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Nowadays, a challenge in wildlife management and nature conservation is to reach a state of human-wildlife coexistence, integrating wildlife into the human-dominated landscape. Achieving a state of coexistence is urgent as human-wildlife conflicts increase over time. Thus a "route guide" for researchers and conservation practitioners will be needed to identify if a human-wildlife interaction is heading towards conflict or coexistence, enabling them to conduct management activities, when possible, to achieve human-wildlife coexistence. Researchers have used different individual-based attributes as a proxy to measure support towards wildlife species by the general public. Different operationalizations from Environmental Economics and Environmental and Conservation Psychology research fields have been used to measure support. Examples of operationalization are the willingness-to-pay and Likert-type scale, or rating scale, from the first and second research fields. In the first, participants must indicate how much they would be willing to pay to protect a specific wildlife species population in a particular area and time. In the second, participants are asked to rate statements through, e.g., a five-point ordinal rating scale with opposite alternatives between, e.g., strongly agree and strongly disagree. In the human dimension of natural resources management research, variations of these methodologies have been used to measure support, not only for one wildlife species but for a set. For the willingness-to-pay variation, i.e., money allocation, participants must distribute a constant sum of money among a set of wildlife species. For the rating scale variation, each of the wildlife species in the set corresponds to a statement to be rated. The thesis aims to contrast these two variations, i.e., money allocation and rating scale, in their capacity to assess support changes towards a set of 12 native wildlife species from different taxa.
A survey was applied in 2018 (n: 368) and replicated in 2019 (n: 359) among urban dwellers who cohabit with the wildlife species set, in Valdivia, south of Chile. The surveys were applied before and after information disclosure and exposure in an experimental and longitudinal research design structure, respectively. As information disclosure, the threatened and endemic status of the wildlife species was presented to the participants. On the other hand, mass media coverage of a human-wildlife conflict involving one of the species included in study, the South American Sea Lion, was used for information exposure. The results indicate that the money allocation method identified support changes among the wildlife species to a greater extent than the rating scale for both types of information (Chapters 2, 3, and 4). The money allocation in the experimental design structure grouped the wildlife species based on their threatened and endemic status, while the rating scale did not come with the same results (Chapter 3). In the longitudinal design structure, the South American Sea Lion support decreased based on the average values of the money allocation and rating scale after the information exposure (Chapter 4). Differently, when the South American Sea Lion position support is compared with the other wildlife species, based on the money allocation, there was a descent, while the rating scale presented an ascent after the mass media coverage of the human-wildlife conflict (Chapter 4). This difference between the results of the two methods, in both research design structures, can be explained to a certain extent due to their scaling technique characteristics. The money allocation is a comparative scale; therefore, the support given to one wildlife species will affect the possible support given to the other species. In contrast, the rating scale is a non-comparative scale, i.e., the support given to a wildlife species is independent of the support given to the other wildlife species in the set. In the experimental research design structure (Chapters 2 and 3), to give or increase the support to a threatened or endemic wildlife species, a bill should be taken from another wildlife species, usually not threatened nor endemic. On the contrary, in the rating scale, there was no need to choose; the support could be increased for a wildlife species without decreasing the support for other wildlife species. In the longitudinal study design structure, the money allocation allows direct comparison between wildlife species from one year to another, while the rating scale does not. For the money allocation, the possible amount of support to be given to a wildlife species, i.e., 12 bills of 1,000 CLP each, did not vary from 2018 to 2019. For the rating scale, the values received among the wildlife species can vary within the rating scale from one year to another, misleading to incorrect interpretations. The money allocation method can be suitable for monitoring human-wildlife interactions, i.e., to position and visualize support shifts. The money allocation could be used as an overview of human-wildlife interactions in a specific area, working as a first assessment.
Pentathiepins are cyclic polysulfides that exert antiproliferative and cytotoxic activity in cancer cells, induce oxidative stress and apoptosis, and potently inhibit GPx1. These properties render this class of compounds promising candidates for the development of anticancer drugs. However, the biological effects and how they intertwine to promote high cytotoxicity have not been systematically assessed throughout a panel of cancer cell lines from distinct tissues of origin. In this thesis, six novel pentathiepins were analyzed and constitute the second generation of compounds with additional properties such as fluorescence or improved water solubility to facilitate cellular testing. All compounds underwent extensive biological evaluation in 14 human cancer cell lines. These studies included investigations of the inhibitory potential with regards to GPx1 and cell proliferation, examined the cytotoxicity in human cancer cell lines, as well as the induction of oxidative stress and DNA strand breaks. Furthermore, selected hallmarks of apoptosis, ferroptosis, and autophagy were studied. Experimental approaches regarding these cellular mechanisms included observing morphological changes, detecting phosphatidyl serine exposure and caspase activity, and quantifying cleaved PARP1 and levels of LC3B II. In addition, the analysis of the cell cycle aimed to identify aberrations or arrests in cell division.
