TY - CHAP A1 - Wehmeier, Liz Marla ED - Kuhlmann, Sabine ED - Laffin, Martin ED - Wayenberg, Ellen ED - Bergström, Tomas T1 - Intergovernmental relations in digitalization policy BT - German tax administration between centralization and decentralization T2 - New perspectives on intergovernmental relations N2 - Despite the high hopes associated with public sector digitalization, especially in times of crisis, it does not yet hold up to its potential. Both the negotiation and implementation of digitalization policy presents a challenge for all levels of government, requiring extensive coordination efforts. In general, there are conflicting views if more centralized or decentralized policy processes are more effective for coordination—a tension further exacerbated in the context of digitalization policy within multilevel systems, where the imperative of standardization collides with decentralization forces inherent in federalism. Based on the analysis of expert interviews (n = 29), this chapter examines how digitalization policy in the context of the German federal intergovernmental relations context is located and negotiated, and how this relates to local policy implementation. Focusing on the decentralized German tax administration as a case study, the analysis reveals a shift from a conflicted to a multi-layered policy process, underpinned by a mechanism of “concentration without centralization.” Strategic and operational competencies are bundled in an institutionalized and legally regulated network for digitalization to achieve necessary standardization of digital infrastructure. Furthermore, the research emphasizes the influence of intergovernmental relations on local implementation and the associated challenges and opportunities. KW - intergovernmental relations KW - digitalization policy KW - coordination KW - implementation Y1 - 2024 SN - 978-3-031-61789-8 SN - 978-3-031-61790-4 U6 - https://doi.org/10.1007/978-3-031-61790-4_9 SP - 163 EP - 185 PB - Palgrave Macmillan CY - Cham ER - TY - GEN A1 - Ambos, Kai A1 - Bock, Stefanie A1 - Geneuss, Julia A1 - Jeßberger, Florian A1 - Kreß, Claus A1 - Oeter, Stefan A1 - Paulus, Andreas A1 - Talmon, Stefan A1 - Zimmermann, Andreas T1 - Without fear or favour BT - for an effective international criminal court T2 - Verfassungsblog : on matters constitutional Y1 - 2024 U6 - https://doi.org/10.59704/eea458648230c9df SN - 2366-7044 PB - Max Steinbeis Verfassungsblog gGmbH CY - Berlin ER - TY - CHAP A1 - Oehlert, Franziska A1 - Kuhlmann, Sabine ED - Kuhlmann, Sabine ED - Laffin, Martin ED - Wayenberg, Ellen ED - Bergström, Tomas T1 - Inter-administrative relations in migrant integration BT - France, Germany, and Sweden compared T2 - New perspectives on intergovernmental relations N2 - Migrant integration is a prime example of intergovernmental coordination and multilevel governance; first because no level of government can carry out this task alone, and second because its cross-cutting nature often leads to fragmented institutional structures that must be overcome. Within the research strand of intergovernmental relations (IGR), the focus has been on executive actors and governmental decision-makers, resulting in an underexposure of the role of public administration, known as inter-administrative relations (IAR). Against this backdrop, we aim to remedy some of the deficits in IGR research by (1) adopting an explicit IAR perspective which systematically addresses the role of local governments; (2) including a comparative dimension in IAR research that accounts for different administrative ‘starting conditions’ in European countries; and (3) using the policy area of migrant integration as a case in point to empirically investigate developments of institutional convergence and divergence in IAR patterns. It is argued that the coordination of migrant integration in the three countries examined has moved towards more intergovernmental coordination, on the one hand, and that the role of municipalities in this context has been enhanced—varying degrees of (de-)centralization notwithstanding. While certain convergent patterns of inter-governmental coordination have become apparent during the migration crisis, historical path dependencies and administrative cultures still appear to be factors that influence institutional development. KW - inter-administrative relations KW - coordination KW - migrant integration KW - neo-institutionalism Y1 - 