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Riegler, Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species, Institute of Science and Technology Austria, 2026.","chicago":"Riegler, Stefan. “Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21360.","ama":"Riegler S. Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21360","ista":"Riegler S. 2026. Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria.","ieee":"S. Riegler, “Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species,” Institute of Science and Technology Austria, 2026.","apa":"Riegler, S. (2026). Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21360","mla":"Riegler, Stefan. Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21360."},"das_tickbox":"1","date_created":"2026-02-27T09:08:14Z","acknowledgement":"I would like to acknowledge the Austrian Academy of Sciences (ÖAW) and European\r\nResearch Executive Agency (REA) for funding my research (DOC ÖAW Fellowship\r\n26130, Horizon Europe BOLERO Project 101060393). ","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publisher":"Institute of Science and Technology Austria","publication_status":"published","publication_identifier":{"issn":["2663-337X"]},"language":[{"iso":"eng"}],"day":"26","project":[{"grant_number":"101060393","_id":"34afa094-11ca-11ed-8bc3-a375845a59fb","name":"Breeding for coffee and cocoa root resilience in low input farming systems based on improved rootstocks"}],"supervisor":[{"full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739"}],"tmp":{"short":"CC BY-SA (4.0)","image":"/images/cc_by_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)"},"oa_version":"Published Version","date_updated":"2026-07-27T14:30:08Z","date_published":"2026-02-26T00:00:00Z","license":"https://creativecommons.org/licenses/by-sa/4.0/","author":[{"full_name":"Riegler, Stefan","last_name":"Riegler","first_name":"Stefan","id":"FF6018E0-D806-11E9-8E43-0B14E6697425","orcid":"0000-0003-3413-1343"}],"OA_place":"repository","doi":"10.15479/AT-ISTA-21360","degree_awarded":"PhD","month":"02","corr_author":"1","ddc":["570","575","583"]},{"user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","title":"Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea species","abstract":[{"lang":"eng","text":"The data contains information on coffee differential gene expression as well as co-expression and trait correlations in two separate experiments. First, contrasting nitrogen supply, second, intra- and interspecific grafting."}],"date_created":"2026-02-27T09:18:41Z","type":"research_data","citation":{"ieee":"S. Riegler, “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species.” Institute of Science and Technology Austria, 2026.","short":"S. Riegler, (2026).","chicago":"Riegler, Stefan. “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21363.","ista":"Riegler S. 2026. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21363.","ama":"Riegler S. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21363","apa":"Riegler, S. (2026). Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21363","mla":"Riegler, Stefan. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21363."},"related_material":{"record":[{"relation":"used_in_publication","id":"21360","status":"public"}]},"contributor":[{"last_name":"Benková","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","contributor_type":"supervisor","orcid":"0000-0002-8510-9739"}],"department":[{"_id":"GradSch"},{"_id":"EvBe"}],"day":"27","article_processing_charge":"No","publisher":"Institute of Science and Technology Austria","_id":"21363","has_accepted_license":"1","date_published":"2026-02-27T00:00:00Z","date_updated":"2026-07-27T14:30:07Z","tmp":{"short":"CC BY-SA (4.0)","image":"/images/cc_by_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)"},"oa_version":"Published Version","file_date_updated":"2026-02-27T09:13:11Z","ddc":["575"],"corr_author":"1","month":"02","doi":"10.15479/AT-ISTA-21363","year":"2026","author":[{"last_name":"Riegler","full_name":"Riegler, Stefan","first_name":"Stefan","id":"FF6018E0-D806-11E9-8E43-0B14E6697425","orcid":"0000-0003-3413-1343"}],"file":[{"file_name":"SupplementaryTables.xlsx","relation":"main_file","content_type":"application/vnd.openxmlformats-officedocument.spreadsheetml.sheet","creator":"sriegler","date_created":"2026-02-27T09:11:33Z","date_updated":"2026-02-27T09:11:33Z","file_size":63749444,"file_id":"21364","embargo_to":"open_access","checksum":"de9145fa166a28c588b5184a2d3d4fee","access_level":"closed","embargo":"2027-02-27"},{"embargo":"2027-02-27","access_level":"closed","checksum":"ce1f163551c96cee45943a8ea29720b6","embargo_to":"open_access","file_id":"21365","file_size":124,"content_type":"text/plain","date_updated":"2026-02-27T09:13:11Z","creator":"sriegler","date_created":"2026-02-27T09:13:11Z","relation":"main_file","file_name":"ReadMe.txt"}],"status":"public"},{"year":"2026","file":[{"date_updated":"2026-07-16T09:17:08Z","creator":"lbecker","date_created":"2026-07-16T09:17:08Z","content_type":"application/zip","relation":"source_file","file_name":"2026_Becker_Lea_source_files.zip","file_id":"22346","file_size":99472908,"checksum":"8b85114eff543916c0e1445cd2189555","access_level":"closed"},{"content_type":"application/pdf","date_created":"2026-07-16T09:17:05Z","creator":"lbecker","date_updated":"2026-07-16T09:17:05Z","file_name":"2026_Becker_Lea_Thesis.pdf","relation":"main_file","file_id":"22347","file_size":74647289,"success":1,"access_level":"open_access","checksum":"6c526862bc6dbd1e4c80ecb34580bc58"}],"doi_confirm":"1","status":"public","has_accepted_license":"1","file_date_updated":"2026-07-16T09:17:08Z","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"NMR"}],"article_processing_charge":"No","_id":"22334","page":"205","type":"dissertation","title":"Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR","abstract":[{"lang":"eng","text":"Characterizing protein dynamics at the atomic level is essential for our understanding of biological mechanisms. Whether it is to facilitate metabolite transport, catalyze reactions, transmit signals, or regulate metabolism – proteins are constantly in motion and sample multiple conformational states to fulfill their function. Nuclear magnetic resonance (NMR) spectroscopy is particularly well suited to elucidate the dynamics of biomolecules on their complex free-energy landscape. In particular, solid-state magic-angle spinning (MAS) NMR enables the study of large molecular assemblies, protein crystals, or insoluble proteins at atomic resolution without an inherent molecular size limitation. MAS NMR experiments to probe protein dynamics are extremely versatile and sensitive to motional timescales from picoseconds to seconds. Over the past decades, technological advances, developments in experimental design, and new isotope-labeling approaches have further expanded the possibilities of this technique and significantly improved the accuracy of the determined motional parameters.\r\nFunctionally important sites of proteins often contain aromatic residues. Their side-chain motions have therefore long served as valuable indicators of mechanistically relevant dynamics in NMR studies. In this thesis, site-specifically labeled aromatic residues act as sensitive reporters for MAS NMR studies of protein dynamics. The first part addresses how different environments impact side-chain motion by probing ring flips of phenylalanines and tyrosines in crystalline proteins and amyloid fibrils. It provides important insights for the analysis of dynamics obtained in non-native protein environments and emphasizes the complex factors that determine the timescale of internal dynamics. In the second part, the focus shifts towards methodological questions regarding the investigation of protein dynamics by 19F MAS NMR. The fluorine nucleus exhibits promising characteristics for NMR studies but also presents significant challenges, which is why the full methodological potential of 19F MAS NMR has not been fully realized yet. This work demonstrates that paramagnetic doping can considerably reduce the measurement time and improve the sensitivity of fluorinated samples. Finally, 19F MAS NMR is evaluated as a tool for studying protein side-chain dynamics on the example of tryptophans. The results illustrate the challenges in analyzing such experiments and lay the foundation for further development of 19F MAS NMR relaxation studies.\r\nTaken together, this thesis highlights the potential of combining specific isotope labeling, MAS NMR, and complementary methods such as crystallography and computational simulations to elucidate internal protein dynamics. The further development of such integrative approaches will be crucial to improving our understanding of complex mechanisms and protein function.\r\n"}],"department":[{"_id":"GradSch"},{"_id":"PaSc"}],"related_material":{"record":[{"id":"12675","status":"public","relation":"part_of_dissertation"},{"status":"public","id":"21777","relation":"part_of_dissertation"},{"id":"12114","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"22105"}]},"alternative_title":["ISTA Thesis"],"degree_awarded":"PhD","doi":"10.15479/AT-ISTA-22334","OA_place":"publisher","ddc":["572"],"oa":1,"month":"07","corr_author":"1","author":[{"orcid":"0000-0002-6401-5151","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","first_name":"Lea Marie","full_name":"Becker, Lea Marie","last_name":"Becker"}],"date_updated":"2026-07-28T06:59:15Z","oa_version":"Published Version","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)"},"date_published":"2026-07-13T00:00:00Z","supervisor":[{"orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","first_name":"Paul","last_name":"Schanda","full_name":"Schanda, Paul"}],"publication_identifier":{"isbn":["978-3-99078-084-8"],"issn":["2663-337X"]},"project":[{"grant_number":"26777","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0"}],"day":"13","language":[{"iso":"eng"}],"publication_status":"published","publisher":"Institute of Science and Technology Austria","date_created":"2026-07-14T08:08:51Z","das_tickbox":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"During the work on this thesis, I was the recipient of a DOC Fellowship of the Austrian\r\nAcademy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01).","citation":{"ieee":"L. M. Becker, “Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR,” Institute of Science and Technology Austria, 2026.","ista":"Becker LM. 2026. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. Institute of Science and Technology Austria.","chicago":"Becker, Lea Marie. “Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22334.","ama":"Becker LM. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. 2026. doi:10.15479/AT-ISTA-22334","short":"L.M. Becker, Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR, Institute of Science and Technology Austria, 2026.","apa":"Becker, L. M. (2026). Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22334","mla":"Becker, Lea Marie. Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22334."}},{"title":"Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes","abstract":[{"lang":"eng","text":"Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein–protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labelling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a crystal structure of a GB1 variant reported in this work, reproduce these elevated barriers and reveal how the crystal restrains motions."}],"type":"journal_article","related_material":{"record":[{"relation":"research_data","status":"public","id":"20641"},{"relation":"research_data","status":"public","id":"21145"},{"relation":"dissertation_contains","id":"22334","status":"public"}]},"department":[{"_id":"PaSc"},{"_id":"LifeSc"}],"acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}],"article_processing_charge":"Yes (via OA deal)","OA_type":"hybrid","page":"1221-1230","quality_controlled":"1","_id":"22105","volume":18,"has_accepted_license":"1","pmid":1,"file_date_updated":"2026-07-28T06:58:35Z","researchdata_availability":"yes","supplementarymaterial":"yes","year":"2026","file":[{"access_level":"open_access","checksum":"1069fb27949fd2cb641b043b3a96a580","success":1,"file_size":2618184,"file_id":"22595","relation":"main_file","file_name":"2026_NatureChemistry_Becker.pdf","date_updated":"2026-07-28T06:58:35Z","creator":"dernst","date_created":"2026-07-28T06:58:35Z","content_type":"application/pdf"}],"intvolume":" 18","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank N. R. Skrynnikov and O. O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to T. Schubeis (Lyon) for advice on GB1 crystallization and R. Schmid for initial crystallization trials. We thank C. Mueller-Dieckmann for assistance with room-temperature X-ray crystallography data collection on beamline ID30B at the ESRF, which is acknowledged for providing beamtime through its In-House Research programme. We thank S. Falkner for assistance with constructing the structural model of the IgG:GB1 complex. We thank J. Lewandowski for providing feedback on the paper and granting access to backbone relaxation data of IgG:GB1T2Q and GB1T2Q microcrystals. This research was supported by the Scientific Service Units (SSU) of the Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank P. Rovó and M. V. Falcón for excellent support of the NMR facility. L.M.B. is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant number PR10660EAW01). C.C. acknowledges the European Research Council (grant project 101097272 ‘MilliInMicro’) and the Métropole du Grand Nancy (grant project ‘ARC’). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.Open access funding provided by Institute of Science and Technology (IST Austria).","das_tickbox":"1","date_created":"2026-06-21T22:03:01Z","publication":"Nature Chemistry","citation":{"apa":"Becker, L. M., Fu, H., Tatman, B., Dreydoppel, M., Kapitonova, A., Balazs, D., … Schanda, P. (2026). Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. Springer Nature. https://doi.org/10.1038/s41557-026-02155-0","short":"L.M. Becker, H. Fu, B. Tatman, M. Dreydoppel, A. Kapitonova, D. Balazs, U. Weininger, S. Engilberge, C. Chipot, P. Schanda, Nature Chemistry 18 (2026) 1221–1230.","chicago":"Becker, Lea Marie, Haohao Fu, Benjamin Tatman, Matthias Dreydoppel, Anna Kapitonova, Daniel Balazs, Ulrich Weininger, Sylvain Engilberge, Christophe Chipot, and Paul Schanda. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Nature Chemistry. Springer Nature, 2026. https://doi.org/10.1038/s41557-026-02155-0.","ama":"Becker LM, Fu H, Tatman B, et al. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. 2026;18:1221-1230. doi:10.1038/s41557-026-02155-0","ista":"Becker LM, Fu H, Tatman B, Dreydoppel M, Kapitonova A, Balazs D, Weininger U, Engilberge S, Chipot C, Schanda P. 2026. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. 18, 1221–1230.","ieee":"L. M. Becker et al., “Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes,” Nature Chemistry, vol. 18. Springer Nature, pp. 1221–1230, 2026.","mla":"Becker, Lea Marie, et al. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Nature Chemistry, vol. 18, Springer Nature, 2026, pp. 1221–30, doi:10.1038/s41557-026-02155-0."},"dataavailabilitystatement":"The cryo and room-temperature crystal structures of GB1QDD are deposited at the PDB under the access codes 9I2I and 9T8Z, respectively. The solid-state NMR backbone assignment of GB1QDD is deposited at the BMRB under the access code 53330. NMR spectra, analysis scripts and raw data are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-20641)120. Files to reproduce the enhanced-sampling MD simulations are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-21145)121.","day":"01","project":[{"name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0","grant_number":"26777"}],"language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"issn":["17554330"],"eissn":["17554349"]},"publication_status":"published","publisher":"Springer Nature","date_published":"2026-07-01T00:00:00Z","date_updated":"2026-07-28T06:59:16Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","external_id":{"pmid":["42271006"]},"oa":1,"ddc":["540"],"month":"07","PlanS_conform":"1","corr_author":"1","doi":"10.1038/s41557-026-02155-0","OA_place":"publisher","article_type":"original","author":[{"id":"36336939-eb97-11eb-a6c2-c83f1214ca79","orcid":"0000-0002-6401-5151","full_name":"Becker, Lea Marie","last_name":"Becker","first_name":"Lea Marie"},{"last_name":"Fu","full_name":"Fu, Haohao","first_name":"Haohao"},{"last_name":"Tatman","full_name":"Tatman, Benjamin","first_name":"Benjamin","id":"71cda2f3-e604-11ee-a1df-da10587eda3f"},{"first_name":"Matthias","last_name":"Dreydoppel","full_name":"Dreydoppel, Matthias"},{"id":"9fb2a840-89e1-11ee-a8b7-cc5c7ba62471","full_name":"Kapitonova, Anna","last_name":"Kapitonova","first_name":"Anna"},{"orcid":"0000-0001-7597-043X","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","first_name":"Daniel","full_name":"Balazs, Daniel","last_name":"Balazs"},{"first_name":"Ulrich","last_name":"Weininger","full_name":"Weininger, Ulrich"},{"first_name":"Sylvain","full_name":"Engilberge, Sylvain","last_name":"Engilberge"},{"full_name":"Chipot, Christophe","last_name":"Chipot","first_name":"Christophe"},{"first_name":"Paul","last_name":"Schanda","full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"}]},{"publication_status":"published","publisher":"American Chemical Society","day":"17","project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020"}],"language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"eissn":["1520-5851"],"issn":["0013-936X"]},"citation":{"apa":"Ibarra-Espinosa, S., Dias de Freitas, E., Gaubert, B., Lichtig, P., Ropkins, K., da Silva, I., … Brasseur, G. (2026). A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. American Chemical Society. https://doi.org/10.1021/acs.est.5c08400","ieee":"S. Ibarra-Espinosa et al., “A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality,” Environmental Science &amp; Technology, vol. 60, no. 6. American Chemical Society, 2026.","ama":"Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, et al. A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. 2026;60(6). doi:10.1021/acs.est.5c08400","chicago":"Ibarra-Espinosa, Sergio, Edmilson Dias de Freitas, Benjamin Gaubert, Pablo Lichtig, Karl Ropkins, Iara da Silva, Guilherme Martins Pereira, et al. “A Century of Vehicular Emissions in Brazil: Unveiling the Impacts of Unique Fuel Mix on Air Quality.” Environmental Science &amp; Technology. American Chemical Society, 2026. https://doi.org/10.1021/acs.est.5c08400.","ista":"Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, Lichtig P, Ropkins K, da Silva I, Martins Pereira G, Schuch D, Nascimento J, Hoinaski L, Martins LD, Gavidia-Calderón M, Vara-Vela A, Toledo de Almeida Albuquerque T, Ynoue RY, Diez S, Mera Z, Casallas Garcia A, Vallejo F, Diaz V, Pedruzzi R, Abrutzky R, Franco MA, Huneeus N, Jorquera H, Belalcázar-Cerón LC, Rojas NY, de Fatima Andrade M, Emmons L, Brasseur G. 2026. A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. 60(6), 5c08400.","short":"S. Ibarra-Espinosa, E. Dias de Freitas, B. Gaubert, P. Lichtig, K. Ropkins, I. da Silva, G. Martins Pereira, D. Schuch, J. Nascimento, L. Hoinaski, L.D. Martins, M. Gavidia-Calderón, A. Vara-Vela, T. Toledo de Almeida Albuquerque, R.Y. Ynoue, S. Diez, Z. Mera, A. Casallas Garcia, F. Vallejo, V. Diaz, R. Pedruzzi, R. Abrutzky, M.A. Franco, N. Huneeus, H. Jorquera, L.C. Belalcázar-Cerón, N.Y. Rojas, M. de Fatima Andrade, L. Emmons, G. Brasseur, Environmental Science &amp; Technology 60 (2026).","mla":"Ibarra-Espinosa, Sergio, et al. “A Century of Vehicular Emissions in Brazil: Unveiling the Impacts of Unique Fuel Mix on Air Quality.” Environmental Science &amp; Technology, vol. 60, no. 6, 5c08400, American Chemical Society, 2026, doi:10.1021/acs.est.5c08400."},"dataavailabilitystatement":"Scripts available here https://github.com/ibarraespinosa/musica_vein and here https://github.com/atmoschem/vein.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Part of this material is based upon work supported by the NSF National Center for Atmospheric Research, which is a major facility sponsored by the National Science Foundation under Cooperative Agreement No. 1852977. Casallas was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement No. 101034413. E. D. Freitas thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 313210/2022–5). Silva gratefully acknowledges the financial support from the National Council for Scientific and Technological Development (CNPq), process number 140512/2021–7. P. Lichtig was supported by base funding from the National Commission for Atomic Energy (CNEA, Arg.) and by NSF NCAR. R.Y. Ynoue thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 406728/2022–4). M. A. Franco thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 407752/2023–4). G. M. Pereira thanks the support by the Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP; Process numbers 2018/07848–9, 2016/18438–0, and 2019/01316–80) and Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES; Process number 88887.103225/2025–00). M.F. Andrade thanks the support by FAPESP (Process number 2016/18438–0) and CNPQ (Klimapolis INCT).","das_tickbox":"1","date_created":"2026-02-09T06:54:10Z","publication":"Environmental Science & Technology","author":[{"first_name":"Sergio","full_name":"Ibarra-Espinosa, Sergio","last_name":"Ibarra-Espinosa"},{"first_name":"Edmilson","full_name":"Dias de Freitas, Edmilson","last_name":"Dias de Freitas"},{"first_name":"Benjamin","full_name":"Gaubert, Benjamin","last_name":"Gaubert"},{"first_name":"Pablo","last_name":"Lichtig","full_name":"Lichtig, Pablo"},{"last_name":"Ropkins","full_name":"Ropkins, Karl","first_name":"Karl"},{"first_name":"Iara","last_name":"da Silva","full_name":"da Silva, Iara"},{"first_name":"Guilherme","full_name":"Martins Pereira, Guilherme","last_name":"Martins Pereira"},{"first_name":"Daniel","full_name":"Schuch, Daniel","last_name":"Schuch"},{"first_name":"Janaina","last_name":"Nascimento","full_name":"Nascimento, Janaina"},{"first_name":"Leonardo","last_name":"Hoinaski","full_name":"Hoinaski, Leonardo"},{"first_name":"Leila Droprinchinski","full_name":"Martins, Leila Droprinchinski","last_name":"Martins"},{"first_name":"Mario","full_name":"Gavidia-Calderón, Mario","last_name":"Gavidia-Calderón"},{"last_name":"Vara-Vela","full_name":"Vara-Vela, Angel","first_name":"Angel"},{"last_name":"Toledo de Almeida Albuquerque","full_name":"Toledo de Almeida Albuquerque, Taciana","first_name":"Taciana"},{"full_name":"Ynoue, Rita Yuri","last_name":"Ynoue","first_name":"Rita Yuri"},{"last_name":"Diez","full_name":"Diez, Sebastian","first_name":"Sebastian"},{"last_name":"Mera","full_name":"Mera, Zamir","first_name":"Zamir"},{"id":"92081129-2d75-11ef-a48d-b04dd7a2385a","orcid":"0000-0002-1988-5035","full_name":"Casallas Garcia, Alejandro","last_name":"Casallas Garcia","first_name":"Alejandro"},{"first_name":"Fidel","last_name":"Vallejo","full_name":"Vallejo, Fidel"},{"first_name":"Valeria","last_name":"Diaz","full_name":"Diaz, Valeria"},{"first_name":"Rizzieri","full_name":"Pedruzzi, Rizzieri","last_name":"Pedruzzi"},{"first_name":"Rosana","last_name":"Abrutzky","full_name":"Abrutzky, Rosana"},{"first_name":"Marco A.","last_name":"Franco","full_name":"Franco, Marco A."},{"first_name":"Nicolas","full_name":"Huneeus, Nicolas","last_name":"Huneeus"},{"full_name":"Jorquera, Hector","last_name":"Jorquera","first_name":"Hector"},{"last_name":"Belalcázar-Cerón","full_name":"Belalcázar-Cerón, Luis Carlos","first_name":"Luis Carlos"},{"last_name":"Rojas","full_name":"Rojas, Néstor Y.","first_name":"Néstor Y."},{"first_name":"Maria","last_name":"de Fatima Andrade","full_name":"de Fatima Andrade, Maria"},{"full_name":"Emmons, Louisa","last_name":"Emmons","first_name":"Louisa"},{"last_name":"Brasseur","full_name":"Brasseur, Guy","first_name":"Guy"}],"ddc":["550"],"month":"02","doi":"10.1021/acs.est.5c08400","article_type":"original","external_id":{"pmid":["41636708"]},"article_number":"5c08400","date_published":"2026-02-17T00:00:00Z","date_updated":"2026-07-28T07:03:54Z","oa_version":"None","quality_controlled":"1","_id":"21164","article_processing_charge":"No","OA_type":"closed access","department":[{"_id":"CaMu"}],"title":"A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality","abstract":[{"text":"Global emission inventories often fail to capture the complexities of vehicular pollution in regions with unique fuel mixes, such as Brazil’s extensive biofuel use, leading to significant uncertainties in atmospheric modeling. This study presents a century-long (1960–2100) bottom-up vehicular emission inventory for Brazil, leveraging locally derived emission factors. Our estimates reveal substantial discrepancies in magnitude, timing, and speciation of non-CO2 pollutants (CO, NMHC, PM2.5) compared to leading global inventories (EDGAR, CEDS, CAMS), highlighting critical inaccuracies in widely used data sets. More critically, future projections under Shared Socioeconomic Pathways (SSPs) uncover a novel positive feedback mechanism: rising temperatures significantly enhance vehicular evaporative nonmethane hydrocarbon (NMHC) emissions. This temperature-dependent increase and subsequent NMHC oxidation to CO2 suggest an overlooked pathway that could amplify climate warming and air pollution globally, particularly after a breakpoint around 2050 (p < 0.05). While historical emissions peaked in the 1990s–2000s, nonexhaust PM becomes increasingly important. Air quality simulations using our inventory in the MUSICA model show good regional PM2.5 agreement but highlight challenges in resolving local primary pollutant peaks. This comprehensive inventory provides crucial data for Brazil and uncovers globally relevant climate–chemistry interactions, urging a re-evaluation of regional specificities in global emission assessments.","lang":"eng"}],"type":"journal_article","status":"public","intvolume":" 60","ec_funded":1,"supplementarymaterial":"yes","year":"2026","pmid":1,"researchdata_availability":"yes","volume":60,"has_accepted_license":"1","issue":"6"},{"_id":"20971","quality_controlled":"1","article_processing_charge":"Yes (in subscription journal)","OA_type":"hybrid","department":[{"_id":"FrPe"}],"abstract":[{"text":"Mountain glaciers are among the natural systems most vulnerable to climate change. However, their interactions with the atmosphere are complex and not fully understood. These interactions can trigger rapid adjustments and climate feedbacks that either amplify or attenuate atmospheric signals, influencing both glacier response and large-scale atmospheric circulation. Observing this functional coupling in nature is challenging because the key processes occur over a wide range of spatial and temporal scales. However, recent advances in observational techniques and modeling have provided new insights into these interactions. In this review, we summarize the current state of knowledge on glacier-atmosphere interactions in high-mountain regions at different scales, and highlight recent advances in observational and numerical modeling. We also highlight important knowledge gaps and outline future research directions to improve the prediction of glacier change in a warming world.","lang":"eng"}],"title":"Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review","type":"journal_article","intvolume":" 64","status":"public","file":[{"file_size":3012737,"file_id":"22594","checksum":"9d46167619be91210c45ee9e1f187395","access_level":"open_access","success":1,"file_name":"2026_ReviewsGeophysics_Sauter.pdf","relation":"main_file","date_updated":"2026-07-28T06:48:08Z","creator":"dernst","date_created":"2026-07-28T06:48:08Z","content_type":"application/pdf"}],"ec_funded":1,"supplementarymaterial":"no","year":"2026","researchdata_availability":"no","file_date_updated":"2026-07-28T06:48:08Z","volume":64,"has_accepted_license":"1","issue":"1","publication_status":"published","publisher":"Wiley","scopus_import":"1","language":[{"iso":"eng"}],"project":[{"grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020"}],"day":"01","publication_identifier":{"issn":["8755-1209"],"eissn":["1944-9208"]},"citation":{"mla":"Sauter, T., et al. “Glacier-Atmosphere Interactions and Feedbacks in High-Mountain Regions - A Review.” Reviews of Geophysics, vol. 64, no. 1, e2024RG000869, Wiley, 2026, doi:10.1029/2024RG000869.","chicago":"Sauter, T., B. W. Brock, E. Collier, B. Goger, A. R. Groos, K. F. Haualand, R. Mott, et al. “Glacier-Atmosphere Interactions and Feedbacks in High-Mountain Regions - A Review.” Reviews of Geophysics. Wiley, 2026. https://doi.org/10.1029/2024RG000869.","ista":"Sauter T, Brock BW, Collier E, Goger B, Groos AR, Haualand KF, Mott R, Nicholson L, Prinz R, Shaw T, Stiperski I, Georgi A, Haugeneder M, Mandal A, Reynolds D, Saigger M, Sicart JE, Voordendag A. 2026. Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. 