Five of the six tested pentathiepins proved to be potent inhibitors of the GPx1, while all six exerted high cytotoxic and antiproliferative activity, although to different extents. There was a clear connection observed between the potential to provoke oxidative stress and damage to DNA in the form of single- and double-strand breaks both extra- and intracellularly. Furthermore, various experiments supported apoptosis but not ferroptosis as the mechanism of cell death in four different cell lines. In particular, the externalization of PS, the detection of activated caspases, and the cleavage of PARP1 corroborated this conclusion. Additionally, indications for autophagy were found, but more investigations are required to verify the current data. The findings of this dissertation are mainly in line with the postulated mechanism of action proposed for pentathiepins and a previous publication from our group that described their biological activity. However, the influence of modulators such as oxygen and GSH on the biological effects was ambiguous and dependent on the compound. The expression profile of the cell lines concerning GPx1 and CAT did not influence the cellular response toward the treatment, whereas the cell doubling time correlated with the cytotoxicity.
As the various pentathiepins give rise to different biological responses, modulation of the biological effects depends on the distinct chemical structures fused to the sulfur ring. This may allow for future optimization of the anticancer activity of pentathiepins. An analysis of the structure-activity relationships revealed that the piperazine scaffold was associated with superior biological activity compared to the pyrrolo-pyrazine backbone. Furthermore, substituents with electron-withdrawing properties or those providing a free electron pair, such as fluorine or morpholine, were advantageous. These findings should help design and synthesize the next generation of pentathiepins, thereby expanding the library of compounds, allowing for the further deduction of structure-activity relationships and an improved understanding of their mechanism of action.
Our goal was to provide a comprehensive overview of the antibody response to Staphylococcus aureus antigens in the general population as a basis for defining disease-specific profiles and diagnostic signatures. We tested the specific IgG and IgA responses to 79 staphylococcal antigens in 996 individuals from the population-based Study of Health in Pomerania. Using a dilution-based multiplex suspension array, we extended the dynamic range of specific antibody detection to seven orders of magnitude, allowing the precise quantification of high and low abundant antibody specificities in the same sample. The observed IgG and IgA antibody responses were highly heterogeneous with differences between individuals as well as between bacterial antigens that spanned several orders of magnitude. Some antigens elicited significantly more IgG than IgA and vice versa. We confirmed a strong influence of colonization on the antibody response and quantified the influence of sex, smoking, age, body mass index, and serum glucose on anti-staphylococcal IgG and IgA. However, all host parameters tested explain only a small part of the extensive variability in individual response to the different antigens of S. aureus.
A lot of research data has become available since the outbreak of the COVID-19
pandemic in 2019. Connecting this data is essential for the understanding of the
SARS-CoV-2 virus and the fight against the pandemic.
Amongst biological and biomedical research data, computational models targeting
COVID-19 have been emerging and their number is growing constantly. They are a
central part of the field of Systems Biology, which aims to understand the mechanisms
and behaviour of biological systems. Model predictions help to understand the
mechanisms of the novel coronavirus and the life-threatening disease it is causing.
Both biomedical research data and modelling data regarding COVID-19 have
previously been stored in separated domain-specific graph databases. MaSyMoS,
short for Management System for Models and Simulations, is a graph database for
storing simulation studies of biological and biochemical systems. The CovidGraph
project integrates research data regarding COVID-19 and the coronavirus family
from various data resources in a knowledge graph.
In this thesis, we integrate simulation models from MaSyMoS, including models
targeting COVID-19, into the CovidGraph. Therefore, we present a concept for
the integration of simulation studies and the linkage through ontology terms and
reference publications in the CovidGraph. Ultimately, we connect data from the field
of systems biology and biomedical research data in a graph database.
