"},{"status":"public","id":"5552","relation":"part_of_dissertation"}]},"author":[{"first_name":"Thomas","last_name":"Ellis","full_name":"Ellis, Thomas","orcid":"0000-0002-8511-0254","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87"}],"doi_confirm":"1","citation":{"ista":"Ellis T. 2016. The role of pollinator-mediated selection in the maintenance of a flower color polymorphism in an Antirrhinum majus hybrid zone. Institute of Science and Technology Austria.","ama":"Ellis T. The role of pollinator-mediated selection in the maintenance of a flower color polymorphism in an Antirrhinum majus hybrid zone. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_526 \">10.15479/AT:ISTA:TH_526 </a>","apa":"Ellis, T. (2016). <i>The role of pollinator-mediated selection in the maintenance of a flower color polymorphism in an Antirrhinum majus hybrid zone</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_526 \">https://doi.org/10.15479/AT:ISTA:TH_526 </a>","chicago":"Ellis, Thomas. “The Role of Pollinator-Mediated Selection in the Maintenance of a Flower Color Polymorphism in an Antirrhinum Majus Hybrid Zone.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_526 \">https://doi.org/10.15479/AT:ISTA:TH_526 </a>.","short":"T. Ellis, The Role of Pollinator-Mediated Selection in the Maintenance of a Flower Color Polymorphism in an Antirrhinum Majus Hybrid Zone, Institute of Science and Technology Austria, 2016.","ieee":"T. Ellis, “The role of pollinator-mediated selection in the maintenance of a flower color polymorphism in an Antirrhinum majus hybrid zone,” Institute of Science and Technology Austria, 2016.","mla":"Ellis, Thomas. <i>The Role of Pollinator-Mediated Selection in the Maintenance of a Flower Color Polymorphism in an Antirrhinum Majus Hybrid Zone</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_526 \">10.15479/AT:ISTA:TH_526 </a>."},"degree_awarded":"PhD","month":"02","corr_author":"1","file_date_updated":"2025-07-03T06:24:39Z","status":"public","ddc":["576"],"publisher":"Institute of Science and Technology Austria","publist_id":"5809","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"dissertation","alternative_title":["ISTA Thesis"],"date_created":"2018-12-11T11:51:47Z","pubrep_id":"526","file":[{"access_level":"open_access","date_created":"2025-07-03T06:24:17Z","file_id":"19957","file_name":"2016_Thesis_Ellis_noSignatures.pdf","date_updated":"2025-07-03T06:24:17Z","relation":"main_file","file_size":7590862,"creator":"dernst","checksum":"f0f7c260e19ec1416824b165afe2d5fd","content_type":"application/pdf"},{"file_id":"5106","date_updated":"2025-07-03T06:24:39Z","file_size":11928241,"relation":"main_file","file_name":"IST-2016-526-v1+1_Ellis_signed_thesis.pdf","date_created":"2018-12-12T10:14:51Z","access_level":"closed","creator":"system","checksum":"a89b17ff27cf92c9a15f6b3d46bd7e53","content_type":"application/pdf"}],"department":[{"_id":"NiBa"},{"_id":"GradSch"}],"doi":"10.15479/AT:ISTA:TH_526 ","page":"130","title":"The role of pollinator-mediated selection in the maintenance of a flower color polymorphism in an Antirrhinum majus hybrid zone","day":"18","publication_identifier":{"issn":["2663-337X"]},"acknowledgement":"I am indebted to many people for their support during my PhD, but I particularly wish to thank Nick Barton for his guidance and intuition, and for encouraging me to take the time to look beyond the immediate topic of my PhD to understand the broader context. I am also especially grateful to David Field his bottomless patience, invaluable advice on experimental design, analysis and scientific writing, and for tireless work on the population surveys and genomic work without most of my thesis could not have happened. \r\n\r\nIt has been a pleasure to work with the combined strengths of the groups at The John Innes Centre, University of Toulouse and IST Austria. Thanks to Enrico Coen and his group for hosting me in Norwich in 2011 and especially for setting up the tag experiment. \r\n\r\nI thank David Field, Desmond Bradley and Maria Clara Melo-Hurtado for organising field collections, as well as Monique Burrus and Christophe Andalo and a large number of volunteers for their e ff orts helping with the field work. Furthermore I thank Coline Jaworski for providing seeds and for her input into the design of the experimental arrays, and Matthew Couchman for maintaining the database of. \r\n\r\nIn addition to those mentioned above, I am grateful to Melinda Pickup, Spencer Barrett, and four anonymous reviewers for their insightful comments on sections of this manuscript. I also thank Jana Porsche for her e ff orts in tracking down the more obscure references for chapter 5, and Jon Bollback for his advice about the analysis. \r\n\r\nI am indebted to Jon Ågren for his patience whilst I finished this thesis, and to Sylvia Cremer and Magnus Nordborg for taking the time to read and evaluate the thesis given a shorter deadline than was fair. \r\n\r\nA very positive aspect of my PhD has been the supportive atmosphere of IST. In particular, I have come to appreciate the enormous support from our group assistants Nicole Hotzy, Julia Asimakis, Christine Ostermann and Jerneja Beslagic. I also thank Christian Chaloupka and Stefan Hipfinger for their enthusiasm and readiness to help where possible in setting up our greenhouse and experiments. ","oa_version":"Published Version"},{"_id":"5553","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012","year":"2016","day":"19","oa_version":"Published Version","related_material":{"record":[{"id":"1398","status":"public","relation":"dissertation_contains"}]},"author":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4014-8478","full_name":"Field, David","last_name":"Field","first_name":"David"},{"id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8511-0254","last_name":"Ellis","full_name":"Ellis, Thomas","first_name":"Thomas"}],"abstract":[{"lang":"eng","text":"Genotypic, phenotypic and demographic data for 2128 wild snapdragons and 1127 open-pollinated progeny from a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted) February 2016).\r\n\r\nTissue samples were sent to LGC Genomics in Berlin for DNA extraction, and genotyping at 70 SNP markers by KASPR genotyping. 29 of these SNPs failed to amplify reliably, and have been removed from this dataset.\r\n\r\nOther data were retreived from an online database of this population at www.antspec.org."