64(1), e2024RG000869.","ama":"Sauter T, Brock BW, Collier E, et al. Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. 2026;64(1). doi:10.1029/2024RG000869","short":"T. Sauter, B.W. Brock, E. Collier, B. Goger, A.R. Groos, K.F. Haualand, R. Mott, L. Nicholson, R. Prinz, T. Shaw, I. Stiperski, A. Georgi, M. Haugeneder, A. Mandal, D. Reynolds, M. Saigger, J.E. Sicart, A. Voordendag, Reviews of Geophysics 64 (2026).","ieee":"T. Sauter et al., “Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review,” Reviews of Geophysics, vol. 64, no. 1. Wiley, 2026.","apa":"Sauter, T., Brock, B. W., Collier, E., Goger, B., Groos, A. R., Haualand, K. F., … Voordendag, A. (2026). Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. Wiley. https://doi.org/10.1029/2024RG000869"},"dataavailabilitystatement":"Data were not used, nor created for this research. Software (other than for typesetting) was not used for this research.","acknowledgement":"This work is the result of collaboration and discussions within HEFEX II, and we are grateful to all colleagues who have contributed to and enriched these discussions in various ways. T. Sauter acknowledges funding from the German Research Foundation (DFG) (Grant 543257843). This research was funded in part by the Austrian Science Fund (FWF) (Grant https://doi.org/10.55776/P36624 and https://doi.org/10.55776/P36306) for which E. Collier and R. Prinz are grateful. A. R. Groos, T. E. Shaw, R. Mott and M. Haugeneder acknowledge Transnational Access from the European Union's H2020 project INTERACT III (Grant 871120) for participation in the HEFEX II campaign and working group. I. Stiperski (Grant Agreement No. 101001691) and A. R. Groos (Grant Agreement No. 948290) acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program. R. Mott acknowledges funding from the Swiss National Science Foundation (SNSF) (Grant 200021_219918). B. Goger is supported by EXCLAIM, a project funded by ETH Zurich. J.E. Sicart acknowledges LabEx OSUG@2020 (Investissements d'avenir - ANR10 LABX56) for participation in the HEFEX II campaign and working group. T. E. Shaw acknowledges funding from the EU Horizon 2020 Marie Skłodowska-Curie Grant 101026058 and 101034413. K. F. Haualand and T. Sauter are supported by the JOSTICE project funded by the Research Council of Norway (RCN Grant 302458).","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Reviews of Geophysics","date_created":"2026-01-11T23:01:33Z","das_tickbox":"1","author":[{"last_name":"Sauter","full_name":"Sauter, T.","first_name":"T."},{"full_name":"Brock, B. W.","last_name":"Brock","first_name":"B. W."},{"last_name":"Collier","full_name":"Collier, E.","first_name":"E."},{"first_name":"B.","full_name":"Goger, B.","last_name":"Goger"},{"last_name":"Groos","full_name":"Groos, A. R.","first_name":"A. R."},{"last_name":"Haualand","full_name":"Haualand, K. F.","first_name":"K. F."},{"full_name":"Mott, R.","last_name":"Mott","first_name":"R."},{"first_name":"L.","full_name":"Nicholson, L.","last_name":"Nicholson"},{"first_name":"R.","last_name":"Prinz","full_name":"Prinz, R."},{"first_name":"Thomas","last_name":"Shaw","full_name":"Shaw, Thomas","orcid":"0000-0001-7640-6152","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e"},{"first_name":"I.","full_name":"Stiperski, I.","last_name":"Stiperski"},{"first_name":"A.","last_name":"Georgi","full_name":"Georgi, A."},{"first_name":"M.","last_name":"Haugeneder","full_name":"Haugeneder, M."},{"full_name":"Mandal, A.","last_name":"Mandal","first_name":"A."},{"full_name":"Reynolds, D.","last_name":"Reynolds","first_name":"D."},{"last_name":"Saigger","full_name":"Saigger, M.","first_name":"M."},{"full_name":"Sicart, J. E.","last_name":"Sicart","first_name":"J. E."},{"first_name":"A.","full_name":"Voordendag, A.","last_name":"Voordendag"}],"PlanS_conform":"1","month":"03","ddc":["550"],"oa":1,"article_type":"original","OA_place":"publisher","doi":"10.1029/2024RG000869","article_number":"e2024RG000869","date_published":"2026-03-01T00:00:00Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2026-07-28T06:49:58Z"},{"type":"research_data","abstract":[{"text":"Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein-protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labeling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a new crystal structure, reproduce these elevated barriers and reveal how the crystal restrains motions. ","lang":"eng"}],"title":"Additional Data for \"Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes\"","department":[{"_id":"GradSch"},{"_id":"PaSc"}],"related_material":{"record":[{"id":"20641","status":"public","relation":"earlier_version"},{"relation":"used_in_publication","id":"22105","status":"public"}]},"article_processing_charge":"No","acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}],"_id":"21145","has_accepted_license":"1","file_date_updated":"2026-02-05T13:52:41Z","year":"2026","status":"public","file":[{"relation":"table_of_contents","file_name":"README.txt","date_updated":"2026-02-05T13:52:37Z","creator":"lbecker","date_created":"2026-02-05T13:52:37Z","content_type":"text/plain","file_size":4263,"file_id":"21146","access_level":"open_access","checksum":"02a419cce8cea450bc952f35488d2df5"},{"access_level":"open_access","checksum":"b0b82b1aa73985b0b308a3fa52d21aea","success":1,"file_size":50647107,"file_id":"21147","relation":"main_file","file_name":"Research_Data.zip","content_type":"application/zip","date_created":"2026-02-05T13:52:41Z","date_updated":"2026-02-05T13:52:41Z","creator":"lbecker"}],"date_created":"2026-02-05T13:54:39Z","acknowledgement":"We thank Nikolai R. Skrynnikov and Olga O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to Tobias Schubeis (Lyon) for advice with GB1 crystallization, and Rebecca Schmid for initial crystallization trials.\r\nWe thank Sebastian Falkner for assistance with constructing the structural model of the IgG:GB1 complex.\r\nThis research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank Petra Rovó and Margarita Valhondo Falcón for excellent support of the NMR facility.\r\nLea M. Becker is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01). Christophe Chipot acknowledges the European Research Council (grant project 101097272 ``MilliInMicro'') and the Métropole du Grand Nancy (grant project ``ARC''). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","contributor":[{"last_name":"Fu","first_name":"Haohao","contributor_type":"researcher"},{"id":"71cda2f3-e604-11ee-a1df-da10587eda3f","contributor_type":"researcher","first_name":"Benjamin","last_name":"Tatman"},{"contributor_type":"researcher","last_name":"Dreydoppel","first_name":"Matthias"},{"id":"9fb2a840-89e1-11ee-a8b7-cc5c7ba62471","contributor_type":"researcher","first_name":"Anna","last_name":"Kapitonova"},{"id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","contributor_type":"researcher","orcid":"0000-0001-7597-043X","last_name":"Balazs","first_name":"Daniel"},{"first_name":"Ulrich","last_name":"Weininger","contributor_type":"researcher"},{"contributor_type":"researcher","first_name":"Sylvain","last_name":"Engilberge"}],"citation":{"ama":"Becker LM, Schanda P, Chipot C. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” 2026. doi:10.15479/AT-ISTA-21145","short":"L.M. Becker, P. Schanda, C. Chipot, (2026).","ista":"Becker LM, Schanda P, Chipot C. 2026. Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes’, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21145.","chicago":"Becker, Lea Marie, Paul Schanda, and Christophe Chipot. “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21145.","ieee":"L. M. Becker, P. Schanda, and C. Chipot, “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026.","apa":"Becker, L. M., Schanda, P., & Chipot, C. (2026). Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21145","mla":"Becker, Lea Marie, et al. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21145."},"day":"09","project":[{"_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","grant_number":"26777"}],"publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"date_updated":"2026-07-28T06:59:15Z","date_published":"2026-02-09T00:00:00Z","doi":"10.15479/AT-ISTA-21145","month":"02","corr_author":"1","ddc":["572"],"oa":1,"license":"https://creativecommons.org/licenses/by-nc/4.0/","author":[{"id":"36336939-eb97-11eb-a6c2-c83f1214ca79","orcid":"0000-0002-6401-5151","last_name":"Becker","full_name":"Becker, Lea Marie","first_name":"Lea Marie"},{"first_name":"Paul","last_name":"Schanda","full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"},{"full_name":"Chipot, Christophe","last_name":"Chipot","first_name":"Christophe"}]},{"dataavailabilitystatement":"Raw EM data are available at the EMPIAR under accession code EMPIAR: EMPIAR-11830. Annotation and processing information for all 1,829 tomograms are provided in spreadsheet format.153 The following subtomogram averages have been deposited at the Electron Microscopy Data Bank (EMDB): 80S ribosome (EMDB: EMD-51847), nucleosome (EMDB: EMD-19906), PSII (EMDB: EMD-51731), Rubisco (EMDB: EMD-51848), microtubule (EMDB: EMD-51804), clathrin (EMDB: EMD-51789), and ATP synthase (EMDB: EMD-51802). Segmentations shown in Figures 2 and 3 are deposited on Zenodo (https://doi.org/10.5281/zenodo.15875785). Particle positions and orientations used for STA, along with all resources derived from this work, are available on GitHub (https://github.com/Chromatin-Structure-Rhythms-Lab/ChlamyAnnotations). Reconstructed tomograms and annotations are also available to explore interactively at the CZII Cryo-ET Data Portal (DS-10302, https://cryoetdataportal.czscience.com/datasets/10302/). Raw data for cryo-PFIB/SEM slice-and-view of a whole C. reinhardtii cell has also been deposited (EMPIAR: EMPIAR-11275).\r\n\r\nThis paper does not report original code.\r\n\r\nAny additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","citation":{"mla":"Kelley, Ron, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell, vol. 86, no. 1, Elsevier, 2026, p. 213–230.e7, doi:10.1016/j.molcel.2025.11.029.","apa":"Kelley, R., Khavnekar, S., Righetto, R. D., Heebner, J., Obr, M., Zhang, X., … Kotecha, A. (2026). Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. Elsevier. https://doi.org/10.1016/j.molcel.2025.11.029","ama":"Kelley R, Khavnekar S, Righetto RD, et al. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 2026;86(1):213-230.e7. doi:10.1016/j.molcel.2025.11.029","ista":"Kelley R, Khavnekar S, Righetto RD, Heebner J, Obr M, Zhang X, Chakraborty S, Tagiltsev G, Michael AK, Van Dorst S, Waltz F, Mccafferty CL, Lamm L, Zufferey S, Van Der Stappen P, Van Den Hoek H, Wietrzynski W, Harar P, Wan W, Briggs JAG, Plitzko JM, Engel BD, Kotecha A. 2026. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 86(1), 213–230.e7.","short":"R. Kelley, S. Khavnekar, R.D. Righetto, J. Heebner, M. Obr, X. Zhang, S. Chakraborty, G. Tagiltsev, A.K. Michael, S. Van Dorst, F. Waltz, C.L. Mccafferty, L. Lamm, S. Zufferey, P. Van Der Stappen, H. Van Den Hoek, W. Wietrzynski, P. Harar, W. Wan, J.A.G. Briggs, J.M. Plitzko, B.D. Engel, A. Kotecha, Molecular Cell 86 (2026) 213–230.e7.","chicago":"Kelley, Ron, Sagar Khavnekar, Ricardo D. Righetto, Jessica Heebner, Martin Obr, Xianjun Zhang, Saikat Chakraborty, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell. Elsevier, 2026. https://doi.org/10.1016/j.molcel.2025.11.029.","ieee":"R. Kelley et al., “Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii,” Molecular Cell, vol. 86, no. 1. Elsevier, p. 213–230.e7, 2026."},"publication":"Molecular Cell","das_tickbox":"1","date_created":"2026-01-04T23:01:36Z","acknowledgement":"Calculations were performed at the Max Planck Institute of Biochemistry and the Raven Supercomputer of the Max Planck Computing and Data Facility (MPCDF) in Garching, Germany; at the sciCORE (http://scicore.unibas.ch/) scientific computing center at the University of Basel, Switzerland; and at Thermo Fisher Scientific, in Eindhoven, the Netherlands. This work was supported by Thermo Fisher Scientific. All lamella preparations and tilt-series collections used in this work were conducted at Thermo Fisher R&D facilities in Brno and Eindhoven, utilizing Arctis and Krios microscopes. This work was also supported by the ERC consolidator grant “cryOcean” (fulfilled by the Swiss State Secretariat for Education, Research and Innovation, M822.00045) as well as a Swiss Nanoscience Institute PhD school grant to B.D.E. and P.V.d.S., an EMBO long-term postdoctoral fellowship (ALTF-383-2022) to G.T., an SNSF Postdoctoral Fellowship (project 210561) to F.W., a Boehringer Ingelheim Fonds fellowship to L.L., and by the Max Planck Society to J.A.G.B. and J.M.P.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","publisher":"Elsevier","publication_identifier":{"issn":["1097-2765"],"eissn":["1097-4164"]},"language":[{"iso":"eng"}],"scopus_import":"1","day":"08","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","date_updated":"2026-07-28T07:39:23Z","date_published":"2026-01-08T00:00:00Z","author":[{"first_name":"Ron","last_name":"Kelley","full_name":"Kelley, Ron"},{"full_name":"Khavnekar, Sagar","last_name":"Khavnekar","first_name":"Sagar"},{"last_name":"Righetto","full_name":"Righetto, Ricardo D.","first_name":"Ricardo D."},{"full_name":"Heebner, Jessica","last_name":"Heebner","first_name":"Jessica"},{"full_name":"Obr, Martin","last_name":"Obr","first_name":"Martin","id":"4741CA5A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1756-6564"},{"full_name":"Zhang, Xianjun","last_name":"Zhang","first_name":"Xianjun"},{"first_name":"Saikat","last_name":"Chakraborty","full_name":"Chakraborty, Saikat"},{"first_name":"Grigory","last_name":"Tagiltsev","full_name":"Tagiltsev, Grigory"},{"first_name":"Alicia","last_name":"Michael","full_name":"Michael, Alicia","orcid":"0000-0002-6080-839X","id":"6437c950-2a03-11ee-914d-d6476dd7b75c"},{"first_name":"Sofie","last_name":"Van Dorst","full_name":"Van Dorst, Sofie"},{"first_name":"Florent","full_name":"Waltz, Florent","last_name":"Waltz"},{"full_name":"Mccafferty, Caitlyn L.","last_name":"Mccafferty","first_name":"Caitlyn L."},{"full_name":"Lamm, Lorenz","last_name":"Lamm","first_name":"Lorenz"},{"last_name":"Zufferey","full_name":"Zufferey, Simon","first_name":"Simon"},{"last_name":"Van Der Stappen","full_name":"Van Der Stappen, Philippe","first_name":"Philippe"},{"first_name":"Hugo","last_name":"Van Den Hoek","full_name":"Van Den Hoek, Hugo"},{"full_name":"Wietrzynski, Wojciech","last_name":"Wietrzynski","first_name":"Wojciech"},{"orcid":"0000-0001-5206-1794","id":"e03d953a-6e8c-11ef-99e4-f0717d385cd5","first_name":"Pavol","full_name":"Harar, Pavol","last_name":"Harar"},{"first_name":"William","full_name":"Wan, William","last_name":"Wan"},{"first_name":"John A.G.","last_name":"Briggs","full_name":"Briggs, John A.G."