Dengue virus (DV) is a positive-strand RNA virus of the Flavivirus genus. It is one of the most prevalent mosquito-borne viruses, infecting globally 390 million individuals per year. The clinical spectrum of DV infection ranges from an asymptomatic course to severe complications such as dengue hemorrhagic fever (DHF) and dengue shock syndrome (DSS), the latter because of severe plasma leakage. Given that the outcome of infection is likely determined by the kinetics of viral replication and the antiviral host cell immune response (HIR) it is of importance to understand the interaction between these two parameters. In this study, we use mathematical modeling to characterize and understand the complex interplay between intracellular DV replication and the host cells' defense mechanisms. We first measured viral RNA, viral protein, and virus particle production in Huh7 cells, which exhibit a notoriously weak intrinsic antiviral response. Based on these measurements, we developed a detailed intracellular DV replication model. We then measured replication in IFN competent A549 cells and used this data to couple the replication model with a model describing IFN activation and production of IFN stimulated genes (ISGs), as well as their interplay with DV replication. By comparing the cell line specific DV replication, we found that host factors involved in replication complex formation and virus particle production are crucial for replication efficiency. Regarding possible modes of action of the HIR, our model fits suggest that the HIR mainly affects DV RNA translation initiation, cytosolic DV RNA degradation, and naïve cell infection. We further analyzed the potential of direct acting antiviral drugs targeting different processes of the DV lifecycle in silico and found that targeting RNA synthesis and virus assembly and release are the most promising anti-DV drug targets.
Background: Previous studies suggest that blood donation impacts blood donors’ psychological state, with either positive or negative effects, such as feeling more energetic or more exhausted. It has not yet been described how long these effects last. Materials and Methods: This prospective cohort study consisted of a qualitative and a quantitative part: (1) Psychological characteristics which changed after blood donation were identified by structured interviews of regular whole blood donors (n = 42). Based on this, a questionnaire addressing 7 psychological dimensions was established. (2) The psychological state of 100 blood donors was assessed after blood donation by applying the questionnaire 15–30 min before and during donation, as well as 15–30 min, 6 h, 24 h, 72 h, 1 week, and 8 weeks after donation. The resulting changes were summarized to a score. Furthermore, potential correlations of the score with pre-donation blood pressure, hemoglobin, or body mass index were calculated. Results: Seven items were identified which changed in at least 25% of blood donors (mood, concentration, satisfaction, resilience, spirit of initiative, physical well-being, energy level). In the 100 blood donors, the well-being score increased (positive effects, n = 23), showed minor changes (n = 53), or decreased (negative effects, n = 24). The positive effects lasted for about 1 week and the negative effects for 3 days. Conclusion: While the frequency of psychological effects following blood donation identified by our study was comparable to others, the changes of the psychological state in our donors were traceable for a longer period than previously acknowledged.
We introduce PVSC-DTM (Parallel Vectorized Stencil Code for Dirac and Topological Materials), a library and code generator based on a domain-specific language tailored to implement the specific stencil-like algorithms that can describe Dirac and topological materials such as graphene and topological insulators in a matrix-free way. The generated hybrid-parallel (MPI+OpenMP) code is fully vectorized using Single Instruction Multiple Data (SIMD) extensions. It is significantly faster than matrix-based approaches on the node level and performs in accordance with the roofline model. We demonstrate the chip-level performance and distributed-memory scalability of basic building blocks such as sparse matrix-(multiple-) vector multiplication on modern multicore CPUs. As an application example, we use the PVSC-DTM scheme to (i) explore the scattering of a Dirac wave on an array of gate-defined quantum dots, to (ii) calculate a bunch of interior eigenvalues for strong topological insulators, and to (iii) discuss the photoemission spectra of a disordered Weyl semimetal.
The present experimental work investigates plasma turbulence in the edge region of magnetized high-temperature plasmas. A main topic is the turbulent dynamics parallel to the magnetic field, where hitherto only a small data basis existed, especially for very long scale lengths in the order of ten of meters. A second point of special interest is the coupling of the dynamics parallel and perpendicular to the magnetic field. This anisotropic turbulent dynamics is investigated by two different approaches. Firstly, spatially and temporally high-resolution measurements of fluctuating plasma parameters are investigated by means of two-point correlation analysis. Secondly, the propagation of signals externally imposed into the turbulent plasma background is studied. For both approaches, Langmuir probe arrays were utilized for diagnostic purposes. The main findings can be summarized as follows: Greatly elongated fluctuation structures exist in plasma edge turbulence. The structures are aligned along the confining magnetic field (k|| = 0). The correlation degree of fluctuations for a short connection length of 0.75m is greater than 80%. For much longer connection lengths of 23m and 66m, the correlation degree is reduced to approximately 40%. A conceptual interpretation of these observations is the coexistence of two different fluctuation components. One component has a correlation length parallel to the magnetic field below 20m and the other component a correlation length greater than 70m. Sine signals in the frequency range 1-100 kHz were injected into the turbulent plasma background. The propagation parallel and perpendicular to the magnetic field of the signals was studied. In poloidal direction, an asymmetry is observed, that can be explained by a copropagation of the signal with the background E × B-rotation of the plasma. The signal propagation parallel to the magnetic field shows no such asymmetry. As an advanced approach, spatio-temporal wave patters were injected into the edge plasma. The waves launched that way can be seen as test waves' in a turbulent background. The coupling strength of the imposed wave patterns to the background turbulence relies on the match of the imposed waves to the dynamics of turbulent structures. If the propagation direction of the imposed waves is parallel to the propagation direction of the background plasma, improved coupling is observed. This finding underlines the importance of the background plasma rotation for future attempts of controlling the plasma edge turbulence. Further optimization of frequency and wave vector of the imposed waves is probably a promising approach for achieving a significant and systematic influence of turbulence. Taking into account the present experimental state-of-the-art, for a deeper insight into the mechanism of the plasma edge turbulence of magnetized high-temperature plasmas a joint effort of numerical modeling and experimental results is a valuable approach. Such a cooperation should cover the explanation of the correlation observations as well as the experiments on signal injection into background turbulence. A quantitative comparison between the results presented in this work and a dedicated numerical drift wave simulation would be a significant step forward to a better understanding of plasma edge turbulence.