}],"datarep_id":"37","contributor":[{"last_name":"Barton","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","contributor_type":"project_manager","orcid":"0000-0002-8548-5240"}],"date_created":"2018-12-12T12:31:30Z","type":"research_data","has_accepted_license":"1","date_updated":"2026-07-30T14:56:13Z","date_published":"2016-02-19T00:00:00Z","file":[{"creator":"system","content_type":"application/zip","checksum":"4ae751b1fa4897fa216241f975a57313","file_id":"5620","file_name":"IST-2016-37-v1+1_paternity_archive.zip","relation":"main_file","file_size":132808,"date_updated":"2020-07-14T12:47:01Z","access_level":"open_access","date_created":"2018-12-12T13:03:02Z"}],"doi":"10.15479/AT:ISTA:37","department":[{"_id":"NiBa"}],"ddc":["576"],"file_date_updated":"2020-07-14T12:47:01Z","status":"public","keyword":["paternity assignment","pedigree","matting patterns","assortative mating","Antirrhinum majus","frequency-dependent selection","plant-pollinator interaction"],"publisher":"Institute of Science and Technology Austria","tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"citation":{"chicago":"Field, David, and Thomas Ellis. “Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:37\">https://doi.org/10.15479/AT:ISTA:37</a>.","apa":"Field, D., &#38; Ellis, T. (2016). Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:37\">https://doi.org/10.15479/AT:ISTA:37</a>","ama":"Field D, Ellis T. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>","ista":"Field D, Ellis T. 2016. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>.","mla":"Field, David, and Thomas Ellis. <i>Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>.","ieee":"D. Field and T. Ellis, “Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012.” Institute of Science and Technology Austria, 2016.","short":"D. Field, T. Ellis, (2016)."},"fulldoi":"https://doi.org/10.15479/AT:ISTA:37","month":"02","article_processing_charge":"No","oa":1},{"contributor":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","first_name":"David","last_name":"Field"},{"orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","last_name":"Barton"}],"abstract":[{"lang":"eng","text":"Data from array experiments investigating pollinator behaviour on snapdragons in controlled conditions, and their effect on plant mating. Data were collected as part of Tom Ellis' PhD thesis , submitted February 2016.\r\n\r\nWe placed a total of 36 plants in a grid inside a closed organza tent, with a single hive of commercially bred bumblebees (Bombus hortorum). We used only the yellow-flowered Antirrhinum majus striatum and the magenta-flowered Antirrhinum majus pseudomajus, at ratios of 6:36, 12:24, 18:18, 24:12 and 30:6.\r\n\r\nAfter 24 hours to learn how to deal with snapdragons, I observed pollinators foraging on plants, and recorded the transitions between plants. Thereafter seeds on plants were allowed to develops. A sample of these were grown to maturity when their flower colour could be determined, and they were scored as yellow, magenta, or hybrid."}],"datarep_id":"35","oa_version":"Published Version","related_material":{"record":[{"status":"public","id":"1398","relation":"dissertation_contains"}]},"author":[{"last_name":"Ellis","full_name":"Ellis, Thomas","first_name":"Thomas","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8511-0254"}],"title":"Data on pollinator observations and offpsring phenotypes","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"19","year":"2016","_id":"5551","file":[{"creator":"system","checksum":"aa3eb85d52b110cd192aa23147c4d4f3","content_type":"application/zip","access_level":"open_access","date_created":"2018-12-12T13:05:12Z","file_id":"5640","file_name":"IST-2016-35-v1+1_array_data.zip","date_updated":"2020-07-14T12:47:01Z","file_size":32775,"relation":"main_file"}],"department":[{"_id":"NiBa"}],"doi":"10.15479/AT:ISTA:35","date_updated":"2026-07-30T14:56:13Z","date_published":"2016-02-19T00:00:00Z","type":"research_data","has_accepted_license":"1","date_created":"2018-12-12T12:31:29Z","publisher":"Institute of Science and Technology Austria","file_date_updated":"2020-07-14T12:47:01Z","status":"public","article_processing_charge":"No","oa":1,"month":"02","fulldoi":"https://doi.org/10.15479/AT:ISTA:35","tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"citation":{"ama":"Ellis T. Data on pollinator observations and offpsring phenotypes. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>","chicago":"Ellis, Thomas. “Data on Pollinator Observations and Offpsring Phenotypes.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:35\">https://doi.org/10.15479/AT:ISTA:35</a>.","apa":"Ellis, T. (2016). Data on pollinator observations and offpsring phenotypes. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:35\">https://doi.org/10.15479/AT:ISTA:35</a>","ista":"Ellis T. 2016. Data on pollinator observations and offpsring phenotypes, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>.","mla":"Ellis, Thomas. <i>Data on Pollinator Observations and Offpsring Phenotypes</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>.","ieee":"T. Ellis, “Data on pollinator observations and offpsring phenotypes.” Institute of Science and Technology Austria, 2016.","short":"T. Ellis, (2016)."}},{"file_date_updated":"2020-07-14T12:47:01Z","status":"public","publisher":"Institute of Science and Technology Austria","fulldoi":"https://doi.org/10.15479/AT:ISTA:36","citation":{"ieee":"T. Ellis, “Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data.” Institute of Science and Technology Austria, 2016.","short":"T. Ellis, (2016).","mla":"Ellis, Thomas. <i>Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data.</i> Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>.","ista":"Ellis T. 2016. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data., Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>.","ama":"Ellis T. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>","chicago":"Ellis, Thomas. “Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:36\">https://doi.org/10.15479/AT:ISTA:36</a>.","apa":"Ellis, T. (2016). Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:36\">https://doi.org/10.15479/AT:ISTA:36</a>"},"oa":1,"article_processing_charge":"No","month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data.","year":"2016","day":"19","_id":"5552","abstract":[{"lang":"eng","text":"Data on pollinator visitation to wild snapdragons in a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted February 2016).\r\n\r\nSnapdragon flowers have a mouth-like structure which pollinators must open to access nectar. We placed 5mm cellophane tags in these mouths, which are held in place by the pressure of the flower until a pollinator visits. When she opens the flower, the tag drops out, and one can infer a visit. We surveyed plants over multiple days in 2010, 2011 and 2012.\r\n\r\nAlso included are data on phenotypic and demographic variables which may be explanatory variables for pollinator visitation."