2024 SN - 978-3-031-61789-8 SN - 978-3-031-61790-4 U6 - https://doi.org/10.1007/978-3-031-61790-4_5 SP - 77 EP - 101 PB - Palgrave Macmillan CY - Cham ER - TY - CHAP A1 - Vellani, Tomás A1 - Oehlert, Franziska A1 - Walkenhorst, Janina ED - Kuhlmann, Sabine ED - Laffin, Martin ED - Wayenberg, Ellen ED - Bergström, Tomas T1 - Intergovernmental relations in urban climate policy BT - how Berlin and Paris formulate and implement climate strategies T2 - New perspectives on intergovernmental relations N2 - Urban climate strategies have become central tools for steering climate policy in cities. Local policymakers must coordinate a wide range of actors, among them sub-municipal administrative units and neighbouring administrations, in order to ensure legitimate, socially accepted and effective policy. The study examines, from a comparative perspective, how intergovernmental relations (IGR) play out in the formulation and implementation of climate strategies in the metropolitan areas of Berlin and Paris. Embedded in different institutional contexts, both cities followed a trajectory initiated by relatively centralized strategy formulation with an ongoing shift towards more decentralized and coordinated intergovernmental approaches with their respective district administrations. In terms of horizontal IGR, Berlin took a decoupled approach with limited coordination with the state of Brandenburg, whereas Paris was much more closely integrated with its surrounding areas through the inter-municipal metropolis of Greater Paris. Institutional capacity, multilevel coordination and participation demands are identified as three challenges for the existing IGR structures. Addressing these challenges places significant strains on local administrative capacity. The findings highlight the limitations of centralized approaches to IGR at the local level and the importance of aligning the distribution of functional responsibilities with the rights of consultation and participation in climate policy formulation processes. KW - climate policy KW - climate strategies KW - local government KW - intergovernmental relations KW - multilevel coordination Y1 - 2024 SN - 978-3-031-61789-8 SN - 978-3-031-61790-4 U6 - https://doi.org/10.1007/978-3-031-61790-4_8 SP - 143 EP - 162 PB - Palgrave Macmillan CY - Cham ER - TY - BOOK ED - Kuhlmann, Sabine ED - Laffin, Martin ED - Wayenberg, Ellen ED - Bergström, Tomas T1 - New perspectives on intergovernmental relations T3 - Palgrave studies in sub-national governance N2 - This open access book assesses the consequences of contemporary economic and political crises for intergovernmental relations in Europe. Focusing on the crises arising from the Covid-19 pandemic, climate change, surges in migration, and the resurgence of regional nationalist movements, it explores the shifting power balances within intergovernmental relations’ systems. The book takes a comparative analytical perspective on how intergovernmental relations are changing across Europe, and how central governments have responded to coordination challenges as recent crises have disrupted established service delivery chains and their underpinning political and bureaucratic arrangements. It also examines the relationship between recent crises and the sub-national resurgence of territorial politics in many European countries. The book will appeal to those with interests in public administration, sub-national governance and European politics. KW - entre-local relations KW - local self-government KW - sub-national governance KW - refugee crisis KW - pandemic KW - intergovernmental relations KW - coordination KW - Open Access KW - Europe KW - European public administration Y1 - 2024 SN - 978-3-031-61789-8 SN - 978-3-031-61790-4 U6 - https://doi.org/10.1007/978-3-031-61790-4 PB - Palgrave Macmillan CY - Cham ER - TY - JOUR A1 - Gutzeit, Lilly Joan A1 - Tiberius, Victor T1 - Business and management research on the motion picture industry BT - a bibliometric analysis JF - Journalism and media N2 - The motion picture industry is subject to extensive business and management research conducted on a wide range of topics. Due to high research productivity, it is challenging to keep track of the abundance of publications. Against this background, we employ a bibliographic coupling analysis to gain a comprehensive understanding of current research topics. The following themes were defined: Key factors for success, word