},{"full_name":"Plitzko, Jürgen M.","last_name":"Plitzko","first_name":"Jürgen M."},{"last_name":"Engel","full_name":"Engel, Benjamin D.","first_name":"Benjamin D."},{"first_name":"Abhay","last_name":"Kotecha","full_name":"Kotecha, Abhay"}],"OA_place":"publisher","article_type":"original","doi":"10.1016/j.molcel.2025.11.029","PlanS_conform":"1","month":"01","oa":1,"ddc":["570"],"department":[{"_id":"AlMi"}],"type":"journal_article","abstract":[{"text":"In situ cryo-electron tomography (cryo-ET) has emerged as the method of choice to investigate the structures of biomolecules in their native context. However, challenges remain for the efficient production and sharing of large-scale cryo-ET datasets. Here, we combined cryogenic plasma-based focused ion beam (cryo-PFIB) milling with recent advances in cryo-ET acquisition and processing to generate a dataset of 1,829 annotated tomograms of the green alga Chlamydomonas reinhardtii, which we provide as a community resource to drive method development and inspire biological discovery. To assay data quality, we performed subtomogram averaging of both soluble and membrane-bound complexes ranging in size from >3 MDa to ∼200 kDa, including 80S ribosomes, Rubisco, nucleosomes, microtubules, clathrin, photosystem II, and mitochondrial ATP synthase. The majority of these density maps reached sub-nanometer resolution, demonstrating the potential of this C. reinhardtii dataset as well as the promise of modern cryo-ET workflows and open data sharing to empower visual proteomics.","lang":"eng"}],"title":"Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii","_id":"20935","quality_controlled":"1","page":"213-230.e7","OA_type":"hybrid","article_processing_charge":"Yes (in subscription journal)","file_date_updated":"2026-07-28T07:38:45Z","researchdata_availability":"yes","issue":"1","has_accepted_license":"1","volume":86,"intvolume":" 86","status":"public","file":[{"file_name":"2026_MolecularCell_Kelley.pdf","relation":"main_file","date_created":"2026-07-28T07:38:45Z","date_updated":"2026-07-28T07:38:45Z","creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"96a2f8519124d1a0d9de8d2594bf7147","success":1,"file_size":26749637,"file_id":"22599"}],"year":"2026","supplementarymaterial":"yes"},{"OA_type":"green","article_processing_charge":"No","_id":"20858","quality_controlled":"1","page":"397-406","type":"journal_article","abstract":[{"text":"Targeted antigen delivery to immune cells, particularly dendritic cells, has emerged as a promising strategy to enhance therapeutic efficacy of vaccines, while minimizing adverse effects associated with conventional immunization. In this study, we use our previously described small glycomimetic molecule that is selectively recognized by the Langerhans cell (LC)-specific surface receptor Langerin and demonstrate specific delivery of protein antigens to these specialized dendritic cells. Our results show that Langerin-mediated antigen delivery significantly enhances the immune response in vivo, resulting in increased expansion and activation of antigen-specific T cells, compared to immunization with unmodified antigen. We demonstrate the feasibility of our LC-targeted platform for immune cell-specific immunization with protein antigen and underscore the potential of LCs as an access point for next-generation vaccines and immunotherapies.","lang":"eng"}],"title":"Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response","department":[{"_id":"PreCl"}],"year":"2026","supplementarymaterial":"yes","intvolume":" 34","status":"public","issue":"1","volume":34,"biorxivid":1,"researchdata_availability":"upon request","publication_identifier":{"eissn":["1525-0024"],"issn":["1525-0016"]},"scopus_import":"1","language":[{"iso":"eng"}],"day":"07","publication_status":"published","publisher":"Elsevier","publication":"Molecular Therapy","date_created":"2025-12-28T23:01:26Z","acknowledgement":"This project was generously supported by Seedfinancing (grant no. P2282679) of the Austrian Bundesministerium für Digitalisierung und Wirtschaftsstandort and the Bundesministerium für Klimaschutz, Umwelt, Energie, Mobilität, Innovation, und Technologie, handled by the Austrian Wirtschaftsservice (aws), as well as by Life Science Call 2022 (grant no. FO999896442) of the Austrian Research Promotion Agency (FFG). We thank Mag. Michael Schunn from the PCF of the Institute of Science and Technology Austria for his continuous technical support.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","dataavailabilitystatement":"The data that support the findings of this study are available on request from the corresponding authors.","citation":{"mla":"Rica, Ramona, et al. “Langerhans Cell-Targeted Protein Delivery Enhances Antigen-Specific Cellular Immune Response.” Molecular Therapy, vol. 34, no. 1, Elsevier, 2026, pp. 397–406, doi:10.1016/j.ymthe.2025.10.008.","ista":"Rica R, Klein K, Johnson L, Carta G, Sarcevic M, Langer F, Rademacher C, Wawrzinek R, Quattrone F, Sparber F. 2026. Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. 34(1), 397–406.","chicago":"Rica, Ramona, Klara Klein, Litty Johnson, Gabriele Carta, Mirza Sarcevic, Freyja Langer, Christoph Rademacher, Robert Wawrzinek, Federica Quattrone, and Florian Sparber. “Langerhans Cell-Targeted Protein Delivery Enhances Antigen-Specific Cellular Immune Response.” Molecular Therapy. Elsevier, 2026. https://doi.org/10.1016/j.ymthe.2025.10.008.","short":"R. Rica, K. Klein, L. Johnson, G. Carta, M. Sarcevic, F. Langer, C. Rademacher, R. Wawrzinek, F. Quattrone, F. Sparber, Molecular Therapy 34 (2026) 397–406.","ama":"Rica R, Klein K, Johnson L, et al. Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. 2026;34(1):397-406. doi:10.1016/j.ymthe.2025.10.008","ieee":"R. Rica et al., “Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response,” Molecular Therapy, vol. 34, no. 1. Elsevier, pp. 397–406, 2026.","apa":"Rica, R., Klein, K., Johnson, L., Carta, G., Sarcevic, M., Langer, F., … Sparber, F. (2026). Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. Elsevier. https://doi.org/10.1016/j.ymthe.2025.10.008"},"OA_place":"repository","article_type":"original","doi":"10.1016/j.ymthe.2025.10.008","month":"01","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2025.05.05.652195"}],"author":[{"first_name":"Ramona","last_name":"Rica","full_name":"Rica, Ramona"},{"full_name":"Klein, Klara","last_name":"Klein","first_name":"Klara"},{"full_name":"Johnson, Litty","last_name":"Johnson","first_name":"Litty"},{"last_name":"Carta","full_name":"Carta, Gabriele","first_name":"Gabriele"},{"first_name":"Mirza","last_name":"Sarcevic","full_name":"Sarcevic, Mirza"},{"id":"3C1BE782-F248-11E8-B48F-1D18A9856A87","last_name":"Langer","full_name":"Langer, Freyja","first_name":"Freyja"},{"full_name":"Rademacher, Christoph","last_name":"Rademacher","first_name":"Christoph"},{"first_name":"Robert","last_name":"Wawrzinek","full_name":"Wawrzinek, Robert"},{"first_name":"Federica","full_name":"Quattrone, Federica","last_name":"Quattrone"},{"first_name":"Florian","full_name":"Sparber, Florian","last_name":"Sparber"}],"oa_version":"Preprint","date_updated":"2026-07-28T07:37:08Z","date_published":"2026-01-07T00:00:00Z","external_id":{"biorxivid":["10.1101/2025.05.05.652195"]}},{"intvolume":" 37","status":"public","year":"2026","volume":37,"issue":"1","page":"43-54","quality_controlled":"1","_id":"20537","article_processing_charge":"No","OA_type":"closed access","department":[{"_id":"BaPi"}],"isi":1,"title":"Photochemical cross-couplings using semiconducting materials","abstract":[{"text":"In this personal account, I describe the work performed in my research group on the development of methods that harness heterogeneous photocatalysts for light-mediated nickel-catalyzed cross-couplings. This includes catalytic systems using carbon nitride materials, dye-sensitized TiO₂, covalent organic frameworks (COFs), and conjugated polymers. The rationale behind the selection of materials and how their use led to the identification of catalyst deactivation, structure–activity relationships, and future opportunities is discussed.","lang":"eng"}],"type":"journal_article","author":[{"orcid":"0000-0001-8689-388X","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"Bartholomäus","full_name":"Pieber, Bartholomäus","last_name":"Pieber"}],"corr_author":"1","month":"01","doi":"10.1055/a-2690-9269","article_type":"original","external_id":{"isi":["001582268500001"]},"date_published":"2026-01-01T00:00:00Z","date_updated":"2026-07-28T07:42:47Z","oa_version":"None","publication_status":"published","publisher":"Georg Thieme Verlag","day":"01","language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"issn":["0936-5214"],"eissn":["1437-2096"]},"citation":{"mla":"Pieber, Bartholomäus. “Photochemical Cross-Couplings Using Semiconducting Materials.” Synlett, vol. 37, no. 1, Georg Thieme Verlag, 2026, pp. 43–54, doi:10.1055/a-2690-9269.","apa":"Pieber, B. (2026). Photochemical cross-couplings using semiconducting materials. Synlett. Georg Thieme Verlag. https://doi.org/10.1055/a-2690-9269","ieee":"B. Pieber, “Photochemical cross-couplings using semiconducting materials,” Synlett, vol. 37, no. 1. Georg Thieme Verlag, pp. 43–54, 2026.","chicago":"Pieber, Bartholomäus. “Photochemical Cross-Couplings Using Semiconducting Materials.” Synlett. Georg Thieme Verlag, 2026. https://doi.org/10.1055/a-2690-9269.","ista":"Pieber B. 2026. Photochemical cross-couplings using semiconducting materials. Synlett. 37(1), 43–54.","ama":"Pieber B. Photochemical cross-couplings using semiconducting materials. Synlett. 2026;37(1):43-54. doi:10.1055/a-2690-9269","short":"B. Pieber, Synlett 37 (2026) 43–54."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","das_tickbox":"1","date_created":"2025-10-26T23:01:35Z","publication":"Synlett"},{"supplementarymaterial":"yes","year":"2026","intvolume":" 6","status":"public","file":[{"file_size":3679297,"file_id":"22597","checksum":"f896b510480d2d4e4a7fd46c2e2761f4","access_level":"open_access","success":1,"relation":"main_file","file_name":"2026_CellGenomics_Kraetschmer.pdf","date_updated":"2026-07-28T07:24:50Z","creator":"dernst","date_created":"2026-07-28T07:24:50Z","content_type":"application/pdf"}],"has_accepted_license":"1","volume":6,"issue":"7","pmid":1,"researchdata_availability":"yes","file_date_updated":"2026-07-28T07:24:50Z","article_processing_charge":"Yes","acknowledged_ssus":[{"_id":"ScienComp"}],"OA_type":"gold","_id":"21987","quality_controlled":"1","abstract":[{"text":"We introduce JODIE, a genetic joint modeling approach that estimates how DNA loci influence human traits by partitioning genetic effects into four components: direct effects (from a child’s alleles), indirect maternal and paternal effects (from parents’ alleles), and parent-of-origin (PofO) effects (dependent on parental transmission of alleles), while uniquely accounting for assortative mating. We analyze 30,000 child-mother-father trios from the Estonian Biobank and the Norwegian Mother, Father, and Child Cohort, focusing on height, body mass index, and childhood educational test scores. We find direct effects to be the largest contributor to trait variation, but combined, indirect parental and PofO effects are similarly substantial. We support our results by within-family genome-wide association testing and identify 276 independently associated DNA regions with a complex interplay between direct, indirect, and PofO effects. By joint modeling, we show that direct, indirect, and PofO effects collectively shape human phenotypic variation across loci genome-wide.","lang":"eng"}],"title":"Separating direct, indirect, and parent-of-origin genetic effects in the human population","type":"journal_article","keyword":["direct genetic effects","DGE","indirect genetic effects","IGE","parent-of-origin effects","phenotypic variation","assortative mating","within-family GWAS","MoBa","EstBB"],"department":[{"_id":"MaRo"}],"month":"07","corr_author":"1","ddc":["570"],"oa":1,"OA_place":"publisher","article_type":"original","doi":"10.1016/j.xgen.2026.101277","DOAJ_listed":"1","author":[{"orcid":"0000-0002-5636-9259","id":"30d4014e-7753-11eb-b44b-db6d61112e73","first_name":"Ilse","last_name":"Krätschmer","full_name":"Krätschmer, Ilse"},{"full_name":"Hegemann, Laura","last_name":"Hegemann","first_name":"Laura"},{"first_name":"Robin J.","last_name":"Hofmeister","full_name":"Hofmeister, Robin J."},{"full_name":"Corfield, Elizabeth C.","last_name":"Corfield","first_name":"Elizabeth C."},{"full_name":"Mahmoudi, Mahdi","last_name":"Mahmoudi","first_name":"Mahdi"},{"full_name":"Delaneau, Olivier","last_name":"Delaneau","first_name":"Olivier"},{"last_name":"Andreassen","full_name":"Andreassen, Ole A.","first_name":"Ole A."},{"last_name":"Campbell","full_name":"Campbell, Archie","first_name":"Archie"},{"first_name":"Caroline","full_name":"Hayward, Caroline","last_name":"Hayward"},{"first_name":"Riccardo E.","full_name":"Marioni, Riccardo E.","last_name":"Marioni"},{"last_name":"Ystrom","full_name":"Ystrom, Eivind","first_name":"Eivind"},{"first_name":"Alexandra","full_name":"Havdahl, Alexandra","last_name":"Havdahl"},{"orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","first_name":"Matthew Richard","full_name":"Robinson, Matthew Richard","last_name":"Robinson"}],"date_published":"2026-07-08T00:00:00Z","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_version":"Published Version","date_updated":"2026-07-28T07:27:01Z","article_number":"101277","external_id":{"pmid":["40909755"]},"scopus_import":"1","language":[{"iso":"eng"}],"day":"08","project":[{"grant_number":"PCEGP3_181181","_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","name":"Improving estimation and prediction of common complex disease risk"}],"publication_identifier":{"eissn":["2666-979X"]},"publication_status":"published","publisher":"Elsevier","acknowledgement":"We thank Zoltan Kutalik, Peter Visscher, and members of the Robinson group at ISTA for their comments, which improved this manuscript. This work was funded by an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181) and by core funding from the Institute of Science and Technology Austria.