}],"contributor":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","last_name":"Field","first_name":"David"},{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"datarep_id":"36","related_material":{"record":[{"status":"public","id":"1398","relation":"dissertation_contains"}]},"oa_version":"Published Version","author":[{"last_name":"Ellis","full_name":"Ellis, Thomas","first_name":"Thomas","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8511-0254"}],"type":"research_data","has_accepted_license":"1","date_created":"2018-12-12T12:31:30Z","file":[{"date_created":"2018-12-12T13:03:07Z","access_level":"open_access","relation":"main_file","file_size":44905,"date_updated":"2020-07-14T12:47:01Z","file_name":"IST-2016-36-v1+1_tag_assay_archive.zip","file_id":"5625","content_type":"application/zip","checksum":"cbc61b523d4d475a04a737d50dc470ef","creator":"system"}],"doi":"10.15479/AT:ISTA:36","department":[{"_id":"NiBa"}],"date_updated":"2026-07-30T14:56:13Z","date_published":"2016-02-19T00:00:00Z"},{"pmid":1,"publication_status":"published","date_published":"2016-08-01T00:00:00Z","das_tickbox":"1","OA_type":"hybrid","date_updated":"2026-08-03T13:57:54Z","year":"2016","OA_place":"publisher","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","extern":"1","_id":"22574","external_id":{"pmid":["27774367"]},"abstract":[{"lang":"eng","text":"Ecosystem models often perform poorly in reproducing interannual variability in carbon and water fluxes, resulting in considerable uncertainty when estimating the land‐carbon sink. While many aggregated variables (growing season length, seasonal precipitation, or temperature) have been suggested as predictors for interannual variability in carbon fluxes, their explanatory power is limited and uncertainties remain as to their relative contributions. Recent results show that the annual count of hours where evapotranspiration (ET) is larger than its 95th percentile is strongly correlated with the annual variability of ET and gross primary production (GPP) in an ecosystem model. This suggests that the occurrence of favorable conditions has a strong influence on the annual carbon budget. Here we analyzed data from eight forest sites of the AmeriFlux network with at least 7 years of continuous measurements. We show that for ET and the carbon fluxes GPP, ecosystem respiration (RE), and net ecosystem production, counting the “most active hours/days” (i.e., hours/days when the flux exceeds a high percentile) correlates well with the respective annual sums, with correlation coefficients generally larger than 0.8. Phenological transitions have much weaker explanatory power. By exploiting the relationship between most active hours and interannual variability, we classify hours as most active or less active and largely explain interannual variability in ecosystem fluxes, particularly for GPP and RE. Our results suggest that a better understanding and modeling of the occurrence of large values in high‐frequency ecosystem fluxes will result in a better understanding of interannual variability of these fluxes."}],"quality_controlled":"1","publication":"Journal of Geophysical Research: Biogeosciences","author":[{"full_name":"Zscheischler, Jakob","last_name":"Zscheischler","first_name":"Jakob"},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","first_name":"Simone","last_name":"Fatichi","full_name":"Fatichi, Simone"},{"full_name":"Wolf, Sebastian","last_name":"Wolf","first_name":"Sebastian"},{"first_name":"Peter D.","full_name":"Blanken, Peter D.","last_name":"Blanken"},{"full_name":"Bohrer, Gil","last_name":"Bohrer","first_name":"Gil"},{"last_name":"Clark","full_name":"Clark, Kenneth","first_name":"Kenneth"},{"last_name":"Desai","full_name":"Desai, Ankur R.","first_name":"Ankur R."},{"full_name":"Hollinger, David","last_name":"Hollinger","first_name":"David"},{"full_name":"Keenan, Trevor","last_name":"Keenan","first_name":"Trevor"},{"first_name":"Kimberly A.","last_name":"Novick","full_name":"Novick, Kimberly A."},{"first_name":"Sonia I.","full_name":"Seneviratne, Sonia I.","last_name":"Seneviratne"}],"article_type":"original","fulldoi":"https://doi.org/10.1002/2016jg003503","volume":121,"tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"oa":1,"article_processing_charge":"No","main_file_link":[{"open_access":"1","url":" https://doi.org/10.1002/2016JG003503"}],"has_accepted_license":"1","type":"journal_article","language":[{"iso":"eng"}],"date_created":"2026-07-27T12:30:24Z","doi":"10.1002/2016jg003503","day":"01","page":"2186-2198","title":"Short‐term favorable weather conditions are an important control of interannual variability in carbon and water fluxes","publication_identifier":{"eissn":["2169-8961"],"issn":["2169-8953"]},"oa_version":"Published Version","intvolume":"       121","citation":{"short":"J. Zscheischler, S. Fatichi, S. Wolf, P.D. Blanken, G. Bohrer, K. Clark, A.R. Desai, D. Hollinger, T. Keenan, K.A. Novick, S.I. Seneviratne, Journal of Geophysical Research: Biogeosciences 121 (2016) 2186–2198.","ieee":"J. Zscheischler <i>et al.</i>, “Short‐term favorable weather conditions are an important control of interannual variability in carbon and water fluxes,” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 121, no. 8. American Geophysical Union, pp. 2186–2198, 2016.","mla":"Zscheischler, Jakob, et al. “Short‐term Favorable Weather Conditions Are an Important Control of Interannual Variability in Carbon and Water Fluxes.” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 121, no. 8, American Geophysical Union, 2016, pp. 2186–98, doi:<a href=\"https://doi.org/10.1002/2016jg003503\">10.1002/2016jg003503</a>.","ista":"Zscheischler J, Fatichi S, Wolf S, Blanken PD, Bohrer G, Clark K, Desai AR, Hollinger D, Keenan T, Novick KA, Seneviratne SI. 2016. Short‐term favorable weather conditions are an important control of interannual variability in carbon and water fluxes. Journal of Geophysical Research: Biogeosciences. 121(8), 2186–2198.","chicago":"Zscheischler, Jakob, Simone Fatichi, Sebastian Wolf, Peter D. Blanken, Gil Bohrer, Kenneth Clark, Ankur R. Desai, et al. “Short‐term Favorable Weather Conditions Are an Important Control of Interannual Variability in Carbon and Water Fluxes.” <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union, 2016. <a href=\"https://doi.org/10.1002/2016jg003503\">https://doi.org/10.1002/2016jg003503</a>.","apa":"Zscheischler, J., Fatichi, S., Wolf, S., Blanken, P. D., Bohrer, G., Clark, K., … Seneviratne, S. I. (2016). Short‐term favorable weather conditions are an important control of interannual variability in carbon and water fluxes. <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2016jg003503\">https://doi.org/10.1002/2016jg003503</a>","ama":"Zscheischler J, Fatichi S, Wolf S, et al. Short‐term favorable weather conditions are an important control of interannual variability in carbon and water fluxes. <i>Journal of Geophysical Research: Biogeosciences</i>. 