Policy Research Under Pressure:The Case of the Ministry of Justice in the Netherlands

In policy research, the search for the correct balance between proximity and independence has never been easy. Policymakers need proximity to the research in order to ensure that it is relevant. Yet, there are also concerns about the rigour of research. To analyze this relationship in more detail, this paper focuses on the ‘extreme case’ of the WODC in the Netherlands, an internal but formally independent research unit of the Dutch Ministry of Justice and Security. Research methods include semi-structured interviews and a survey (N = 673). We conclude that government leans on WODC researchers in all phases of the policy research process. In most cases, WODC researchers successfully resist pressure from policymakers, yet continuing pressure may easily lead to research methods, conclusions and press releases being altered for policy reasons. Finally, there are general lessons drawn from the WODC case that will assist in achieving a good balance between proximity and independence in policy research

Estimating and mitigating post-release mortality of European eel by combining citizen science with a catch-and-release angling experiment

Several anguillid eel species have experienced severe population declines over the past decades, particularly the European eel (Anguilla anguilla), which is listed as critically endangered by the International Union for Conservation of Nature. To reduce fishing mortality, many European countries have introduced strict recreational eel fishing regulations increasing regulatory catch-and-release (C&R) practice. Despite high release rates, only limited information exists on the potential consequences of C&R on eels. A field experiment was conducted with pre-tagged eels in a semi-natural environment to investigate lethal and sublethal impacts of C&R. The experiment was combined with a citizen science study evaluating the effects of different hooks on catch rates, fish size, and hooking location to develop best practice guidelines. Short-term mortality (≤72 h) ranged from 0.0–18.2%, and adjusted long-term mortality (>72 h) from 0.0–46.2% depending on treatments, resulting in adjusted total mortality rates between 8.4% and 64.4% at the end of the study period (≥43 d). The only significant predictor of mortality was the occurrence of bleeding from hooking injuries. Deep hooking was common, and only few deep-hooked eels for which the fishing line was cut and the hook left in place shed the hook after release. However, no significant effect of C&R on eel condition was found. The citizen science study showed that anglers can significantly decrease the catch of small eels, and thus release rates, by using large J-hooks. Furthermore, large J-hooks or circle hooks reduced the likelihood of deep hooking compared to small J-hooks. Post-release mortality of eels caught in recreational fisheries needs to be considered in future stock assessments and management plans to ensure conservation of the European eel. This study also highlights the strength of combining citizen science with experimental studies to develop best practice guidelines promoting fish conservation.publishedVersio

Deactivation of excited states in transition metal complexes: insight from computational chemistry

Investigation of the excited state decay dynamics of transition metal systems is a crucial step for the development of photoswitchable molecular based ma- terials with applications in growing fields as energy conversion, data storage or molecular devices. The photophysics of these systems is an entangled problem arising from the interplay of electronic and geometrical rearrangements that take place on a short time scale. Several factors play a role in the process: various electronic states of di↵erent spin and chemical character are involved, the system undergoes important structural variations and several nonradiative processes can occur. Computational chemistry is a useful tool to get insight into the micro- scopic description of the photophysics of these materials since it provides unique information about the character of the electronic spin states involved, the ener- getics and time evolution of the system. In this review article, we present an overview of the state of the art methodologies available to address the several aspects that have to be incorporated to properly describe the deactivation of excited states in transition metal complexes. The most recent developments in theoretical methods are discussed and illustrated with examples

Lattice-Boltzmann hydrodynamics of anisotropic active matter

A plethora of active matter models exist that describe the behavior of self-propelled particles (or swimmers), both with and without hydrodynamics. However, there are few studies that consider shape-anisotropic swimmers and include hydrodynamic interactions. Here, we introduce a simple method to simulate self-propelled colloids interacting hydrodynamically in a viscous medium using the lattice-Boltzmann technique. Our model is based on raspberry-type viscous coupling and a force/counter-force formalism which ensures that the system is force free. We consider several anisotropic shapes and characterize their hydrodynamic multipolar flow field. We demonstrate that shape-anisotropy can lead to the presence of a strong quadrupole and octupole moments, in addition to the principle dipole moment. The ability to simulate and characterize these higher-order moments will prove crucial for understanding the behavior of model swimmers in confining geometries.Comment: 11 pages, 3 figures, 3 table

Optimization reduces knee-joint forces during walking and squatting: Validating the inverse dynamics approach for full body movements on instrumented knee prostheses