of mouth and social media, organizational and pedagogical dimensions, advertising—product placement and online marketing, tourism, the influence of data, the influence of culture, revenue maximization and purchase decisions, and the perception and identification of audiences. Based on the cluster analysis, we suggest the following future research opportunities: Exploring technological innovations, especially the influence of social media and streaming platforms in the film industry; the in-depth analysis of the use of artificial intelligence in film production, both in terms of its creative potential and ethical and legal challenges; the exploration of the representation of wokeness and minorities in films and their cultural and economic significance; and, finally, a detailed examination of the long-term effects of the COVID-19 pandemic and other crises on the film industry, especially in terms of changed consumption habits and structural adjustments. KW - bibliometric analysis KW - business researc KW - films KW - movies KW - literature review KW - motion pictures Y1 - 2023 U6 - https://doi.org/10.3390/journalmedia4040076 SN - 2673-5172 VL - 4 IS - 4 SP - 1198 EP - 1210 PB - MDPI CY - Basel ER - TY - JOUR A1 - Zhou, Lin A1 - Fischer, Eric A1 - Brahms, Clemens Markus A1 - Granacher, Urs A1 - Arnrich, Bert T1 - DUO-GAIT BT - a gait dataset for walking under dual-task and fatigue conditions with inertial measurement units JF - Scientific data N2 - In recent years, there has been a growing interest in developing and evaluating gait analysis algorithms based on inertial measurement unit (IMU) data, which has important implications, including sports, assessment of diseases, and rehabilitation. Multi-tasking and physical fatigue are two relevant aspects of daily life gait monitoring, but there is a lack of publicly available datasets to support the development and testing of methods using a mobile IMU setup. We present a dataset consisting of 6-minute walks under single- (only walking) and dual-task (walking while performing a cognitive task) conditions in unfatigued and fatigued states from sixteen healthy adults. Especially, nine IMUs were placed on the head, chest, lower back, wrists, legs, and feet to record under each of the above-mentioned conditions. The dataset also includes a rich set of spatio-temporal gait parameters that capture the aspects of pace, symmetry, and variability, as well as additional study-related information to support further analysis. This dataset can serve as a foundation for future research on gait monitoring in free-living environments. Y1 - 2023 U6 - https://doi.org/10.1038/s41597-023-02391-w SN - 2052-4463 VL - 10 IS - 1 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Ziubanova, Anastasia A. A1 - Laurinavichyute, Anna A1 - Parshina, Olga T1 - Does early exposure to spoken and sign language affect reading fluency in deaf and hard-of-hearing adult signers? JF - Frontiers in psychology N2 - Introduction Early linguistic background, and in particular, access to language, lays the foundation of future reading skills in deaf and hard-of-hearing signers. The current study aims to estimate the impact of two factors – early access to sign and/or spoken language – on reading fluency in deaf and hard-of-hearing adult Russian Sign Language speakers. Methods In the eye-tracking experiment, 26 deaf and 14 hard-of-hearing native Russian Sign Language speakers read 144 sentences from the Russian Sentence Corpus. Analysis of global eye-movement trajectories (scanpaths) was used to identify clusters of typical reading trajectories. The role of early access to sign and spoken language as well as vocabulary size as predictors of the more fluent reading pattern was tested. Results Hard-of-hearing signers with early access to sign language read more fluently than those who were exposed to sign language later in life or deaf signers without access to speech sounds. No association between early access to spoken language and reading fluency was found. Discussion Our results suggest a unique advantage for the hard-of-hearing individuals from having early access to both sign and spoken language and support the existing claims that early exposure to sign language is beneficial not only for deaf but also for hard-of-hearing children. KW - reading fluency KW - deaf KW - hard-of-hearing KW - sign language KW - multimodal bilingualism KW - scanpaths KW - eye movements Y1 - 2023 U6 - https://doi.org/10.3389/fpsyg.2023.1145638 SN - 1664-1078 VL - 14 PB - Frontiers Research Foundation CY - Lausanne ER - TY - JOUR A1 - Basler, Georg A1 - Fernie, Alisdair A1 - Nikoloski, Zoran T1 - Advances in metabolic flux analysis toward genome-scale profiling of higher organisms JF - Bioscience reports : communications and reviews in molecular and cellular biology N2 - Methodological and technological advances have recently paved the way for metabolic flux profiling in higher organisms, like plants. However, in comparison with omics technologies, flux profiling has yet to provide comprehensive differential flux maps at a genome-scale and in different cell types, tissues, and organs. Here we highlight the recent advances in technologies to gather metabolic labeling patterns and flux profiling approaches. We provide an opinion of how recent local flux profiling approaches can be used in conjunction with the constraint-based modeling framework to arrive at genome-scale flux maps. In addition, we point at approaches which use metabolomics data without introduction of label to predict either non-steady state fluxes in a time-series experiment or flux changes in different experimental scenarios. The combination of these developments allows an experimentally feasible approach for flux-based large-scale systems biology studies. Y1 - 2018 U6 - https://doi.org/10.1042/BSR20170224 SN - 0144-8463 SN - 1573-4935 VL - 38 PB - Portland Press (London) CY - London ER - TY - JOUR A1 - Creutzig, Felix A1 - Becker, Sophia A1 - Berrill, Peter A1 - Bongs, Constanze A1 - Bussler, Alexandra A1 - Cave, Ben A1 - Constantino, Sara M. A1 - Grant, Marcus A1 - Heeren, Niko A1 - Heinen, Eva A1 - Hintz, Marie Josefine A1 - Ingen-Housz, Timothee A1 - Johnson, Eric A1 - Kolleck, Nina A1 - Liotta, Charlotte A1 - Lorek, Sylvia A1 - Mattioli, Giulio A1 - Niamir, Leila A1 - McPhearson, Timon A1 - Milojevic-Dupont, Nikola A1 - Nachtigall, Florian A1 - Nagel, Kai A1 - Närger, Henriette A1 - Pathak, Minal A1 - Perrin de Brichambaut, Paola A1 - Reckien, Diana A1 - Reisch, Lucia A. A1 - Revi, Aromar A1 - Schuppert, Fabian A1 - Sudmant, Andrew A1 - Wagner, Felix A1 - Walkenhorst, Janina A1 - Weber, Elke A1 - Wilmes, Michael A1 - Wilson, Charlie A1 - Zekar, Aicha T1 - Towards a public policy of cities and human settlements in the 21st century JF - npj urban sustainability N2 - Cities and other human settlements are major contributors to climate change and are highly vulnerable to its impacts. They are also uniquely positioned to reduce greenhouse gas emissions and lead adaptation efforts. These compound challenges and opportunities require a comprehensive perspective on the public policy of human settlements. Drawing on core literature that has driven debate around cities and climate over recent decades, we put forward a set of boundary objects that can be applied to connect the knowledge of epistemic communities and support an integrated urbanism. We then use these boundary objects to develop the Goals-Intervention-Stakeholder-Enablers (GISE) framework for a public policy of human settlements that is both place-specific and provides insights and tools useful for climate action in cities and other human settlements worldwide. Using examples from Berlin, we apply this framework to show that climate mitigation and adaptation, public health, and well-being goals are closely linked and mutually supportive when a comprehensive approach to urban public policy is applied. Y1 - 2024 U6 - https://doi.org/10.1038/s42949-024-00168-7 SN - 2661-8001 VL - 4 IS - 1 SP - 1 EP - 14 PB - Springer Nature CY - London ER - TY - JOUR A1 - Tabatabaei, Iman A1 - Alseekh, Saleh A1 - Shahid, Mohammad A1 - Leniak, Ewa A1 - Wagner, Mateusz A1 - Mahmoudi, Henda A1 - Thushar, Sumitha A1 - Fernie, Alisdair A1 - Murphy, Kevin M. A1 - Schmöckel, Sandra M. A1 - Tester, Mark A1 - Müller-Röber, Bernd A1 - Skirycz, Aleksandra A1 - Balazadeh, Salma T1 - The diversity of quinoa morphological traits and seed metabolic composition JF - Scientific data N2 - Quinoa (Chenopodium quinoa Willd.) is an herbaceous annual crop of the amaranth family (Amaranthaceae). It is increasingly cultivated for its nutritious grains, which are rich in protein and essential amino acids, lipids, and minerals. Quinoa exhibits a high tolerance towards various abiotic stresses including drought and salinity, which supports its agricultural cultivation under climate