2016;121(8):2186-2198. doi:<a href=\"https://doi.org/10.1002/2016jg003503\">10.1002/2016jg003503</a>"},"scopus_import":"1","month":"08","status":"public","issue":"8","ddc":["550"],"publisher":"American Geophysical Union"},{"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"title":"Modeling terrestrial carbon and water dynamics across climatic gradients: does plant trait diversity matter?","page":"137-151","day":"01","oa_version":"Published Version","date_created":"2026-07-27T12:30:24Z","language":[{"iso":"eng"}],"type":"journal_article","doi":"10.1111/nph.13590","issue":"1","status":"public","keyword":["aggregation biases","carbon andwater dynamics","fallacy of averages","inter-and intraspecific plant trait diversity","plantfunctional types (PFTs)","plant trait spectra","vegetation modeling"],"publisher":"Wiley","scopus_import":"1","citation":{"short":"C. Pappas, S. Fatichi, P. Burlando, New Phytologist 209 (2016) 137–151.","ieee":"C. Pappas, S. Fatichi, and P. Burlando, “Modeling terrestrial carbon and water dynamics across climatic gradients: does plant trait diversity matter?,” <i>New Phytologist</i>, vol. 209, no. 1. Wiley, pp. 137–151, 2016.","mla":"Pappas, Christoforos, et al. “Modeling Terrestrial Carbon and Water Dynamics across Climatic Gradients: Does Plant Trait Diversity Matter?” <i>New Phytologist</i>, vol. 209, no. 1, Wiley, 2016, pp. 137–51, doi:<a href=\"https://doi.org/10.1111/nph.13590\">10.1111/nph.13590</a>.","ista":"Pappas C, Fatichi S, Burlando P. 2016. Modeling terrestrial carbon and water dynamics across climatic gradients: does plant trait diversity matter? New Phytologist. 209(1), 137–151.","chicago":"Pappas, Christoforos, Simone Fatichi, and Paolo Burlando. “Modeling Terrestrial Carbon and Water Dynamics across Climatic Gradients: Does Plant Trait Diversity Matter?” <i>New Phytologist</i>. Wiley, 2016. <a href=\"https://doi.org/10.1111/nph.13590\">https://doi.org/10.1111/nph.13590</a>.","apa":"Pappas, C., Fatichi, S., &#38; Burlando, P. (2016). Modeling terrestrial carbon and water dynamics across climatic gradients: does plant trait diversity matter? <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.13590\">https://doi.org/10.1111/nph.13590</a>","ama":"Pappas C, Fatichi S, Burlando P. Modeling terrestrial carbon and water dynamics across climatic gradients: does plant trait diversity matter? <i>New Phytologist</i>. 2016;209(1):137-151. doi:<a href=\"https://doi.org/10.1111/nph.13590\">10.1111/nph.13590</a>"},"intvolume":"       209","month":"01","external_id":{"pmid":["26389742"]},"_id":"22503","OA_place":"publisher","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2016","article_type":"original","author":[{"first_name":"Christoforos","last_name":"Pappas","full_name":"Pappas, Christoforos"},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","first_name":"Simone","full_name":"Fatichi, Simone","last_name":"Fatichi"},{"last_name":"Burlando","full_name":"Burlando, Paolo","first_name":"Paolo"}],"quality_controlled":"1","publication":"New Phytologist","abstract":[{"text":"Plant trait diversity in many vegetation models is crudely represented using a discrete classification of a handful of ‘plant types’ (named plant functional types; PFTs). The parameterization of PFTs reflects mean properties of observed plant traits over broad categories ignoring most of the inter‐ and intraspecific plant trait variability.\r\n\r\nTaking advantage of a multivariate leaf‐trait distribution (leaf economics spectrum), as well as documented plant drought strategies, we generate an ensemble of hypothetical species with coordinated attributes, rather than using few PFTs. The behavior of these proxy species is tested using a mechanistic ecohydrological model that translates plant traits into plant performance. Simulations are carried out for a range of climates representative of different elevations and wetness conditions in the European Alps. Using this framework we investigate the sensitivity of ecosystem response to plant trait diversity and compare it with the sensitivity to climate variability.\r\n\r\nPlant trait diversity leads to highly divergent vegetation carbon dynamics (fluxes and pools) and to a lesser extent water fluxes (transpiration). Abiotic variables, such as soil water content and evaporation, are only marginally affected.\r\n\r\nThese results highlight the need for revising the representation of plant attributes in vegetation models. Probabilistic approaches, based on observed multivariate whole‐plant trait distributions, provide a viable alternative.","lang":"eng"}],"publication_status":"published","pmid":1,"date_updated":"2026-08-03T14:15:57Z","OA_type":"free access","das_tickbox":"1","date_published":"2016-01-01T00:00:00Z","volume":209,"fulldoi":"https://doi.org/10.1111/nph.13590","main_file_link":[{"open_access":"1","url":" https://doi.org/10.1111/nph.13590"}],"oa":1,"article_processing_charge":"No"},{"year":"2016","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","_id":"22510","abstract":[{"text":"This study advances mechanistic interpretation of predictability challenges in hydro-geomorphology related to the role of soil moisture spatial variability. Using model formulations describing the physics of overland flow, variably saturated subsurface flow, and erosion and sediment transport, this study explores (1) why a basin with the same mean soil moisture can exhibit distinctly different spatial moisture distributions, (2) whether these varying distributions lead to non-unique hydro-geomorphic responses, and (3) what controls non-uniqueness in relation to the response type. Two sets of numerical experiments are carried out with two physically-based models, HYDRUS and tRIBS+VEGGIE+FEaST, and their outputs are analyzed with respect to pre-storm moisture state. The results demonstrate that distinct spatial moisture distributions for the same mean wetness arise because near-surface soil moisture dynamics exhibit different degrees of coupling with deeper-soil moisture and the process of subsurface drainage. The consequences of such variations are different depending on the type of hydrological response. Specifically, if the predominant runoff response is of infiltration excess type, the degree of non-uniqueness is related to the spatial distribution of near-surface moisture. If runoff is governed by subsurface stormflow, the extent of deep moisture contributing area and its “readiness to drain” determine the response characteristics. Because the processes of erosion and sediment transport superimpose additional controls over factors governing