Due to the redundancy of our motor system, movements can be performed in many ways. While multiple motor control strategies can all lead to the desired behavior, they result in different joint and muscle forces. This creates opportunities to explore this redundancy, e.g., for pain avoidance or reducing the risk of further injury. To assess the effect of different motor control optimization strategies, a direct measurement of muscle and joint forces is desirable, but problematic for medical and ethical reasons. Computational modeling might provide a solution by calculating approximations of these forces. In this study, we used a full-body computational musculoskeletal model to (1) predict forces measured in knee prostheses during walking and squatting and (2) to study the effect of different motor control strategies (i.e., minimizing joint force vs. muscle activation) on the joint load and prediction error. We found that musculoskeletal models can accurately predict knee joint forces with an RMSE of <0.5 BW in the superior direction and about 0.1 BW in the medial and anterior directions. Generally, minimization of joint forces produced the best predictions. Furthermore, minimizing muscle activation resulted in maximum knee forces of about 4 BW for walking and 2.5 BW for squatting. Minimizing joint forces resulted in maximum knee forces of 2.25 BW and 2.12 BW, i.e., a reduction of 44% and 15%, respectively. Thus, changing the muscular coordination strategy can strongly affect knee joint forces. Patients with a knee prosthesis may adapt their neuromuscular activation to reduce joint forces during locomotion.Comment: 19 pages, 4 figure

A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network

BACKGROUND: The nuclear receptors are a large family of eukaryotic transcription factors that constitute major pharmacological targets. They exert their combinatorial control through homotypic heterodimerisation. Elucidation of this dimerisation network is vital in order to understand the complex dynamics and potential cross-talk involved. RESULTS: Phylogeny, protein-protein interactions, protein-DNA interactions and gene expression data have been integrated to provide a comprehensive and up-to-date description of the topology and properties of the nuclear receptor interaction network in humans. We discriminate between DNA-binding and non-DNA-binding dimers, and provide a comprehensive interaction map, that identifies potential cross-talk between the various pathways of nuclear receptors. CONCLUSION: We infer that the topology of this network is hub-based, and much more connected than previously thought. The hub-based topology of the network and the wide tissue expression pattern of NRs create a highly competitive environment for the common heterodimerising partners. Furthermore, a significant number of negative feedback loops is present, with the hub protein SHP [NR0B2] playing a major role. We also compare the evolution, topology and properties of the nuclear receptor network with the hub-based dimerisation network of the bHLH transcription factors in order to identify both unique themes and ubiquitous properties in gene regulation. In terms of methodology, we conclude that such a comprehensive picture can only be assembled by semi-automated text-mining, manual curation and integration of data from various sources

Balancing of Histone H3K4 Methylation States by the Kdm5c/SMCX Histone Demethylase Modulates Promoter and Enhancer Function

SummaryThe functional organization of eukaryotic genomes correlates with specific patterns of histone methylations. Regulatory regions in genomes such as enhancers and promoters differ in their extent of methylation of histone H3 at lysine-4 (H3K4), but it is largely unknown how the different methylation states are specified and controlled. Here, we show that the Kdm5c/Jarid1c/SMCX member of the Kdm5 family of H3K4 demethylases can be recruited to both enhancer and promoter elements in mouse embryonic stem cells and in neuronal progenitor cells. Knockdown of Kdm5c deregulates transcription via local increases in H3K4me3. Our data indicate that by restricting H3K4me3 modification at core promoters, Kdm5c dampens transcription, but at enhancers Kdm5c stimulates their activity. Remarkably, an impaired enhancer function activates the intrinsic promoter activity of Kdm5c-bound distal elements. Our results demonstrate that the Kdm5c demethylase plays a crucial and dynamic role in the functional discrimination between enhancers and core promoters

Balancing of Histone H3K4 Methylation States by the Kdm5c/SMCX Histone Demethylase Modulates Promoter and Enhancer Function

The functional organization of eukaryotic genomes correlates with specific patterns of histone methylations. Regulatory regions in genomes such as enhancers and promoters differ in their extent of methylation of histone H3 at lysine-4 (H3K4), but it is largely unknown how the different methylation states are specified and controlled. Here, we show that the Kdm5c/Jarid1c/SMCX member of the Kdm5 family of H3K4 demethylases can be recruited to both enhancer and promoter elements in mouse embryonic stem cells and in neuronal progenitor cells. Knockdown of Kdm5c deregulates transcription via local increases in H3K4me3. Our data indicate that by restricting H3K4me3 modification at core promoters, Kdm5c dampens transcription, but at enhancers Kdm5c stimulates their activity. Remarkably, an impaired enhancer function activates the intrinsic promoter activity of Kdm5c-bound distal elements. Our results demonstrate that the Kdm5c demethylase plays a crucial and dynamic role in the functional discrimination between enhancers and core promoters