\r\nThe Norwegian Mother, Father, and Child Cohort Study is supported by the Norwegian Ministry of Health and Care Services and the Ministry of Education and Research. We are grateful to all the participating families in Norway who take part in this on-going cohort study. We thank the Norwegian Institute of Public Health (NIPH) for generating high-quality genomic data. The research is part of the HARVEST collaboration, supported by the Research Council of Norway (#229624). We also thank the NORMENT Center for providing genotype data, funded by the Research Council of Norway (#223273), South East Norway Health Authorities, and Stiftelsen Kristian Gerhard Jebsen, and in collaboration with deCODE Genetics. We further thank the Center for Diabetes Research, the University of Bergen for providing genotype data funded by the ERC AdG project SELECTionPREDISPOSED, Stiftelsen Kristian Gerhard Jebsen, Trond Mohn Foundation, the Research Council of Norway, the Novo Nordisk Foundation, the University of Bergen, and the Western Norway Health Authorities. The MoBa work was performed on the TSD (Tjeneste for Sensitive Data) facilities, owned by the University of Oslo, operated and developed by the TSD service group at the University of Oslo, IT Department (USIT, tsd-drift@usit.uio.no). E.Y. is supported by the European Union (grant numbers 101045526 and 101073237) and the Research Council of Norway (grant numbers 336078, 288083, and 331640).\r\nWe would like to acknowledge the participants and investigators of the Generation Scotland Cohort study. Generation Scotland received core support from the Chief Scientist Office of the Scottish Government Health Directorates (CZD/16/6) and the Scottish Funding Council (HR03006). Genotyping and methylation typing of the GS:SFHS samples was carried out by the Genetics Core Laboratory at the Wellcome Trust Clinical Research Facility, Edinburgh, Scotland and was funded by the Medical Research Council UK and the Wellcome Trust (Wellcome Trust Strategic Award “STratifying Resilience and Depression Longitudinally” [STRADL] ref. 104036/Z/14/Z).\r\nWe would like to thank and acknowledge the participants and investigators of the Estonian Biobank (EstBB) study. The research was conducted using the Estonian Center of Genomics/Roadmap II funded by the Estonian Research Council (project number TT17).\r\nNorwegian analyses were performed on resources provided by Sigma2 - the National Infrastructure for High-Performance Computing and Data Storage in Norway. Estonian Data analysis was carried out in the High-Performance Computing Center cloud provided by University of Tartu. Analysis of the Generation Scotland data and the summary statistics obtained from the other analyses was conducted at IST Austria and is supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp).","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Cell Genomics","das_tickbox":"1","date_created":"2026-06-10T07:39:08Z","citation":{"mla":"Krätschmer, Ilse, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics, vol. 6, no. 7, 101277, Elsevier, 2026, doi:10.1016/j.xgen.2026.101277.","apa":"Krätschmer, I., Hegemann, L., Hofmeister, R. J., Corfield, E. C., Mahmoudi, M., Delaneau, O., … Robinson, M. R. (2026). Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. Elsevier. https://doi.org/10.1016/j.xgen.2026.101277","ieee":"I. Krätschmer et al., “Separating direct, indirect, and parent-of-origin genetic effects in the human population,” Cell Genomics, vol. 6, no. 7. Elsevier, 2026.","ama":"Krätschmer I, Hegemann L, Hofmeister RJ, et al. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 2026;6(7). doi:10.1016/j.xgen.2026.101277","chicago":"Krätschmer, Ilse, Laura Hegemann, Robin J. Hofmeister, Elizabeth C. Corfield, Mahdi Mahmoudi, Olivier Delaneau, Ole A. Andreassen, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics. Elsevier, 2026. https://doi.org/10.1016/j.xgen.2026.101277.","ista":"Krätschmer I, Hegemann L, Hofmeister RJ, Corfield EC, Mahmoudi M, Delaneau O, Andreassen OA, Campbell A, Hayward C, Marioni RE, Ystrom E, Havdahl A, Robinson MR. 2026. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 6(7), 101277.","short":"I. Krätschmer, L. Hegemann, R.J. Hofmeister, E.C. Corfield, M. Mahmoudi, O. Delaneau, O.A. Andreassen, A. Campbell, C. Hayward, R.E. Marioni, E. Ystrom, A. Havdahl, M.R. Robinson, Cell Genomics 6 (2026)."},"dataavailabilitystatement":"Information on how to access the MoBaPsychGen post-imputation QC data are available here: https://www.fhi.no/en/me/the-psychgen-centre-for-genetic-epidemiology-and-mental-health/access-to-genetic-data-after-quality-control-by-the-mobapsychgen-pipeline-v/.\r\nEstonian Biobank data (https://genomics.ut.ee/en/content/estonian-biobank) were used in this project. For access to be granted to the Estonian Biobank genotypic and corresponding phenotypic data, a preliminary application must be presented to the oversight committee, who must first approve the project. Ethics permission must then be obtained from the Estonian Committee on Bioethics and Human Research. Finally, a full project must be submitted and approved by the Estonian Biobank.\r\nAccess to the Generation Scotland data is available with appropriate permission from the Generation Scotland Access Committee. Applications should be made to access@generationscotland.org (https://genscot.ed.ac.uk/).\r\nThe code for JODIE developed in this work is open source and is publicly available on zenodo (https://doi.org/10.5281/zenodo.19593928) and GitHub (https://github.com/medical-genomics-group/JODIE).\r\nHaplotype Reference Consortium Release 1.1 data (https://ega-archive.org/datasets/EGAD00001002729) are available by application to a Data Access Committee (DAC) of the Wellcome Trust Sanger Institute.\r\nThe Common Metabolic Diseases Atlas can be accessed here: https://cmdga.org."},{"page":"169","_id":"22258","acknowledged_ssus":[{"_id":"ScienComp"}],"article_processing_charge":"No","related_material":{"record":[{"status":"public","id":"21488","relation":"part_of_dissertation"}]},"alternative_title":["ISTA Thesis"],"keyword":["Approximate Message Passing","GWAS","Genomics","Proteomics","Survival modeling"],"department":[{"_id":"GradSch"},{"_id":"MaRo"},{"_id":"MaMo"}],"title":"From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics","abstract":[{"text":"Uncovering the genetic architecture of complex traits and pinpointing causal molecular drivers require the ability to distinguish true signals from noise within massive, high-dimensional omics datasets. To extract meaningful biological insights from these datasets, such as identifying causal genetic variants and proteins, scalable and accurate inference methods are essential. To this end, this thesis develops novel Bayesian inference frameworks based on Vector Approximate Message Passing and demonstrates their effectiveness in the modeling of disease onset times and quantitative physical and clinical measures.\r\n\r\nFirst, we introduce gVAMP, a Bayesian framework tailored for Genome-Wide Association Studies that enables the joint modeling of quantitative complex traits across millions of genetic variants. gVAMP demonstrates superior accuracy in variable selection and out-of-sample polygenic risk prediction compared to state-of-the-art approaches. We model human height using 17 million whole-genome sequence variants from the UK Biobank, incorporating a vast number of rare variants and revealing novel associations. gVAMP achieves a prediction accuracy of approximately 46% for human height, representing the highest reported performance for this trait to date. \r\n\r\nSecond, we present vampW, a Bayesian framework for survival analysis applied to proteomic data. By effectively handling right-censoring and complex protein dependencies within the UK Biobank Pharma Proteomics Project dataset, vampW identifies 219 protein associations across 24 disease outcomes, the majority of which are not among the top marginal discoveries. We further adjust protein levels for exponential age effects, yielding 1,308 associations and highlighting the sensitivity of the analysis to the chosen age-correction methodology. Finally, vampW improves upon the variable selection capabilities of the commonly used (penalized) variants of the Cox proportional hazards model and delivers state-of-the-art out-of-sample prediction of disease onset times.\r\n\r\nCollectively, these methods provide powerful tools for dissecting the genetic architecture of complex traits and the proteomic drivers of disease onset. Furthermore, by delivering accurate polygenic risk scores and precise predictions of onset times, this work advances the capabilities of personalized medicine and clinical risk stratification.","lang":"eng"}],"type":"dissertation","file":[{"date_updated":"2026-07-13T14:52:19Z","date_created":"2026-07-13T14:52:19Z","creator":"adepope","content_type":"application/pdf","file_name":"2026_Depope_Al_Thesis.pdf","relation":"main_file","file_id":"22316","file_size":25109878,"access_level":"open_access","checksum":"9ab386790515628d957a194f30a7ccb4"},{"access_level":"closed","checksum":"8ed8fb63f76a695d5b6fec35343f4b90","file_id":"22317","file_size":1203199939,"creator":"adepope","date_created":"2026-07-13T14:56:41Z","date_updated":"2026-07-13T14:56:41Z","content_type":"application/zip","relation":"source_file","file_name":"2026_Depope_Al_Thesis.zip"}],"doi_confirm":"1","status":"public","year":"2026","file_date_updated":"2026-07-13T14:56:41Z","has_accepted_license":"1","publication_status":"published","publisher":"Institute of Science and Technology Austria","project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"},{"grant_number":"101161364","_id":"911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf","name":"Inference in High Dimensions: Light-speed Algorithms and Information Limits"},{"grant_number":"PCEGP3_181181","_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","name":"Improving estimation and prediction of common complex disease risk"}],"day":"11","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2663-337X"]},"citation":{"mla":"Depope, Al. From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22258.","ieee":"A. Depope, “From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics,” Institute of Science and Technology Austria, 2026.","chicago":"Depope, Al. “From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22258.","ama":"Depope A. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. 2026. doi:10.15479/AT-ISTA-22258","ista":"Depope A. 2026. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria.","short":"A. Depope, From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics, Institute of Science and Technology Austria, 2026.","apa":"Depope, A. (2026). From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22258"},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"This work was supported in part by the Swiss National Science Foundation through the\r\nEccellenza Grant \"Improving estimation and prediction of common complex disease risk\"\r\n(grant number PCEGP3_181181); the European Research Council through the grant\r\n\"Inference in High Dimensions: Light-speed Algorithms and Information Limits\" (grant\r\nnumber 101161364); and the Fondation Jean-Jacques et Felicia Lopez-Loreta through the\r\nPrix Lopez-Loretta 2019.\r\n","date_created":"2026-07-10T13:27:20Z","das_tickbox":"1","author":[{"id":"0b77531d-dbcd-11ea-9d1d-a8eee0bf3830","full_name":"Depope, Al","last_name":"Depope","first_name":"Al"}],"oa":1,"ddc":["576","610","006"],"corr_author":"1","month":"07","doi":"10.15479/AT-ISTA-22258","degree_awarded":"PhD","OA_place":"publisher","supervisor":[{"id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","last_name":"Robinson","full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard"},{"first_name":"Marco","full_name":"Mondelli, Marco","last_name":"Mondelli","orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425"}],"date_published":"2026-07-11T00:00:00Z","date_updated":"2026-07-28T07:08:15Z","oa_version":"Published Version"},{"date_created":"2026-03-23T15:10:03Z","das_tickbox":"1","publication":"Cell Genomics","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank Malgorzata Borczyk for creating the gene burden scores. We thank Robin Beaumont, Amedeo Roberto Esposito, Gareth Hawkes, Philip Schniter, Matthew Stephens, Pragya Sur, Peter Visscher, Michael Weedon, and Harry Wright for providing valuable suggestions and comments on earlier versions of the work. This project was funded by a Lopez-Loreta Prize to M.M., an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181), an ERC Starting Grant to M.M. (INF2, project number 101161364), and core funding from ISTA. High-performance computing was supported by the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp). We would like to acknowledge the participants and investigators of the UK Biobank study. We gratefully acknowledge the All of Us participants for their contributions, without whom this research would not have been possible. We also thank the National Institutes of Health All of Us Research Program for making available the participant data (and/or samples and/or cohort) examined in this study.","dataavailabilitystatement":"This project uses the UK Biobank data under project number 35520. UK Biobank genotypic and phenotypic data are available through a formal request at http://www.ukbiobank.ac.uk. It also uses genotypic and phenotypic data from the All of Us study, which are also available through a formal request at https://www.researchallofus.org/data-tools/data-access/. All summary statistic estimates are released publicly on Dryad: https://doi.org/10.5061/dryad.cz8w9gjjc.\r\n•\r\nThe gVAMP code developed in this work is open source and has been deposited on GitHub, where it is publicly available at https://github.com/medical-genomics-group/gVAMP, and the code used to generate the data in the manuscript are available from Zenodo https://doi.org/10.5281/zenodo.17935521. The URLs of other software used are listed in the key resources table.","citation":{"ista":"Depope A, Bajzik J, Mondelli M, Robinson MR. 2026. Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. 6(5), 101162.","short":"A. Depope, J. Bajzik, M. Mondelli, M.R. Robinson, Cell Genomics 6 (2026).","ama":"Depope A, Bajzik J, Mondelli M, Robinson MR. Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. 