runoff generation and overland flow, non-uniqueness of the geomorphic response can be highly dampened or enhanced. The explanation is sediment composed by multi-size particles can alternate states of mobilization or surface shielding and the transient behavior is inherently intertwined with the availability of mobile particles. We conclude that complex nonlinear dynamics of hydro-geomorphic processes are inherent expressions of physical interactions. As complete knowledge of watershed properties, states, or forcings will always present the ultimate, if ever resolvable, challenge, deterministic predictability will remain handicapped. Coupling of uncertainty quantification methods and space-time physics-based approaches will need to evolve to facilitate mechanistic interpretations and informed practical applications.","lang":"eng"}],"publication":"Advances in Water Resources","quality_controlled":"1","author":[{"first_name":"Jongho","full_name":"Kim, Jongho","last_name":"Kim"},{"first_name":"M. Chase","full_name":"Dwelle, M. Chase","last_name":"Dwelle"},{"full_name":"Kampf, Stephanie K.","last_name":"Kampf","first_name":"Stephanie K."},{"last_name":"Fatichi","full_name":"Fatichi, Simone","first_name":"Simone","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"first_name":"Valeriy Y.","last_name":"Ivanov","full_name":"Ivanov, Valeriy Y."}],"article_type":"original","publication_status":"published","das_tickbox":"1","date_published":"2016-07-01T00:00:00Z","OA_type":"closed access","date_updated":"2026-08-06T07:50:36Z","volume":92,"fulldoi":"https://doi.org/10.1016/j.advwatres.2016.03.019","article_processing_charge":"No","day":"01","title":"On the non-uniqueness of the hydro-geomorphic responses in a zero-order catchment with respect to soil moisture","page":"73-89","publication_identifier":{"issn":["0309-1708"]},"oa_version":"None","type":"journal_article","language":[{"iso":"eng"}],"date_created":"2026-07-27T12:30:24Z","doi":"10.1016/j.advwatres.2016.03.019","status":"public","publisher":"Elsevier","keyword":["Soil moisture","Spatial heterogeneity","Hydrological response","Geomorphic response","Non-uniqueness","Hydraulic connectivity"],"intvolume":"        92","citation":{"apa":"Kim, J., Dwelle, M. C., Kampf, S. K., Fatichi, S., &#38; Ivanov, V. Y. (2016). On the non-uniqueness of the hydro-geomorphic responses in a zero-order catchment with respect to soil moisture. <i>Advances in Water Resources</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.advwatres.2016.03.019\">https://doi.org/10.1016/j.advwatres.2016.03.019</a>","ama":"Kim J, Dwelle MC, Kampf SK, Fatichi S, Ivanov VY. On the non-uniqueness of the hydro-geomorphic responses in a zero-order catchment with respect to soil moisture. <i>Advances in Water Resources</i>. 2016;92:73-89. doi:<a href=\"https://doi.org/10.1016/j.advwatres.2016.03.019\">10.1016/j.advwatres.2016.03.019</a>","chicago":"Kim, Jongho, M. Chase Dwelle, Stephanie K. Kampf, Simone Fatichi, and Valeriy Y. Ivanov. “On the Non-Uniqueness of the Hydro-Geomorphic Responses in a Zero-Order Catchment with Respect to Soil Moisture.” <i>Advances in Water Resources</i>. Elsevier, 2016. <a href=\"https://doi.org/10.1016/j.advwatres.2016.03.019\">https://doi.org/10.1016/j.advwatres.2016.03.019</a>.","ista":"Kim J, Dwelle MC, Kampf SK, Fatichi S, Ivanov VY. 2016. On the non-uniqueness of the hydro-geomorphic responses in a zero-order catchment with respect to soil moisture. Advances in Water Resources. 92, 73–89.","mla":"Kim, Jongho, et al. “On the Non-Uniqueness of the Hydro-Geomorphic Responses in a Zero-Order Catchment with Respect to Soil Moisture.” <i>Advances in Water Resources</i>, vol. 92, Elsevier, 2016, pp. 73–89, doi:<a href=\"https://doi.org/10.1016/j.advwatres.2016.03.019\">10.1016/j.advwatres.2016.03.019</a>.","short":"J. Kim, M.C. Dwelle, S.K. Kampf, S. Fatichi, V.Y. Ivanov, Advances in Water Resources 92 (2016) 73–89.","ieee":"J. Kim, M. C. Dwelle, S. K. Kampf, S. Fatichi, and V. Y. Ivanov, “On the non-uniqueness of the hydro-geomorphic responses in a zero-order catchment with respect to soil moisture,” <i>Advances in Water Resources</i>, vol. 92. Elsevier, pp. 73–89, 2016."},"scopus_import":"1","month":"07"},{"external_id":{"pmid":["27791074"]},"_id":"22536","extern":"1","OA_place":"publisher","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2016","article_type":"original","author":[{"last_name":"Fatichi","full_name":"Fatichi, Simone","first_name":"Simone","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"last_name":"Leuzinger","full_name":"Leuzinger, Sebastian","first_name":"Sebastian"},{"first_name":"Athanasios","last_name":"Paschalis","full_name":"Paschalis, Athanasios"},{"first_name":"J. Adam","full_name":"Langley, J. Adam","last_name":"Langley"},{"last_name":"Donnellan Barraclough","full_name":"Donnellan Barraclough, Alicia","first_name":"Alicia"},{"full_name":"Hovenden, Mark J.","last_name":"Hovenden","first_name":"Mark J."}],"publication":"Proceedings of the National Academy of Sciences","quality_controlled":"1","abstract":[{"text":"Increasing concentrations of atmospheric carbon dioxide are expected to affect carbon assimilation and evapotranspiration (ET), ultimately driving changes in plant growth, hydrology, and the global carbon balance. Direct leaf biochemical effects have been widely investigated, whereas indirect effects, although documented, elude explicit quantification in experiments. Here, we used a mechanistic model to investigate the relative contributions of direct (through carbon assimilation) and indirect (via soil moisture savings due to stomatal closure, and changes in leaf area index) effects of elevated CO2 across a variety of ecosystems. We specifically determined which ecosystems and climatic conditions maximize the indirect effects of elevated CO2. The simulations suggest that the indirect effects of elevated CO2 on net primary productivity are large and variable, ranging from less than 10% to more than 100% of the size of direct effects. For ET, indirect effects were, on average, 65% of the size of direct effects. Indirect effects tended to be considerably larger in water-limited ecosystems. As a consequence, the total CO2 effect had a significant, inverse relationship with the wetness index and was directly related to vapor pressure deficit. These results have major implications for our understanding of the CO2 response of ecosystems and for global projections of CO2 fertilization, because, although direct effects are typically understood and easily reproducible in models, simulations of indirect effects are far more challenging and difficult to constrain. Our findings also provide an explanation for the discrepancies between experiments in the total