change conditions. The use of quinoa grains is compromised by anti-nutritional saponins, a terpenoid class of secondary metabolites deposited in the seed coat; their removal before consumption requires extensive washing, an economically and environmentally unfavorable process; or their accumulation can be reduced through breeding. In this study, we analyzed the seed metabolomes, including amino acids, fatty acids, and saponins, from 471 quinoa cultivars, including two related species, by liquid chromatography - mass spectrometry. Additionally, we determined a large number of agronomic traits including biomass, flowering time, and seed yield. The results revealed considerable diversity between genotypes and provide a knowledge base for future breeding or genome editing of quinoa. Y1 - 2022 U6 - https://doi.org/10.1038/s41597-022-01399-y SN - 2052-4463 VL - 9 IS - 1 PB - Nature Research CY - Berlin ER - TY - JOUR A1 - Mollavali, Mohanna A1 - Börnke, Frederik T1 - Characterization of trehalose-6-phosphate synthase and trehalose-6-phosphate phosphatase genes of tomato (Solanum lycopersicum L.) and analysis of their differential expression in response to temperature JF - International journal of molecular sciences N2 - In plants, the trehalose biosynthetic pathway plays key roles in the regulation of carbon allocation and stress adaptation. Engineering of the pathway holds great promise to increase the stress resilience of crop plants. The synthesis of trehalose proceeds by a two-step pathway in which a trehalose-phosphate synthase (TPS) uses UDP-glucose and glucose-6-phosphate to produce trehalose-6 phosphate (T6P) that is subsequently dephosphorylated by trehalose-6 phosphate phosphatase (TPP). While plants usually do not accumulate high amounts of trehalose, their genome encodes large families of putative trehalose biosynthesis genes, with many members lacking obvious enzymatic activity. Thus, the function of putative trehalose biosynthetic proteins in plants is only vaguely understood. To gain a deeper insight into the role of trehalose biosynthetic proteins in crops, we assessed the enzymatic activity of the TPS/TPP family from tomato (Solanum lycopersicum L.) and investigated their expression pattern in different tissues as well as in response to temperature shifts. From the 10 TPS isoforms tested, only the 2 proteins belonging to class I showed enzymatic activity, while all 5 TPP isoforms investigated were catalytically active. Most of the TPS/TPP family members showed the highest expression in mature leaves, and promoter-reporter gene studies suggest that the two class I TPS genes have largely overlapping expression patterns within the vasculature, with only subtle differences in expression in fruits and flowers. The majority of tomato TPS/TPP genes were induced by heat stress, and individual family members also responded to cold. This suggests that trehalose biosynthetic pathway genes could play an important role during temperature stress adaptation. In summary, our study represents a further step toward the exploitation of the TPS and TPP gene families for the improvement of tomato stress resistance. KW - trehalose metabolism KW - heat stress KW - Solanum lycopersicum KW - yeast complementation Y1 - 2022 U6 - https://doi.org/10.3390/ijms231911436 SN - 1661-6596 SN - 1422-0067 VL - 23 IS - 19 PB - MDPI CY - Basel ER - TY - JOUR A1 - Bastian, Philipp U. A1 - Robel, Nathalie A1 - Schmidt, Peter A1 - Schrumpf, Tim A1 - Günter, Christina A1 - Roddatis, Vladimir A1 - Kumke, Michael Uwe T1 - Resonance energy transfer to track the motion of lanthanide ions BT - what drives the intermixing in core-shell upconverting nanoparticles? JF - Biosensors : open access journal N2 - The imagination of clearly separated core-shell structures is already outdated by the fact, that the nanoparticle core-shell structures remain in terms of efficiency behind their respective bulk material due to intermixing between core and shell dopant ions. In order to optimize the photoluminescence of core-shell UCNP the intermixing should be as small as possible and therefore, key parameters of this process need to be identified. In the present work the Ln(III) ion migration in the host lattices NaYF4 and NaGdF4 was monitored. These investigations have been performed by laser spectroscopy with help of lanthanide resonance energy transfer (LRET) between Eu(III) as donor and Pr(III) or Nd(III) as acceptor. The