2026;6(5). doi:10.1016/j.xgen.2026.101162","chicago":"Depope, Al, Jakub Bajzik, Marco Mondelli, and Matthew Richard Robinson. “Joint Modeling of Whole-Genome Sequencing Data for Human Height via Approximate Message Passing.” Cell Genomics. Elsevier, 2026. https://doi.org/10.1016/j.xgen.2026.101162.","ieee":"A. Depope, J. Bajzik, M. Mondelli, and M. R. Robinson, “Joint modeling of whole-genome sequencing data for human height via approximate message passing,” Cell Genomics, vol. 6, no. 5. Elsevier, 2026.","apa":"Depope, A., Bajzik, J., Mondelli, M., & Robinson, M. R. (2026). Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. Elsevier. https://doi.org/10.1016/j.xgen.2026.101162","mla":"Depope, Al, et al. “Joint Modeling of Whole-Genome Sequencing Data for Human Height via Approximate Message Passing.” Cell Genomics, vol. 6, no. 5, 101162, Elsevier, 2026, doi:10.1016/j.xgen.2026.101162."},"publication_identifier":{"eissn":["2666-979X"]},"day":"13","project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"},{"grant_number":"101161364","name":"Inference in High Dimensions: Light-speed Algorithms and Information Limits","_id":"911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf"},{"_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","name":"Improving estimation and prediction of common complex disease risk","grant_number":"PCEGP3_181181"}],"language":[{"iso":"eng"}],"scopus_import":"1","publication_status":"published","publisher":"Elsevier","date_updated":"2026-07-28T07:08:15Z","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_version":"Published Version","date_published":"2026-05-13T00:00:00Z","external_id":{"pmid":["41713425"]},"article_number":"101162","doi":"10.1016/j.xgen.2026.101162","OA_place":"publisher","article_type":"original","ddc":["000","570"],"oa":1,"month":"05","corr_author":"1","author":[{"first_name":"Al","full_name":"Depope, Al","last_name":"Depope","id":"0b77531d-dbcd-11ea-9d1d-a8eee0bf3830"},{"first_name":"Jakub","full_name":"Bajzik, Jakub","last_name":"Bajzik","id":"b995e25b-8c4b-11ed-a6d8-f71b7bcd6122"},{"first_name":"Marco","last_name":"Mondelli","full_name":"Mondelli, Marco","orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425"},{"id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","last_name":"Robinson","full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard"}],"DOAJ_listed":"1","type":"journal_article","title":"Joint modeling of whole-genome sequencing data for human height via approximate message passing","abstract":[{"lang":"eng","text":"Human height is a model for the genetic analysis of complex traits, and recent studies suggest the presence of thousands of common genetic variant associations and hundreds of low-frequency/rare variants. Here, we develop a new algorithmic paradigm based on approximate message passing (genomic vector approximate message passing [gVAMP]) for identifying DNA sequence variants associated with complex traits and common diseases in large-scale whole-genome sequencing (WGS) data. We show that gVAMP accurately localizes associations to variants with the correct frequency and position in the DNA, outperforming existing fine-mapping methods in selecting the appropriate genetic variants within WGS data. We then apply gVAMP to jointly model the relationship of tens of millions of WGS variants with human height in hundreds of thousands of UK Biobank individuals. We identify 59 rare variants and gene burden scores alongside many hundreds of DNA regions containing common variant associations and show that understanding the genetic basis of complex traits will require the joint analysis of hundreds of millions of variables measured on millions of people. The polygenic risk scores obtained from gVAMP have high accuracy (including a prediction accuracy of ∼46% for human height) and outperform current methods for downstream tasks such as mixed linear model association testing across 13 UK Biobank traits. In conclusion, gVAMP offers a scalable foundation for a wider range of analyses in WGS data."}],"department":[{"_id":"MaMo"},{"_id":"MaRo"}],"related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/big-data-and-human-height/","description":"News on ISTA website"}],"record":[{"id":"22258","status":"public","relation":"dissertation_contains"}]},"OA_type":"gold","article_processing_charge":"Yes","quality_controlled":"1","_id":"21488","issue":"5","has_accepted_license":"1","volume":6,"file_date_updated":"2026-07-28T07:06:26Z","researchdata_availability":"yes","pmid":1,"year":"2026","supplementarymaterial":"yes","file":[{"file_id":"22596","file_size":3736705,"success":1,"access_level":"open_access","checksum":"6b59686f8d9733add4f23d23f3dd9df0","content_type":"application/pdf","creator":"dernst","date_updated":"2026-07-28T07:06:26Z","date_created":"2026-07-28T07:06:26Z","file_name":"2026_CellGenomics_Depope.pdf","relation":"main_file"}],"status":"public","intvolume":" 6"},{"file_date_updated":"2026-07-28T07:31:44Z","researchdata_availability":"upon request","pmid":1,"issue":"14","has_accepted_license":"1","volume":36,"file":[{"content_type":"application/pdf","creator":"dernst","date_created":"2026-07-28T07:31:44Z","date_updated":"2026-07-28T07:31:44Z","relation":"main_file","file_name":"2026_CurrentBiology_KiangEwe.pdf","success":1,"checksum":"5ec4472d81fd44de03ccb92b1eb690a6","access_level":"open_access","file_id":"22598","file_size":6795092}],"intvolume":" 36","status":"public","year":"2026","supplementarymaterial":"yes","department":[{"_id":"MaDe"}],"type":"journal_article","title":"Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress","abstract":[{"text":"Thermal pollution, whether local or driven by global warming, threatens biodiversity in part through its detrimental effects on reproduction. Non-coding small RNAs (sRNAs) are crucial for maintaining germline developmental robustness under heat stress. Remarkably, we uncovered that neuronal sRNAs regulate germ cells’ thermotolerance, affecting both spermatogenic and oogenic germlines in a cell-non-autonomous manner. Furthermore, we demonstrate that, in RNAi mutants, an oxygen-sensing neural circuit, modulated by neuropeptide signaling, antagonizes germline maintenance, likely reflecting the nematode’s innate association of reduced oxygen levels with food availability and reproductive permissive environments. Finally, we provide evidence that laboratory-domesticated alleles of oxygen-response genes encoding neuropeptide receptor NPR-1 and hexacoordinated globin GLB-5 compromise germline thermotolerance. Hence, our findings raise the possibility that sensory perception, independent of direct environmental change, modulates germline integrity, highlighting a novel mechanism by which neural circuits integrate environmental information to safeguard reproductive fitness in fluctuating environments.","lang":"eng"}],"quality_controlled":"1","_id":"22267","page":"3566-3579.e5","OA_type":"hybrid","article_processing_charge":"Yes (in subscription journal)","external_id":{"pmid":["42409014"]},"date_updated":"2026-07-28T07:32:06Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2026-07-20T00:00:00Z","author":[{"last_name":"Ewe","full_name":"Ewe, Chee Kiang","first_name":"Chee Kiang"},{"last_name":"Achache","full_name":"Achache, Hanna","first_name":"Hanna"},{"first_name":"Hanna","full_name":"Schön, Hanna","last_name":"Schön","id":"C8E17EDC-D7AA-11E9-B7B7-45ECE5697425"},{"first_name":"Leonid","full_name":"Kontorovich, Leonid","last_name":"Kontorovich"},{"first_name":"Guy","full_name":"Teichman, Guy","last_name":"Teichman"},{"first_name":"Shir","last_name":"Weiss","full_name":"Weiss, Shir"},{"last_name":"Mogilevskaya","full_name":"Mogilevskaya, Anna","first_name":"Anna"},{"first_name":"Myriam","full_name":"Valenski, Myriam","last_name":"Valenski"},{"first_name":"Sarit","last_name":"Anava","full_name":"Anava, Sarit"},{"first_name":"Rutwik","last_name":"Bardapurkar","full_name":"Bardapurkar, Rutwik"},{"first_name":"Hila","full_name":"Gingold, Hila","last_name":"Gingold"},{"first_name":"Rachel","last_name":"Posner","full_name":"Posner, Rachel"},{"last_name":"Antonova","full_name":"Antonova, Olga","first_name":"Olga"},{"full_name":"De Bono, Mario","last_name":"De Bono","first_name":"Mario","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443"},{"first_name":"Yonatan B.","full_name":"Tzur, Yonatan B.","last_name":"Tzur"},{"first_name":"Oded","last_name":"Rechavi","full_name":"Rechavi, Oded"}],"doi":"10.1016/j.cub.2026.06.016","article_type":"original","OA_place":"publisher","oa":1,"ddc":["570"],"month":"07","dataavailabilitystatement":"* All NGS data are available through GEO under accession number GSE331410.\r\n* This paper does not report original code.\r\n* Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","citation":{"ieee":"C. K. Ewe et al., “Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress,” Current Biology, vol. 36, no. 14. Elsevier, p. 3566–3579.e5, 2026.","chicago":"Ewe, Chee Kiang, Hanna Achache, Hanna Schön, Leonid Kontorovich, Guy Teichman, Shir Weiss, Anna Mogilevskaya, et al. “Neuronal RNAi and Oxygen-Sensing Circuit Shape Germline Resilience to Heat Stress.” Current Biology. Elsevier, 2026. https://doi.org/10.1016/j.cub.2026.06.016.","short":"C.K. Ewe, H. Achache, H. Schön, L. Kontorovich, G. Teichman, S. Weiss, A. Mogilevskaya, M. Valenski, S. Anava, R. Bardapurkar, H. Gingold, R. Posner, O. Antonova, M. de Bono, Y.B. Tzur, O. Rechavi, Current Biology 36 (2026) 3566–3579.e5.","ista":"Ewe CK, Achache H, Schön H, Kontorovich L, Teichman G, Weiss S, Mogilevskaya A, Valenski M, Anava S, Bardapurkar R, Gingold H, Posner R, Antonova O, de Bono M, Tzur YB, Rechavi O. 2026. Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. 36(14), 3566–3579.e5.","ama":"Ewe CK, Achache H, Schön H, et al. Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. 2026;36(14):3566-3579.e5. doi:10.1016/j.cub.2026.06.016","apa":"Ewe, C. K., Achache, H., Schön, H., Kontorovich, L., Teichman, G., Weiss, S., … Rechavi, O. (2026). Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2026.06.016","mla":"Ewe, Chee Kiang, et al. “Neuronal RNAi and Oxygen-Sensing Circuit Shape Germline Resilience to Heat Stress.” Current Biology, vol. 36, no. 14, Elsevier, 2026, p. 3566–3579.e5, doi:10.1016/j.cub.2026.06.016."},"das_tickbox":"1","date_created":"2026-07-12T22:02:18Z","publication":"Current Biology","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank Itai Reiger for their assistance with experiments. We thank Cori Bargmann (Rockefeller University) for providing introgressed strains carrying HW alleles of npr-1 and glb-5. Some graphics were created with Biorender.com. We are grateful to WormBase for providing valuable data and resources. Some strains were provided by the Caenorhabditis Genetics Center (CGC), which is funded by NIH Office of Research Infrastructure Programs (P40 OD010440). O.R. is grateful for the support of the Morris Kahn Foundation. C.K.E. was supported by an EMBO fellowship ALTF 6-2022. This work is funded by Eric and Wendy Schmidt Fund for Strategic Innovation Polymath Award 0140001000 (O.R.); European Research Council grant 335624 (O.R.); Israel Science Foundation 979/21 (Y.B.T.); and the US-Israel Binational Science Foundation 2023036 (Y.B.T.).","publisher":"Elsevier","publication_status":"published","publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"day":"20","language":[{"iso":"eng"}],"scopus_import":"1"},{"citation":{"short":"A. Gulyaev, J. Hazarika, Z.-F. Liu, L. Venkataraman, Nano Letters 26 (2026) 7429–7434.","chicago":"Gulyaev, Artem, Jyotisman Hazarika, Zhen-Fei Liu, and Latha Venkataraman. “A Computationally Efficient and Accurate Method for Predicting Conductance of Single-Molecule Junctions.” Nano Letters. American Chemical Society, 2026. https://doi.org/10.1021/acs.nanolett.6c01462.","ista":"Gulyaev A, Hazarika J, Liu Z-F, Venkataraman L. 2026. A computationally efficient and accurate method for predicting conductance of single-molecule junctions. Nano Letters. 26(22), 7429–7434.","ama":"Gulyaev A, Hazarika J, Liu Z-F, Venkataraman L. A computationally efficient and accurate method for predicting conductance of single-molecule junctions. Nano Letters. 2026;26(22):7429–7434. doi:10.1021/acs.nanolett.6c01462","ieee":"A. Gulyaev, J. Hazarika, Z.-F. Liu, and L. Venkataraman, “A computationally efficient and accurate method for predicting conductance of single-molecule junctions,” Nano Letters, vol. 26, no. 22. American Chemical Society, pp. 7429–7434, 2026.","apa":"Gulyaev, A., Hazarika, J., Liu, Z.-F., & Venkataraman, L. (2026). A computationally efficient and accurate method for predicting conductance of single-molecule junctions. Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.6c01462","mla":"Gulyaev, Artem, et al. “A Computationally Efficient and Accurate Method for Predicting Conductance of Single-Molecule Junctions.” Nano Letters, vol. 26, no. 22, American Chemical Society, 2026, pp. 7429–7434, doi:10.1021/acs.nanolett.6c01462."},"publication":"Nano Letters","das_tickbox":"1","date_created":"2026-06-10T07:27:19Z","acknowledgement":"This work was supported primarily by the Institute of Science and Technology Austria. L.V. was supported in part by the National Science Foundation (No. NSF-DMR 2241180). Z.-F.L. was supported by an NSF CAREER Award, No. DMR-2044552 and an Alfred P. Sloan Research Fellowship, No. FG-2024-21750.