CO2 effect on net primary productivity.","lang":"eng"}],"publication_status":"published","pmid":1,"date_updated":"2026-08-06T08:08:46Z","OA_type":"free access","das_tickbox":"1","date_published":"2016-11-08T00:00:00Z","fulldoi":"https://doi.org/10.1073/pnas.1605036113","volume":113,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1605036113"}],"oa":1,"article_processing_charge":"No","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"page":"12757-12762","title":"Partitioning direct and indirect effects reveals the response of water-limited ecosystems to elevated CO","day":"08","oa_version":"Published Version","date_created":"2026-07-27T12:30:24Z","language":[{"iso":"eng"}],"type":"journal_article","doi":"10.1073/pnas.1605036113","issue":"45","status":"public","keyword":["carbon dioxide","modeling","FACE","soil moisture","evapotranspiration"],"publisher":"National Academy of Sciences","scopus_import":"1","citation":{"ieee":"S. Fatichi, S. Leuzinger, A. Paschalis, J. A. Langley, A. Donnellan Barraclough, and M. J. Hovenden, “Partitioning direct and indirect effects reveals the response of water-limited ecosystems to elevated CO,” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 45. National Academy of Sciences, pp. 12757–12762, 2016.","short":"S. Fatichi, S. Leuzinger, A. Paschalis, J.A. Langley, A. Donnellan Barraclough, M.J. Hovenden, Proceedings of the National Academy of Sciences 113 (2016) 12757–12762.","mla":"Fatichi, Simone, et al. “Partitioning Direct and Indirect Effects Reveals the Response of Water-Limited Ecosystems to Elevated CO.” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 45, National Academy of Sciences, 2016, pp. 12757–62, doi:<a href=\"https://doi.org/10.1073/pnas.1605036113\">10.1073/pnas.1605036113</a>.","ista":"Fatichi S, Leuzinger S, Paschalis A, Langley JA, Donnellan Barraclough A, Hovenden MJ. 2016. Partitioning direct and indirect effects reveals the response of water-limited ecosystems to elevated CO. Proceedings of the National Academy of Sciences. 113(45), 12757–12762.","chicago":"Fatichi, Simone, Sebastian Leuzinger, Athanasios Paschalis, J. Adam Langley, Alicia Donnellan Barraclough, and Mark J. Hovenden. “Partitioning Direct and Indirect Effects Reveals the Response of Water-Limited Ecosystems to Elevated CO.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2016. <a href=\"https://doi.org/10.1073/pnas.1605036113\">https://doi.org/10.1073/pnas.1605036113</a>.","apa":"Fatichi, S., Leuzinger, S., Paschalis, A., Langley, J. A., Donnellan Barraclough, A., &#38; Hovenden, M. J. (2016). Partitioning direct and indirect effects reveals the response of water-limited ecosystems to elevated CO. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1605036113\">https://doi.org/10.1073/pnas.1605036113</a>","ama":"Fatichi S, Leuzinger S, Paschalis A, Langley JA, Donnellan Barraclough A, Hovenden MJ. Partitioning direct and indirect effects reveals the response of water-limited ecosystems to elevated CO. <i>Proceedings of the National Academy of Sciences</i>. 2016;113(45):12757-12762. doi:<a href=\"https://doi.org/10.1073/pnas.1605036113\">10.1073/pnas.1605036113</a>"},"intvolume":"       113","month":"11"},{"month":"04","intvolume":"        47","citation":{"apa":"Hopp, L., Fatichi, S., &#38; Ivanov, V. Y. (2016). Simulating water flow in variably saturated soils: A comparison of a 3D model with approximation-based formulations. <i>Hydrology Research</i>. IWA Publishing. <a href=\"https://doi.org/10.2166/nh.2015.126\">https://doi.org/10.2166/nh.2015.126</a>","ama":"Hopp L, Fatichi S, Ivanov VY. Simulating water flow in variably saturated soils: A comparison of a 3D model with approximation-based formulations. <i>Hydrology Research</i>. 2016;47(2):274-290. doi:<a href=\"https://doi.org/10.2166/nh.2015.126\">10.2166/nh.2015.126</a>","chicago":"Hopp, Luisa, Simone Fatichi, and Valeriy Y. Ivanov. “Simulating Water Flow in Variably Saturated Soils: A Comparison of a 3D Model with Approximation-Based Formulations.” <i>Hydrology Research</i>. IWA Publishing, 2016. <a href=\"https://doi.org/10.2166/nh.2015.126\">https://doi.org/10.2166/nh.2015.126</a>.","ista":"Hopp L, Fatichi S, Ivanov VY. 2016. Simulating water flow in variably saturated soils: A comparison of a 3D model with approximation-based formulations. Hydrology Research. 47(2), 274–290.","mla":"Hopp, Luisa, et al. “Simulating Water Flow in Variably Saturated Soils: A Comparison of a 3D Model with Approximation-Based Formulations.” <i>Hydrology Research</i>, vol. 47, no. 2, IWA Publishing, 2016, pp. 274–90, doi:<a href=\"https://doi.org/10.2166/nh.2015.126\">10.2166/nh.2015.126</a>.","short":"L. Hopp, S. Fatichi, V.Y. Ivanov, Hydrology Research 47 (2016) 274–290.","ieee":"L. Hopp, S. Fatichi, and V. Y. Ivanov, “Simulating water flow in variably saturated soils: A comparison of a 3D model with approximation-based formulations,” <i>Hydrology Research</i>, vol. 47, no. 2. IWA Publishing, pp. 274–290, 2016."},"scopus_import":"1","publisher":"IWA Publishing","keyword":["hillslope hydrology","hydrologic modeling","parsimonious approximation","surface-subsurface hydrology"],"status":"public","issue":"2","doi":"10.2166/nh.2015.126","type":"journal_article","language":[{"iso":"eng"}],"date_created":"2026-07-27T12:30:24Z","oa_version":"Published Version","day":"01","page":"274-290","title":"Simulating water flow in variably saturated soils: A comparison of a 3D model with approximation-based formulations","publication_identifier":{"eissn":["2224-7955"],"issn":["1998-9563"]},"oa":1,"article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://doi.org/10.2166/nh.2015.126"}],"volume":47,"fulldoi":"https://doi.org/10.2166/nh.2015.126","date_published":"2016-04-01T00:00:00Z","das_tickbox":"1","date_updated":"2026-08-06T08:05:42Z","OA_type":"free access","publication_status":"published","abstract":[{"lang":"eng","text":"In hydrological models, variably saturated flow is often described using the Richards equation, either in a fully three-dimensional (3D) implementation or using a quasi-3D framework based on the 1D Richards equation for vertical flow and a flow-approximation for the other two dimensions. However, it is unclear in which configuration or under which boundary conditions these approximations can produce adequate estimates. In this study, two formulations with a quasi-3D approach are benchmarked against a fully 3D model (HYDRUS-3D). The formulations are: the Real-time Integrated Basin Simulator + VEGetation Generator for Interactive Evolution (tRIBS + VEGGIE) model that uses the Dupuit–Forchheimer assumption and the Tethys &amp; Chloris (T&amp;C) model that implements the kinematic approach. Effects of domain slope, hillslope size, event size and initial moisture conditions on simulated runoff and soil moisture dynamics are examined in event-based simulations at the hillslope scale. The Dupuit–Forchheimer assumption (tRIBS-VEGGIE) produces deviations from the HYDRUS-3D solutions only for simulations with initially dry soil. Using the kinematic approach (T&amp;C) results in deviations from the 3D solution primarily for the small hillslope domain in combination with a gentle slope angle. This applies especially to the partition between subsurface and surface runoff production, with T&amp;C being biased towards the latter. For all other cases investigated, the simpler formulations provide reasonable approximations of the 3D model."