LRET is evaluated based on the Forster theory. The findings corroborate the literature and point out the migration of ions in the host lattices. Based on the introduced LRET model, the acceptor concentration in the surrounding of one donor depends clearly on the design of the applied core-shell-shell nanoparticles. In general, thinner intermediate insulating shells lead to higher acceptor concentration, stronger quenching of the Eu(III) donor and subsequently stronger sensitization of the Pr(III) or the Nd(III) acceptors. The choice of the host lattice as well as of the synthesis temperature are parameters to be considered for the intermixing process. KW - upconversion nanoparticles KW - lanthanoid migration KW - lanthanides KW - core-shell KW - energy transfer Y1 - 2021 U6 - https://doi.org/10.3390/bios11120515 SN - 2079-6374 VL - 11 IS - 12 PB - MDPI CY - Basel ER - TY - JOUR A1 - Smith, Sarah R. A1 - Dupont, Chris L. A1 - McCarthy, James K. A1 - Broddrick, Jared T. A1 - Obornik, Miroslav A1 - Horak, Ales A1 - Füssy, Zoltán A1 - Cihlar, Jaromir A1 - Kleessen, Sabrina A1 - Zheng, Hong A1 - McCrow, John P. A1 - Hixson, Kim K. A1 - Araujo, Wagner L. A1 - Nunes-Nesi, Adriano A1 - Fernie, Alisdair A1 - Nikoloski, Zoran A1 - Palsson, Bernhard O. A1 - Allen, Andrew E. T1 - Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom JF - Nature Communications N2 - Diatoms outcompete other phytoplankton for nitrate, yet little is known about the mechanisms underpinning this ability. Genomes and genome-enabled studies have shown that diatoms possess unique features of nitrogen metabolism however, the implications for nutrient utilization and growth are poorly understood. Using a combination of transcriptomics, proteomics, metabolomics, fluxomics, and flux balance analysis to examine short-term shifts in nitrogen utilization in the model pennate diatom in Phaeodactylum tricornutum, we obtained a systems-level understanding of assimilation and intracellular distribution of nitrogen. Chloroplasts and mitochondria are energetically integrated at the critical intersection of carbon and nitrogen metabolism in diatoms. Pathways involved in this integration are organelle-localized GS-GOGAT cycles, aspartate and alanine systems for amino moiety exchange, and a split-organelle arginine biosynthesis pathway that clarifies the role of the diatom urea cycle. This unique configuration allows diatoms to efficiently adjust to changing nitrogen status, conferring an ecological advantage over other phytoplankton taxa. KW - Biochemistry KW - Computational biology and bioinformatics KW - Evolution KW - Microbiology KW - Molecular biology Y1 - 2019 U6 - https://doi.org/10.1038/s41467-019-12407-y SN - 2041-1723 VL - 10 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Ferrari, Camilla A1 - Proost, Sebastian A1 - Janowski, Marcin Andrzej A1 - Becker, Jörg A1 - Nikoloski, Zoran A1 - Bhattacharya, Debashish A1 - Price, Dana A1 - Tohge, Takayuki A1 - Bar-Even, Arren A1 - Fernie, Alisdair A1 - Stitt, Mark A1 - Mutwil, Marek T1 - Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida JF - Nature Communications N2 - Plants have adapted to the diurnal light-dark cycle by establishing elaborate transcriptional programs that coordinate many metabolic, physiological, and developmental responses to the external environment. These transcriptional programs have been studied in only a few species, and their function and conservation across algae and plants is currently unknown. We performed a comparative transcriptome analysis of the diurnal cycle of nine members of Archaeplastida, and we observed that, despite large phylogenetic distances and dramatic differences in morphology and lifestyle, diurnal transcriptional programs of these organisms are similar. Expression of genes related to cell division and the majority of biological pathways depends on the time of day in unicellular algae but we did not observe such patterns at the tissue level in multicellular land plants. Hence, our study provides evidence for the universality of diurnal gene expression and elucidates its evolutionary history among different photosynthetic eukaryotes. Y1 - 2019 U6 - https://doi.org/10.1038/s41467-019-08703-2 SN - 2041-1723 VL - 10 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Zhang, Youjun A1 - Chen, Moxian A1 - Siemiatkowska, Beata A1 - Toleco, Mitchell Rey A1 - Jing, Yue A1 - Strotmann, Vivien A1 - Zhang, Jianghua A1 - Stahl, Yvonne A1 - Fernie, Alisdair T1 - A highly efficient agrobacterium-mediated method for transient gene expression and functional studies in multiple plant species JF - Plant Communications N2 - Although the use of stable transformation technology has led to great insight into gene function, its application in high-throughput studies remains arduous. Agro-infiltration have been widely used in species such as Nicotiana benthamiana for the rapid detection of gene expression and protein interaction analysis, but this technique does not work efficiently in other plant species, including Arabidopsis thaliana. As an efficient high-throughput transient expression system is currently lacking in the model plant species A. thaliana, we developed a method that is characterized by high efficiency, reproducibility, and suitability for transient expression of a variety of functional proteins in A. thaliana and 7 other plant species, including Brassica oleracea, Capsella rubella, Thellungiella salsuginea, Thellungiella halophila, Solanum tuberosum, Capsicum annuum, and N. benthamiana. Efficiency of this method was independently verified in three independent research facilities, pointing to the robustness of this technique. Furthermore, in addition to demonstrating the utility of this technique in a range of species, we also present a case study employing this method to assess protein-protein interactions in the sucrose biosynthesis pathway in Arabidopsis. KW - transient expression KW - agro-infiltration KW - subcellular localization KW - protein-protein interaction Y1 - 2019 SN - 2590-3462 VL - 1 IS - 5 PB - Science Direct CY - New York ER - TY - JOUR A1 - Pandey, Prashant K. A1 - Yu, Jing A1 - Omranian, Nooshin A1 - Alseekh, Saleh A1 - Vaid, Neha A1 - Fernie, Alisdair A1 - Nikoloski, Zoran A1 - Laitinen, Roosa A. E. T1 - Plasticity in metabolism underpins local responses to nitrogen in Arabidopsis thaliana populations JF - Plant Direct N2 - Nitrogen (N) is central for plant growth, and metabolic plasticity can provide a strategy to respond to changing N availability. We showed that two local A. thaliana populations exhibited differential plasticity in the compounds of photorespiratory and starch degradation pathways in response to three N conditions. Association of metabolite levels with growth-related and fitness traits indicated that controlled plasticity in these pathways could contribute to local adaptation and play a role in plant evolution. KW - Arabidopsis thaliana KW - natural variation KW - nitrogen availability KW - photorespiration KW - plasticity Y1 - 2019 U6 - https://doi.org/10.1002/pld3.186 SN - 2475-4455 VL - 3 IS - 11 PB - John Wiley & sonst LTD CY - Chichester ER - TY - JOUR A1 - Córdoba, Sandra Correa A1 - Tong, Hao A1 - Burgos, Asdrubal A1 - Zhu, Feng A1 - Alseekh, Saleh A1 - Fernie, Alisdair A1 - Nikoloski, Zoran T1 - Identification of gene function based on models capturing natural variability of Arabidopsis thaliana lipid metabolism JF - Nature Communications N2 - The use of automated tools to reconstruct lipid metabolic pathways is not warranted in plants. Here, the authors construct Plant Lipid Module for Arabidopsis rosette using constraint-based modeling, demonstrate its integration in other plant metabolic models, and use it to dissect the genetic architecture of lipid metabolism. Lipids play fundamental roles in regulating agronomically important traits. Advances in plant lipid metabolism have until recently largely been based on reductionist approaches, although modulation of its components can have system-wide effects. However, existing models of plant lipid metabolism provide lumped representations, hindering detailed study of component modulation. Here, we present the Plant Lipid Module (PLM) which provides a mechanistic description of lipid metabolism in the Arabidopsis thaliana rosette. We demonstrate that the PLM can be readily integrated in models of A. thaliana Col-0 metabolism, yielding accurate predictions (83%) of single lethal knock-outs and 75% concordance between measured transcript and predicted flux changes under extended darkness. Genome-wide associations with fluxes obtained by integrating the PLM in diel condition- and accession-specific models identify up to 65 candidate genes modulating A. thaliana lipid metabolism. Using mutant lines, we validate up to 40% of the candidates, paving the way for identification of metabolic gene function