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Chemical Society","publication_status":"published","publication_identifier":{"issn":["1530-6984"],"eissn":["1530-6992"]},"language":[{"iso":"eng"}],"scopus_import":"1","day":"01","external_id":{"pmid":["42223342"],"chemrxivid":["10.26434/chemrxiv.15001696"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","date_updated":"2026-07-28T09:57:28Z","date_published":"2026-06-01T00:00:00Z","author":[{"id":"83ed7901-7380-11f0-bf20-a0788d5e654d","full_name":"Gulyaev, Artem","last_name":"Gulyaev","first_name":"Artem"},{"last_name":"Hazarika","full_name":"Hazarika, Jyotisman","first_name":"Jyotisman","id":"d87714c4-663d-11f0-bd06-caece19833e5","orcid":"0009-0007-2542-7878"},{"last_name":"Liu","full_name":"Liu, Zhen-Fei","first_name":"Zhen-Fei"},{"full_name":"Venkataraman, Latha","last_name":"Venkataraman","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","orcid":"0000-0002-6957-6089"}],"OA_place":"publisher","article_type":"letter_note","doi":"10.1021/acs.nanolett.6c01462","PlanS_conform":"1","month":"06","corr_author":"1","oa":1,"ddc":["540"],"department":[{"_id":"LaVe"},{"_id":"GradSch"}],"type":"journal_article","abstract":[{"text":"Despite significant progress in the field of molecular electronics over the last two decades, the quantitative prediction of metal-molecule-metal junction conductance remains a challenge. The standard computational framework combines density functional theory (DFT) with nonequilibrium Green’s functions (NEGF) using low-rung exchange-correlation functionals such as PBE, which overestimate the conductances. More advanced correction methods exist but require complex workflows and high computational cost, limiting their accessibility. Here, we introduce a physically motivated approach that approximates results obtained with high-rung functionals. Our method fits the PBE-calculated transmission to a Breit-Wigner form and subsequently refines the fit parameters using molecular orbital energies and metal densities of states computed for the isolated subsystems with high-rung functionals. This approach is applicable to a broad range of molecular junctions yielding conductance values in quantitative agreement with experiments. Our approach is simple, low-cost, and accurate, making it well-suited for routine and large-scale prediction of single-molecule junction conductance.","lang":"eng"}],"title":"A computationally efficient and accurate method for predicting conductance of single-molecule junctions","_id":"21980","quality_controlled":"1","page":"7429–7434","OA_type":"hybrid","article_processing_charge":"Yes (via OA deal)","file_date_updated":"2026-06-16T09:11:35Z","pmid":1,"issue":"22","chemrxivid":1,"has_accepted_license":"1","volume":26,"intvolume":" 26","status":"public","file":[{"checksum":"897551374cac28e0db26dcb0b676b8e7","access_level":"open_access","success":1,"file_size":3362800,"file_id":"22013","file_name":"2026_NanoLetters_Gulyaev.pdf","relation":"main_file","date_created":"2026-06-16T09:11:35Z","date_updated":"2026-06-16T09:11:35Z","creator":"dernst","content_type":"application/pdf"}],"year":"2026"},{"file_date_updated":"2026-07-01T07:35:17Z","has_accepted_license":"1","file":[{"creator":"tkleinha","date_updated":"2026-06-30T09:17:15Z","date_created":"2026-06-30T09:17:15Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","relation":"source_file","file_name":"2026_Kleinhanns_Tobias_Thesis_Source_File.docx","access_level":"closed","checksum":"3df7e865a7d1da8972ccd8acb8b4c16c","file_id":"22226","file_size":15658266},{"creator":"tkleinha","date_created":"2026-07-01T07:35:17Z","date_updated":"2026-07-01T07:35:17Z","content_type":"application/pdf","file_name":"2026_Kleinhanns_Tobias_Thesis_Main_File_A4.pdf","relation":"main_file","file_id":"22232","file_size":9909375,"embargo":"2026-12-18","checksum":"40ec279272a963636ff29c964032dcba","embargo_to":"open_access","access_level":"closed"}],"status":"public","doi_confirm":"1","year":"2026","related_material":{"record":[{"status":"public","id":"15182","relation":"part_of_dissertation"},{"status":"public","id":"12237","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"20326"}]},"alternative_title":["ISTA Thesis"],"department":[{"_id":"GradSch"},{"_id":"MaIb"}],"title":"Unraveling the origin and evolution of defects to enable advanced thermoelectric performance","type":"dissertation","page":"59","_id":"22017","article_processing_charge":"No","supervisor":[{"first_name":"Maria","last_name":"Ibáñez","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843","id":"43C61214-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2026-06-18T00:00:00Z","date_updated":"2026-07-28T09:55:13Z","oa_version":"Published Version","author":[{"last_name":"Kleinhanns","full_name":"Kleinhanns, Tobias","first_name":"Tobias","id":"8BD9DE16-AB3C-11E9-9C8C-2A03E6697425","orcid":"0000-0003-1537-7436"}],"ddc":["546","530"],"month":"06","corr_author":"1","doi":"10.15479/AT-ISTA-22017","degree_awarded":"PhD","OA_place":"publisher","citation":{"ama":"Kleinhanns T. Unraveling the origin and evolution of defects to enable advanced thermoelectric performance. 2026. doi:10.15479/AT-ISTA-22017","chicago":"Kleinhanns, Tobias. “Unraveling the Origin and Evolution of Defects to Enable Advanced Thermoelectric Performance.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22017.","ista":"Kleinhanns T. 2026. Unraveling the origin and evolution of defects to enable advanced thermoelectric performance. Institute of Science and Technology Austria.","short":"T. Kleinhanns, Unraveling the Origin and Evolution of Defects to Enable Advanced Thermoelectric Performance, Institute of Science and Technology Austria, 2026.","ieee":"T. Kleinhanns, “Unraveling the origin and evolution of defects to enable advanced thermoelectric performance,” Institute of Science and Technology Austria, 2026.","apa":"Kleinhanns, T. (2026). Unraveling the origin and evolution of defects to enable advanced thermoelectric performance. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22017","mla":"Kleinhanns, Tobias. Unraveling the Origin and Evolution of Defects to Enable Advanced Thermoelectric Performance. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22017."},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_created":"2026-06-18T08:00:03Z","das_tickbox":"1","publication_status":"published","publisher":"Institute of Science and Technology Austria","project":[{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"day":"18","language":[{"iso":"eng"}],"publication_identifier":{"isbn":["978-3-99078-081-7"],"issn":["2663-337X"]}},{"external_id":{"arxiv":["2408.16848"]},"article_number":"012216","date_published":"2026-01-12T00:00:00Z","date_updated":"2026-07-29T08:59:30Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","orcid":"0000-0002-6963-0129","full_name":"Karle, Volker","last_name":"Karle","first_name":"Volker"},{"first_name":"Mikhail","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Adrien","full_name":"Bouhon, Adrien","last_name":"Bouhon"},{"last_name":"Slager","full_name":"Slager, Robert-Jan","first_name":"Robert-Jan"},{"first_name":"F. Nur","full_name":"Ünal, F. Nur","last_name":"Ünal"}],"ddc":["530"],"oa":1,"PlanS_conform":"1","month":"01","corr_author":"1","doi":"10.1103/db9d-9bns","article_type":"original","OA_place":"publisher","citation":{"apa":"Karle, V., Lemeshko, M., Bouhon, A., Slager, R.-J., & Ünal, F. N. (2026). Anomalous multigap topological phases in periodically driven quantum rotors. Physical Review A. American Physical Society. https://doi.org/10.1103/db9d-9bns","ama":"Karle V, Lemeshko M, Bouhon A, Slager R-J, Ünal FN. Anomalous multigap topological phases in periodically driven quantum rotors. Physical Review A. 2026;113(1). doi:10.1103/db9d-9bns","chicago":"Karle, Volker, Mikhail Lemeshko, Adrien Bouhon, Robert-Jan Slager, and F. Nur Ünal. “Anomalous Multigap Topological Phases in Periodically Driven Quantum Rotors.” Physical Review A. American Physical Society, 2026. https://doi.org/10.1103/db9d-9bns.","ista":"Karle V, Lemeshko M, Bouhon A, Slager R-J, Ünal FN. 2026. Anomalous multigap topological phases in periodically driven quantum rotors. Physical Review A. 113(1), 012216.","short":"V. Karle, M. Lemeshko, A. Bouhon, R.-J. Slager, F.N. Ünal, Physical Review A 113 (2026).","ieee":"V. Karle, M. Lemeshko, A. Bouhon, R.-J. Slager, and F. N. Ünal, “Anomalous multigap topological phases in periodically driven quantum rotors,” Physical Review A, vol. 113, no. 1. American Physical Society, 2026.","mla":"Karle, Volker, et al. “Anomalous Multigap Topological Phases in Periodically Driven Quantum Rotors.” Physical Review A, vol. 113, no. 1, 012216, American Physical Society, 2026, doi:10.1103/db9d-9bns."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank G. M. Koutentakis, S. Wimberger, J. G. E. Harris, T. Enss, and A. Ghazaryan for fruitful discussions. M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). R.-J.S. acknowledges funding from a EPSRC ERC underwrite (Grant No. EP/X025829/1), a EPSRC New Investigator Award (Grant No. EP/W00187X/1), and Trinity College, Cambridge. F.N.Ü. acknowledges support from the Marie Skłodowska-Curie Programme of the European Commission (Grant No. 893915), a Simons Investigator Award (Grant No. 511029), Trinity College Cambridge, and the Royal Society (Grant No. URF/R1/241667).","date_created":"2026-01-20T10:06:07Z","publication":"Physical Review A","publisher":"American Physical Society","publication_status":"published","project":[{"grant_number":"801770","name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"day":"12","scopus_import":"1","language":[{"iso":"eng"}],"arxiv":1,"publication_identifier":{"issn":["2469-9926"],"eissn":["2469-9934"]},"file_date_updated":"2026-01-21T09:04:48Z","volume":113,"has_accepted_license":"1","issue":"1","file":[{"file_size":2650256,"file_id":"21029","access_level":"open_access","checksum":"ca62a5050a234c0554e2583b1c126057","success":1,"file_name":"2026_PhysicalReviewA_Karle.pdf","relation":"main_file","creator":"dernst","date_created":"2026-01-21T09:04:48Z","date_updated":"2026-01-21T09:04:48Z","content_type":"application/pdf"}],"intvolume":" 113","status":"public","ec_funded":1,"year":"2026","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"19425"}]},"department":[{"_id":"MiLe"}],"title":"Anomalous multigap topological phases in periodically driven quantum rotors","abstract":[{"lang":"eng","text":"We demonstrate that periodically driven quantum rotors provide a promising and broadly applicable platform to implement multigap topological phases, where groups of bands can acquire topological invariants due to non-Abelian braiding of band degeneracies. By adiabatically varying the periodic kicks to the rotor we find nodal-line braiding, which causes sign flips of topological charges of band nodes and can prevent them from annihilating, indicated by nonzero values of the patch Euler class. In particular, we report on the emergence of an anomalous Dirac string phase arising in the strongly driven regime, a truly out-of-equilibrium phase of the quantum rotor. This phase emanates from braiding processes involving all (quasienergy) gaps and manifests itself with edge states at zero angular momentum. Our results reveal direct applications in state-of-the-art experiments of quantum rotors, such as linear molecules driven by periodic far-off-resonant laser pulses or artificial quantum rotors in optical lattices, whose extensive versatility offers precise modification and observation of novel non-Abelian topological properties."}],"type":"journal_article","quality_controlled":"1","_id":"21009","article_processing_charge":"Yes (via OA deal)","OA_type":"hybrid"},{"day":"01","language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"eissn":["1879-3363"],"issn":["002-5326X"]},"publisher":"Elsevier","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank the KIOST staff of the Jeju Marine Research Center for assisting sample collection, the research assistants and students of the Yoon Idea Lab led by Prof. Dr. Tae-Hyun Yoon at Hanyang University for facilitating and assisting in ICP-MS test runs involved in a pilot study preceding this study, Ms. Garance Perrois and Mr. Léonard Pons for assistance with statistics-related questions, and the two anonymous reviewers for their valuable comments and suggestions. The study described in this article was partially supported by grants from the Brain Pool Program through NRF funded by the Ministry of Science and ICT (reference code: 2019H1D3A1A01070922 to ABJ), by the Ministry of Oceans and Fisheries (grant number RS-2024-00406249 to TK), by the Korea Institute of Marine Science and Technology (KIMST), funded by the Ministry of Oceans and Fisheries (grant number RS-2025-02304432 to TK), and by the Korea Institute of Ocean Science and Technology (PEA0404 to TK).","das_tickbox":"1","date_created":"2026-03-08T23:01:44Z","publication":"Marine Pollution Bulletin","citation":{"mla":"Jöst, Anna B., et al. “Ostracod Shell Chemistry as Proxy for Coastal Marine Conditions of a Highly Urbanized Megacity (Hong Kong SAR) and an Agro-Centric Oceanic Province (Jeju Island, Republic of Korea) – a Preliminary Comparative Analysis.” Marine Pollution Bulletin, vol. 227, no. 6, 119493, Elsevier, 2026, doi:10.1016/j.marpolbul.2026.119493.","ieee":"A. B. Jöst et al., “Ostracod shell chemistry as proxy for coastal marine conditions of a highly urbanized megacity (Hong Kong SAR) and an agro-centric oceanic province (Jeju Island, Republic of Korea) – a preliminary comparative analysis,” Marine Pollution Bulletin, vol. 227, no. 6. Elsevier, 2026.","ista":"Jöst AB, Rodriguez Moreno MJ, Kim T, Baker DM, Yasuhara M, Not CA, Karanovic I. 2026. Ostracod shell chemistry as proxy for coastal marine conditions of a highly urbanized megacity (Hong Kong SAR) and an agro-centric oceanic province (Jeju Island, Republic of Korea) – a preliminary comparative analysis. Marine Pollution Bulletin. 227(6), 119493.","chicago":"Jöst, Anna B., Maximiliano J Rodriguez Moreno, Taihun Kim, David M. Baker, Moriaki Yasuhara, Christelle A. Not, and Ivana Karanovic. “Ostracod Shell Chemistry as Proxy for Coastal Marine Conditions of a Highly Urbanized Megacity (Hong Kong SAR) and an Agro-Centric Oceanic Province (Jeju Island, Republic of Korea) – a Preliminary Comparative Analysis.” Marine Pollution Bulletin. Elsevier, 2026. https://doi.org/10.1016/j.marpolbul.2026.119493.","ama":"Jöst AB, Rodriguez Moreno MJ, Kim T, et al. Ostracod shell chemistry as proxy for coastal marine conditions of a highly urbanized megacity (Hong Kong SAR) and an agro-centric oceanic province (Jeju Island, Republic of Korea) – a preliminary comparative analysis. Marine Pollution Bulletin. 2026;227(6). doi:10.1016/j.marpolbul.2026.119493","short":"A.B. Jöst, M.J. Rodriguez Moreno, T. Kim, D.M. Baker, M. Yasuhara, C.A. Not, I. Karanovic, Marine Pollution Bulletin 227 (2026).","apa":"Jöst, A. B., Rodriguez Moreno, M. J., Kim, T., Baker, D. M., Yasuhara, M., Not, C. A., & Karanovic, I. (2026). Ostracod shell chemistry as proxy for coastal marine conditions of a highly urbanized megacity (Hong Kong SAR) and an agro-centric oceanic province (Jeju Island, Republic of Korea) – a preliminary comparative analysis. Marine Pollution Bulletin. Elsevier. https://doi.org/10.1016/j.marpolbul.2026.119493"},"dataavailabilitystatement":"The datasets analysed during the current study are available within the manuscript and the associated supplementary materials.","month":"06","doi":"10.1016/j.marpolbul.2026.119493","article_type":"original","author":[{"last_name":"Jöst","full_name":"Jöst, Anna B.","first_name":"Anna B."},{"first_name":"Maximiliano J","full_name":"Rodriguez Moreno, Maximiliano J","last_name":"Rodriguez Moreno","id":"59bea3b2-8c82-11ef-a41a-af7b0efd9065"},{"full_name":"Kim, Taihun","last_name":"Kim","first_name":"Taihun"},{"first_name":"David M.","full_name":"Baker, David M.","last_name":"Baker"},{"full_name":"Yasuhara, Moriaki","last_name":"Yasuhara","first_name":"Moriaki"},{"full_name":"Not, Christelle A.","last_name":"Not","first_name":"Christelle A."