}],"quality_controlled":"1","publication":"Hydrology Research","article_type":"original","author":[{"full_name":"Hopp, Luisa","last_name":"Hopp","first_name":"Luisa"},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","last_name":"Fatichi","full_name":"Fatichi, Simone","first_name":"Simone"},{"first_name":"Valeriy Y.","last_name":"Ivanov","full_name":"Ivanov, Valeriy Y."}],"year":"2016","extern":"1","OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"22523"},{"doi":"10.1016/j.jhydrol.2016.03.026","language":[{"iso":"eng"}],"type":"journal_article","date_created":"2026-07-27T12:30:23Z","oa_version":"Accepted Version","title":"An overview of current applications, challenges, and future trends in distributed process-based models in hydrology","page":"45-60","day":"01","publication_identifier":{"issn":["0022-1694"],"eissn":["1879-2707"]},"month":"06","intvolume":"       537","scopus_import":"1","citation":{"ieee":"S. Fatichi <i>et al.</i>, “An overview of current applications, challenges, and future trends in distributed process-based models in hydrology,” <i>Journal of Hydrology</i>, vol. 537. Elsevier, pp. 45–60, 2016.","short":"S. Fatichi, E.R. Vivoni, F.L. Ogden, V.Y. Ivanov, B. Mirus, D. Gochis, C.W. Downer, M. Camporese, J.H. Davison, B. Ebel, N. Jones, J. Kim, G. Mascaro, R. Niswonger, P. Restrepo, R. Rigon, C. Shen, M. Sulis, D. Tarboton, Journal of Hydrology 537 (2016) 45–60.","mla":"Fatichi, Simone, et al. “An Overview of Current Applications, Challenges, and Future Trends in Distributed Process-Based Models in Hydrology.” <i>Journal of Hydrology</i>, vol. 537, Elsevier, 2016, pp. 45–60, doi:<a href=\"https://doi.org/10.1016/j.jhydrol.2016.03.026\">10.1016/j.jhydrol.2016.03.026</a>.","ista":"Fatichi S, Vivoni ER, Ogden FL, Ivanov VY, Mirus B, Gochis D, Downer CW, Camporese M, Davison JH, Ebel B, Jones N, Kim J, Mascaro G, Niswonger R, Restrepo P, Rigon R, Shen C, Sulis M, Tarboton D. 2016. An overview of current applications, challenges, and future trends in distributed process-based models in hydrology. Journal of Hydrology. 537, 45–60.","apa":"Fatichi, S., Vivoni, E. R., Ogden, F. L., Ivanov, V. Y., Mirus, B., Gochis, D., … Tarboton, D. (2016). An overview of current applications, challenges, and future trends in distributed process-based models in hydrology. <i>Journal of Hydrology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jhydrol.2016.03.026\">https://doi.org/10.1016/j.jhydrol.2016.03.026</a>","chicago":"Fatichi, Simone, Enrique R. Vivoni, Fred L. Ogden, Valeriy Y. Ivanov, Benjamin Mirus, David Gochis, Charles W. Downer, et al. “An Overview of Current Applications, Challenges, and Future Trends in Distributed Process-Based Models in Hydrology.” <i>Journal of Hydrology</i>. Elsevier, 2016. <a href=\"https://doi.org/10.1016/j.jhydrol.2016.03.026\">https://doi.org/10.1016/j.jhydrol.2016.03.026</a>.","ama":"Fatichi S, Vivoni ER, Ogden FL, et al. An overview of current applications, challenges, and future trends in distributed process-based models in hydrology. <i>Journal of Hydrology</i>. 2016;537:45-60. doi:<a href=\"https://doi.org/10.1016/j.jhydrol.2016.03.026\">10.1016/j.jhydrol.2016.03.026</a>"},"keyword":["Modeling","Interdisciplinary","Watershed processes","Virtual experiments","Change assessments","Natural and built environment"],"publisher":"Elsevier","status":"public","date_updated":"2026-08-11T06:17:23Z","OA_type":"green","date_published":"2016-06-01T00:00:00Z","das_tickbox":"1","publication_status":"published","quality_controlled":"1","publication":"Journal of Hydrology","abstract":[{"text":"Process-based hydrological models have a long history dating back to the 1960s. Criticized by some as over-parameterized, overly complex, and difficult to use, a more nuanced view is that these tools are necessary in many situations and, in a certain class of problems, they are the most appropriate type of hydrological model. This is especially the case in situations where knowledge of flow paths or distributed state variables and/or preservation of physical constraints is important. Examples of this include: spatiotemporal variability of soil moisture, groundwater flow and runoff generation, sediment and contaminant transport, or when feedbacks among various Earth’s system processes or understanding the impacts of climate non-stationarity are of primary concern. These are situations where process-based models excel and other models are unverifiable. This article presents this pragmatic view in the context of existing literature to justify the approach where applicable and necessary. We review how improvements in data availability, computational resources and algorithms have made detailed hydrological simulations a reality. Avenues for the future of process-based hydrological models are presented suggesting their use as virtual laboratories, for design purposes, and with a powerful treatment of uncertainty.","lang":"eng"}],"author":[{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","full_name":"Fatichi, Simone","last_name":"Fatichi","first_name":"Simone"},{"last_name":"Vivoni","full_name":"Vivoni, Enrique R.","first_name":"Enrique R."},{"full_name":"Ogden, Fred L.","last_name":"Ogden","first_name":"Fred L."},{"full_name":"Ivanov, Valeriy Y.","last_name":"Ivanov","first_name":"Valeriy Y."},{"first_name":"Benjamin","last_name":"Mirus","full_name":"Mirus, Benjamin"},{"first_name":"David","last_name":"Gochis","full_name":"Gochis, David"},{"last_name":"Downer","full_name":"Downer, Charles W.","first_name":"Charles W."