based on models capturing natural variability in metabolism. KW - Biochemical networks KW - Biochemical reaction networks KW - Genetic models KW - Plant molecular biology Y1 - 2023 U6 - https://doi.org/10.1038/s41467-023-40644-9 SN - 2041-1723 VL - 14 IS - 1 PB - Springer Nature CY - London ER - TY - JOUR A1 - Dettmann, Sophie A1 - Huittinen, Nina Maria A1 - Nicolas, Jahn A1 - Kretzschmar, Jerome A1 - Kumke, Michael Uwe A1 - Kutyma, Tamara A1 - Lohmann, Janik A1 - Reich, Tobias A1 - Schmeide, Katja A1 - Azzam, Salim Shams Aldin A1 - Spittler, Leon A1 - Stietz, Janina T1 - Influence of gluconate on the retention of Eu(III), Am(III), Th(IV), Pu(IV), and U(VI) by C-S-H (C/S = 0.8) JF - Frontiers in Nuclear Engineering N2 - The retention of actinides in different oxidation states (An(X), X = III, IV, VI) by a calcium-silicate-hydrate (C-S-H) phase with a Ca/Si (C/S) ratio of 0.8 was investigated in the presence of gluconate (GLU). The actinides considered were Am(III), Th(IV), Pu(IV), and U(VI). Eu(III) was investigated as chemical analogue for Am(III) and Cm(III). In addition to the ternary systems An(X)/GLU/C-S-H, also binary systems An(X)/C-S-H, GLU/C-S-H, and An(X)/GLU were studied. Complementary analytical techniques were applied to address the different specific aspects of the binary and ternary systems. Time-resolved laser-induced luminescence spectroscopy (TRLFS) was applied in combination with parallel factor analysis (PARAFAC) to identify retained species and to monitor species-selective sorption kinetics. ¹³C and ²⁹Si magic-angle-spinning (MAS) nuclear magnetic resonance (NMR) spectroscopy and X-ray photoelectron spectroscopy (XPS) were applied to determine the bulk structure and the composition of the C-S-H surface, respectively, in the absence and presence of GLU. The interaction of Th(IV) with GLU in different electrolytes was studied by capillary electrophoresis-inductively coupled plasma mass spectrometry (CE-ICP-MS). The influence of GLU on An(X) retention was investigated for a large concentration range up to 10⁻² M. The results showed that GLU had little to no effect on the overall An(X) retention by C-S-H with C/S of 0.8, regardless of the oxidation state of the actinides. For Eu(III), the TRLFS investigations additionally implied the formation of a Eu(III)-bearing precipitate with dissolved constituents of the C-S-H phase, which becomes structurally altered by the presence of GLU. For U(VI) sorption on the C-S-H phase, only a small influence of GLU could be established in the luminescence spectroscopic investigations, and no precipitation of U(VI)-containing secondary phases could be identified. KW - actinide KW - organic ligand KW - sorption KW - cementitious material KW - concrete KW - luminescence Y1 - 2023 U6 - https://doi.org/10.3389/fnuen.2023.1124856 SN - 2813-3412 VL - 2 PB - Frontiers Media CY - Lausanne ER - TY - JOUR A1 - Tönjes, Ralf A1 - Fiore, Carlos E. A1 - Pereira da Silva, Tiago T1 - Coherence resonance in influencer networks JF - Nature Communications N2 - Complex networks are abundant in nature and many share an important structural property: they contain a few nodes that are abnormally highly connected (hubs). Some of these hubs are called influencers because they couple strongly to the network and play fundamental dynamical and structural roles. Strikingly, despite the abundance of networks with influencers, little is known about their response to stochastic forcing. Here, for oscillatory dynamics on influencer networks, we show that subjecting influencers to an optimal intensity of noise can result in enhanced network synchronization. This new network dynamical effect, which we call coherence resonance in influencer networks, emerges from a synergy between network structure and stochasticity and is highly nonlinear, vanishing when the noise is too weak or too strong. Our results reveal that the influencer backbone can sharply increase the dynamical response in complex systems of coupled oscillators. Influencer networks include a small set of highly-connected nodes and can reach synchrony only via strong node interaction. Tonjes et al. show that introducing an optimal amount of noise enhances synchronization of such networks, which may be relevant for neuroscience or opinion dynamics applications. Y1 - 2021 U6 - https://doi.org/10.1038/s41467-020-20441-4 SN - 2041-1723 VL - 12 IS - 1 PB - Nature Publishing Group UK CY - London ER -