},{"full_name":"Karanovic, Ivana","last_name":"Karanovic","first_name":"Ivana"}],"date_published":"2026-06-01T00:00:00Z","date_updated":"2026-07-29T10:09:31Z","oa_version":"None","external_id":{"pmid":["41774948"]},"article_number":"119493","article_processing_charge":"No","OA_type":"closed access","quality_controlled":"1","_id":"21406","title":"Ostracod shell chemistry as proxy for coastal marine conditions of a highly urbanized megacity (Hong Kong SAR) and an agro-centric oceanic province (Jeju Island, Republic of Korea) – a preliminary comparative analysis","abstract":[{"lang":"eng","text":"This preliminary study investigates the trace-element composition of ostracod shells (Ostracoda: Crustacea) as biogenic calcium carbonates in their role as environmental sentinels of pollution. Using high-resolution in-situ analysis, we compared two contrasting coastal systems: the highly urbanized seascape of metropolitan megacity Hong Kong (HKSAR) and the agriculturally dominated waters of rural retreat Jeju Island, Republic of Korea (ROK). The goal was to assess whether anthropogenic stress gradients affect trace element-to‑calcium ratios (E/Ca) in the carapaces of shallow-marine Neonesidea Maddocks, 1969 species. Hereby, the focus is laid on potential differences in the effects of extreme urbanization and extreme agriculturalization. We analyzed 12 trace elements commonly incorporated into ostracod shells using Inductively Coupled Plasma–Mass Spectrometry (ICP-MS). Only Mn/Ca, Mg/Ca, and Ni/Ca ratios showed strong correlations with specific seawater physicochemical parameters. Notably, Mn/Ca differed significantly between the two sites, seemingly driven mainly by variations in nitrite nitrogen levels. This suggests that Mn incorporation is sensitive to pollution source, urban versus agricultural, though species-specific uptake effects cannot be excluded. No significant differences in elemental uptake were found between adult and A-1 juvenile stages of Neonesidea mutsuensis Ishizaki, 1961 or Neonesidea elegans (Brady, 1969), supporting the use of both age groups in environmental reconstructions and increasing potential sample yields. While remaining empirical and exploratory, our tentative findings suggest that ostracod geochemistry holds promise for marine pollution monitoring and cautiously supports the application of ostracod Mn/Ca ratios to reconstruct anthropogenic, particularly nitrogen-related, impacts in nearshore environments using sediment core records."}],"type":"journal_article","department":[{"_id":"FrPe"}],"supplementarymaterial":"yes","year":"2026","intvolume":" 227","status":"public","volume":227,"issue":"6","pmid":1,"researchdata_availability":"yes"},{"external_id":{"pmid":["42143048"]},"article_number":"6499","date_published":"2026-07-17T00:00:00Z","date_updated":"2026-07-29T10:33:31Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"id":"2C0B105C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8421-5508","full_name":"Naik, Suyash","last_name":"Naik","first_name":"Suyash"},{"full_name":"Keta, Yann-Edwin","last_name":"Keta","first_name":"Yann-Edwin"},{"id":"4362B3C2-F248-11E8-B48F-1D18A9856A87","first_name":"Kornelija","full_name":"Pranjic-Ferscha, Kornelija","last_name":"Pranjic-Ferscha"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","last_name":"Hannezo","first_name":"Edouard B"},{"last_name":"Henkes","full_name":"Henkes, Silke","first_name":"Silke"},{"last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566"}],"oa":1,"ddc":["570"],"PlanS_conform":"1","month":"07","corr_author":"1","doi":"10.1038/s41467-026-72366-z","OA_place":"publisher","article_type":"original","citation":{"apa":"Naik, S., Keta, Y.-E., Pranjic-Ferscha, K., Hannezo, E. B., Henkes, S., & Heisenberg, C.-P. J. (2026). Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-026-72366-z","ieee":"S. Naik, Y.-E. Keta, K. Pranjic-Ferscha, E. B. Hannezo, S. Henkes, and C.-P. J. Heisenberg, “Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties,” Nature Communications, vol. 17. Springer Nature, 2026.","chicago":"Naik, Suyash, Yann-Edwin Keta, Kornelija Pranjic-Ferscha, Edouard B Hannezo, Silke Henkes, and Carl-Philipp J Heisenberg. “Keratins Coordinate Tissue Spreading by Balancing Spreading Forces with Tissue Material Properties.” Nature Communications. Springer Nature, 2026. https://doi.org/10.1038/s41467-026-72366-z.","short":"S. Naik, Y.-E. Keta, K. Pranjic-Ferscha, E.B. Hannezo, S. Henkes, C.-P.J. Heisenberg, Nature Communications 17 (2026).","ista":"Naik S, Keta Y-E, Pranjic-Ferscha K, Hannezo EB, Henkes S, Heisenberg C-PJ. 2026. Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties. Nature Communications. 17, 6499.","ama":"Naik S, Keta Y-E, Pranjic-Ferscha K, Hannezo EB, Henkes S, Heisenberg C-PJ. Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties. Nature Communications. 2026;17. doi:10.1038/s41467-026-72366-z","mla":"Naik, Suyash, et al. “Keratins Coordinate Tissue Spreading by Balancing Spreading Forces with Tissue Material Properties.” Nature Communications, vol. 17, 6499, Springer Nature, 2026, doi:10.1038/s41467-026-72366-z."},"dataavailabilitystatement":"The authors declare that the minimum dataset that is necessary to\r\ninterpret, verify, and extend the research in this article is included in\r\nthe supplementary information, the source data, and the archived data\r\nrepository (https://doi.org/10.15479/AT-ISTA-21137). This is also available\r\non GitHub at https://github.com/Suyash-Naik/2026-\r\nKeratinepithlialspreadingcoordinate-Data. Source data are provided\r\nwith this paper. The framework to develop the vertex models used in this paper are\r\navailable online on GitHub and archived in the source data provided.\r\nCustom scripts used for analysis of imaging and simulation data are\r\nprovided along with data files for all panels in the source data for this\r\nmanuscript on GitHub and in data repo (https://doi.org/10.15479/ATISTA-\r\n21137). Framework for the vertex model is available at https://\r\ngithub.com/yketta/cells. Code for analysis is available on GitHub\r\nhttps://github.com/Suyash-Naik/2026-\r\nKeratinepithlialspreadingcoordinate-Data.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank all members of the Heisenberg, Henkes, and Hannezo groups for their support. We are also grateful to the Imaging and Optics, Scientific Computing, Life Science Support, and Cryo-Electron Microscopy facilities at ISTA for their technical assistance and support. Numerical simulations were performed using the computational resources from Lorentz Institute and the Academic Leiden Interdisciplinary Cluster Environment (ALICE) provided by Leiden University, and from PMMH provided by Sorbonne Université. S.N has received funding from European Union’s Horizon 2020 research and innovation programme (grant agreement No. 665385). This work was supported by the Austrian Science Fund (FWF) under projects PAT5044023 and W1250 awarded to C.-P.H.","das_tickbox":"1","date_created":"2026-07-29T09:10:35Z","publication":"Nature Communications","publisher":"Springer Nature","publication_status":"published","project":[{"grant_number":"PAT 5044023","name":"Keratins in epithelial tissue spreading","_id":"8f060199-16d5-11f0-9cad-f3253b266c46"},{"grant_number":"W1250-B20","_id":"252C3B08-B435-11E9-9278-68D0E5697425","name":"Nano-Analytics of Cellular Systems","call_identifier":"FWF"}],"day":"17","language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"eissn":["2041-1723"]},"pmid":1,"researchdata_availability":"yes","file_date_updated":"2026-07-29T10:27:25Z","volume":17,"has_accepted_license":"1","file":[{"creator":"dernst","date_updated":"2026-07-29T10:27:25Z","date_created":"2026-07-29T10:27:25Z","content_type":"application/pdf","file_name":"2026_NatureComm_Naik.pdf","relation":"main_file","success":1,"access_level":"open_access","checksum":"f26d96e180c1d034d9c9c8f57c3c258b","file_id":"22609","file_size":15363936}],"status":"public","intvolume":" 17","supplementarymaterial":"yes","year":"2026","related_material":{"record":[{"status":"public","id":"20465","relation":"earlier_version"}]},"department":[{"_id":"Bio"},{"_id":"CaHe"},{"_id":"EdHa"}],"title":"Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties","abstract":[{"lang":"eng","text":"For tissues to spread, they must deform while staying intact. How spreading tissues balance flexibility with integrity is not yet well understood. Here, we show that keratin intermediate filaments adapt tissue mechanical resilience to the stresses arising in epithelial tissues during spreading. By analyzing the expansion of the enveloping cell layer (EVL) over the yolk cell in zebrafish embryos in vivo, we find that keratin network maturation in EVL cells is promoted by stresses building up within the spreading tissue. Through genetic interference and tissue rheology experiments, complemented by a vertex model with mechanochemical feedback, we demonstrate that stress-induced keratin network maturation in the EVL increases tissue viscosity, to prevent tissue rupture. Further, keratins are required in the yolk cell for mechanosensitive actomyosin network contraction and flow, the forces pulling the EVL. These dual mechanosensitive functions of keratins enable a balance between pulling force production and EVL mechanical resilience, ensuring uniform and robust tissue spreading."}],"type":"journal_article","quality_controlled":"1","_id":"22608","acknowledged_ssus":[{"_id":"Bio"},{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"EM-Fac"}],"article_processing_charge":"Yes","OA_type":"gold"},{"has_accepted_license":"1","researchdata_availability":"upon request","supplementarymaterial":"yes","year":"2026","status":"public","abstract":[{"lang":"eng","text":"Kontaktelektrifizierung tritt allgegenwärtig in der Natur auf, doch die Identität der Ladungsträger bleibt in den meisten Fällen unklar, mit Elektronen, Ionen oder nanoskopischen Materialfragmenten als mögliche Kandidaten. Ein Material, bei dem die übertragene Spezies mehr gewiss erscheint, sind Ionomere, d. h. Polymere mit mobilen Ionen, deren Ladung durch fest gebundene Gegenladungen ausgeglichen wird. Wenn Ionomere mit einer neutralen Oberfläche in Kontakt kommen, lädt sich diese mit dem Vorzeichen der mobilen Ionen auf, was stark auf Ionentransfer hindeutet. Der zugrundeliegende Mechanismus sowie die bestimmenden Einflussfaktoren dieses Transfers sind jedoch bislang nur unzureichend verstanden. In der vorliegenden Arbeit zeigen wir, dass die Bindungsaffinität zwischen den mobilen Ionen und dem Ionomer den Ladungstransfer maßgeblich bestimmt. Wir untersuchen Ionomere mit gebundenen Anionen und Kationen und erzeugen mittels Ionenaustausch Proben mit einer Reihe unterschiedlicher übertragbarer Ionen. Für das anionische Ionomer beobachten wir eine starke Abhängigkeit von der Bindungsaffinität, wobei mobile Kationen mit der höchsten Affinität am wenigsten Ladung übertragen. Eine schwächere, aber trotzdem klare Abhängigkeit wurde für das kationische Ionomer gemessen, welches der freien Hydratationsenergie der mobilen Anionen folgt. Mithilfe von optischer Emissionsspektroskopie mit induktiv gekoppeltem Plasma (ICP‐OES) bestätigen wir den Transfer von mobilen Ionen auf die Oberfläche der Gegenprobe. Unsere Ergebnisse bestätigen die Ladungsträgeridentität und den Mechanismus des Ladungstransfers bei ionomerischen Materialien, was auch für das allgemeine Verständnis von Kontaktelektrifizierung von Bedeutung sein könnte."}],"title":"Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung","type":"journal_article","department":[{"_id":"StFr"},{"_id":"ScWa"}],"article_processing_charge":"No","acknowledged_ssus":[{"_id":"LifeSc"}],"OA_type":"hybrid","_id":"22601","quality_controlled":"1","date_published":"2026-07-26T00:00:00Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2026-07-29T11:00:05Z","article_number":"e5487708","month":"07","corr_author":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/ange.5487708"}],"ddc":["540"],"OA_place":"publisher","article_type":"original","doi":"10.1002/ange.5487708","author":[{"last_name":"Hoffman Jr","full_name":"Hoffman Jr, John R","first_name":"John R","id":"0cf4072c-94e2-11ee-bdf9-90a13138901e"},{"full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","orcid":"0000-0003-2902-5319"},{"first_name":"Scott R","full_name":"Waitukaitis, Scott R","last_name":"Waitukaitis","orcid":"0000-0002-2299-3176","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"}],"acknowledgement":"Diese Forschung wurde durch die Scientific Service Units (SSU) des IST Austria unterstützt, durch Nutzung von Ressourcen der Lab Support Facility (LSF).\r\nOpen Access funding provided by Institute of Science and Technology Austria.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Angewandte Chemie","date_created":"2026-07-28T18:03:20Z","das_tickbox":"1","citation":{"mla":"Hoffman Jr, John R., et al. “Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung.” Angewandte Chemie, e5487708, Wiley, 2026, doi:10.1002/ange.5487708.","apa":"Hoffman Jr, J. R., Freunberger, S. A., & Waitukaitis, S. R. (2026). Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.5487708","ieee":"J. R. Hoffman Jr, S. A. Freunberger, and S. R. Waitukaitis, “Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung,” Angewandte Chemie. Wiley, 2026.","ama":"Hoffman Jr JR, Freunberger SA, Waitukaitis SR. Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung. Angewandte Chemie. 2026. doi:10.1002/ange.5487708","ista":"Hoffman Jr JR, Freunberger SA, Waitukaitis SR. 2026. Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung. Angewandte Chemie., e5487708.","chicago":"Hoffman Jr, John R, Stefan Alexander Freunberger, and Scott R Waitukaitis. “Ionentransfer während der Ionomer Kontaktelektrifizierung: Bindungsaffinität steuert Aufladung.” Angewandte Chemie. Wiley, 2026. https://doi.org/10.1002/ange.5487708.","short":"J.R. Hoffman Jr, S.A. Freunberger, S.R. Waitukaitis, Angewandte Chemie (2026)."},"dataavailabilitystatement":"The data that support the findings of this study are available from the corresponding author upon reasonable request.","scopus_import":"1","language":[{"iso":"ger"}],"day":"26","publication_identifier":{"issn":["0044-8249"],"eissn":["1521-3757"]},"publication_status":"epub_ahead","publisher":"Wiley"}]