},{"full_name":"Camporese, Matteo","last_name":"Camporese","first_name":"Matteo"},{"first_name":"Jason H.","full_name":"Davison, Jason H.","last_name":"Davison"},{"first_name":"Brian","last_name":"Ebel","full_name":"Ebel, Brian"},{"first_name":"Norm","full_name":"Jones, Norm","last_name":"Jones"},{"full_name":"Kim, Jongho","last_name":"Kim","first_name":"Jongho"},{"first_name":"Giuseppe","full_name":"Mascaro, Giuseppe","last_name":"Mascaro"},{"first_name":"Richard","last_name":"Niswonger","full_name":"Niswonger, Richard"},{"first_name":"Pedro","last_name":"Restrepo","full_name":"Restrepo, Pedro"},{"first_name":"Riccardo","full_name":"Rigon, Riccardo","last_name":"Rigon"},{"last_name":"Shen","full_name":"Shen, Chaopeng","first_name":"Chaopeng"},{"last_name":"Sulis","full_name":"Sulis, Mauro","first_name":"Mauro"},{"first_name":"David","last_name":"Tarboton","full_name":"Tarboton, David"}],"article_type":"original","extern":"1","OA_place":"repository","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2016","_id":"22433","oa":1,"article_processing_charge":"No","main_file_link":[{"url":"https://digitalcommons.usu.edu/cgi/viewcontent.cgi?article=3459&context=cee_facpub","open_access":"1"}],"volume":537,"fulldoi":"https://doi.org/10.1016/j.jhydrol.2016.03.026","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"}},{"month":"03","citation":{"apa":"Paschalis, A., Katul, G. G., Fatichi, S., Manoli, G., &#38; Molnar, P. (2016). Matching ecohydrological processes and scales of banded vegetation patterns in semiarid catchments. <i>Water Resources Research</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2015wr017679\">https://doi.org/10.1002/2015wr017679</a>","chicago":"Paschalis, Athanasios, Gabriel G. Katul, Simone Fatichi, Gabriele Manoli, and Peter Molnar. “Matching Ecohydrological Processes and Scales of Banded Vegetation Patterns in Semiarid Catchments.” <i>Water Resources Research</i>. American Geophysical Union, 2016. <a href=\"https://doi.org/10.1002/2015wr017679\">https://doi.org/10.1002/2015wr017679</a>.","ama":"Paschalis A, Katul GG, Fatichi S, Manoli G, Molnar P. Matching ecohydrological processes and scales of banded vegetation patterns in semiarid catchments. <i>Water Resources Research</i>. 2016;52(3):2259-2278. doi:<a href=\"https://doi.org/10.1002/2015wr017679\">10.1002/2015wr017679</a>","ista":"Paschalis A, Katul GG, Fatichi S, Manoli G, Molnar P. 2016. Matching ecohydrological processes and scales of banded vegetation patterns in semiarid catchments. Water Resources Research. 52(3), 2259–2278.","mla":"Paschalis, Athanasios, et al. “Matching Ecohydrological Processes and Scales of Banded Vegetation Patterns in Semiarid Catchments.” <i>Water Resources Research</i>, vol. 52, no. 3, American Geophysical Union, 2016, pp. 2259–78, doi:<a href=\"https://doi.org/10.1002/2015wr017679\">10.1002/2015wr017679</a>.","short":"A. Paschalis, G.G. Katul, S. Fatichi, G. Manoli, P. Molnar, Water Resources Research 52 (2016) 2259–2278.","ieee":"A. Paschalis, G. G. Katul, S. Fatichi, G. Manoli, and P. Molnar, “Matching ecohydrological processes and scales of banded vegetation patterns in semiarid catchments,” <i>Water Resources Research</i>, vol. 52, no. 3. American Geophysical Union, pp. 2259–2278, 2016."},"scopus_import":"1","intvolume":"        52","publisher":"American Geophysical Union","issue":"3","status":"public","doi":"10.1002/2015wr017679","date_created":"2026-07-27T12:30:23Z","type":"journal_article","language":[{"iso":"eng"}],"oa_version":"Published Version","publication_identifier":{"eissn":["1944-7973"],"issn":["0043-1397"]},"day":"01","page":"2259-2278","title":"Matching ecohydrological processes and scales of banded vegetation patterns in semiarid catchments","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/2015WR017679"}],"article_processing_charge":"No","oa":1,"fulldoi":"https://doi.org/10.1002/2015wr017679","volume":52,"das_tickbox":"1","date_published":"2016-03-01T00:00:00Z","OA_type":"free access","date_updated":"2026-08-11T06:50:57Z","publication_status":"published","article_type":"original","author":[{"full_name":"Paschalis, Athanasios","last_name":"Paschalis","first_name":"Athanasios"},{"last_name":"Katul","full_name":"Katul, Gabriel G.","first_name":"Gabriel G."},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","first_name":"Simone","last_name":"Fatichi","full_name":"Fatichi, Simone"},{"first_name":"Gabriele","last_name":"Manoli","full_name":"Manoli, Gabriele"},{"last_name":"Molnar","full_name":"Molnar, Peter","first_name":"Peter"}],"abstract":[{"text":"While the claim that water-carbon interactions result in spatially coherent vegetation patterning is rarely disputed in many arid and semiarid regions, the significance of the detailed water pathways and other high frequency variability remain an open question. How the short temporal scale meteorological fluctuations form the long-term spatial variability of available soil water in complex terrains due to the various hydrological, land surface, and vegetation dynamic feedbacks frames the scope of the work here. Knowledge of the detailed mechanistic feedbacks among soil, plants, and the atmosphere will lead to advances in our understanding of plant water availability in arid and semiarid ecosystems and will provide insights for future model development concerning vegetation pattern formation. In this study, quantitative estimates of water fluxes and vegetation productivity are provided for a semiarid ecosystem with established vegetation bands on hillslopes using numerical simulations. A state-of-the-science process based ecohydrological model is used, which resolves hydrological and plant physiological processes at the relevant space and time scales, for relatively small periods (e.g., decades) of mature ecosystems (i.e., spatially static vegetation distribution). To unfold the mechanisms that shape the spatial distribution of soil moisture, plant productivity and the relevant surface/subsurface and atmospheric water fluxes, idealized hillslope numerical experiments are constructed, where the effects of soil type, slope steepness, and overland flow accumulation area are quantified. Those mechanisms are also simulated in the presence of complex topography features on landscapes. The main results are (a) short temporal scale meteorological variability and accurate representation of the scales at which each ecohydrological process operates are crucial for the estimation of the spatial variability of soil water availability to the plant root zone; (b) water fluxes such as evapotranspiration, infiltration, runoff-run-on, and subsurface soil water movement have a dynamic short temporal scale behavior that determines the long-term spatial organization of plant soil water availability in ecosystems with established vegetation patterns; and (c) hypotheses concerning the hydrological responses that can lead to vegetation pattern formation have to accommodate realistic and physically based representations of the fast dynamics of key ecohydrological fluxes.","lang":"eng"}],"publication":"Water Resources Research","quality_controlled":"1","_id":"22455","year":"2016","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","extern":"1","OA_place":"publisher"}]