Background
The Federal Ministry of Education and Research of Germany (BMBF) funds a network of university medicines (NUM) to support COVID-19 and pandemic research at national level. The “COVID-19 Data Exchange Platform” (CODEX) as part of NUM establishes a harmonised infrastructure that supports research use of COVID-19 datasets. The broad consent (BC) of the Medical Informatics Initiative (MII) is agreed by all German federal states and forms the legal base for data processing. All 34 participating university hospitals (NUM sites) work upon a harmonised infrastructural as well as legal basis for their data protection-compliant collection and transfer of their research dataset to the central CODEX platform. Each NUM site ensures that the exchanged consent information conforms to the already-balloted HL7 FHIR consent profiles and the interoperability concept of the MII Task Force “Consent Implementation” (TFCI). The Independent Trusted Third-Party (TTP) of the University Medicine Greifswald supports data protection-compliant data processing and provides the consent management solutions gICS.
Methods
Based on a stakeholder dialogue a required set of FHIR-functionalities was identified and technically specified supported by official FHIR experts. Next, a “TTP-FHIR Gateway” for the HL7 FHIR-compliant exchange of consent information using gICS was implemented. A last step included external integration tests and the development of a pre-configured consent template for the BC for the NUM sites.
Results
A FHIR-compliant gICS-release and a corresponding consent template for the BC were provided to all NUM sites in June 2021. All FHIR functionalities comply with the already-balloted FHIR consent profiles of the HL7 Working Group Consent Management. The consent template simplifies the technical BC rollout and the corresponding implementation of the TFCI interoperability concept at the NUM sites.
Conclusions
This article shows that a HL7 FHIR-compliant and interoperable nationwide exchange of consent information could be built using of the consent management software gICS and the provided TTP-FHIR Gateway. The initial functional scope of the solution covers the requirements identified in the NUM-CODEX setting. The semantic correctness of these functionalities was validated by project-partners from the Ludwig-Maximilian University in Munich. The production rollout of the solution package to all NUM sites has started successfully.
Diagenetic illite growth in porous sandstones leads to significant modifications of the initial pore system which result in tight reservoirs. Understanding and quantifying these changes provides insight into the porosity-permeability history of the reservoir and improves predictions on petrophysical behavior. To characterize the various stages of diagenetic alteration, a focused ion beam – scanning electron microscopy (FIB-SEM) study was undertaken on aeolian sandstones from the Bebertal outcrop of the Parchim Formation (Early Permian Upper Rotliegend group). Based on 3D microscopic reconstructions, three different textural types of illite crystals occur, common to many tight Rotliegend sandstones, namely (1) feldspar grain alterations and associated illite meshworks, (2) tangential grain coats, and (3) pore-filling laths and fibers. Reaction textures, pore structure quantifications, and numerical simulations of fluid transport have revealed that different generations of nano-porosity are connected to the diagenetic alteration of feldspars and the authigenic growth of pore-filling illites. The latter leads to the formation of microstructures that range from authigenic compact tangential grain coatings to highly porous, pore-filling structures. K-feldspar replacement and initial grain coatings of illite are composed primarily of disordered 1Md illite whereas the epitaxially grown illite lath- and fiber-shaped crystals occurring as pore-filling structures are of the trans-vacant 1Mtv polytype. Although all analyzed 3D structures offer connected pathways, the largest reduction in sandstone permeability occurred during the initial formation of the tangential illite coatings that sealed altered feldspars and the subsequent growth of pore-filling laths and fibrous illites. Analyses of both illite pore-size and crystallite-size distributions indicate that crystal growth occurred by a continuous nucleation and growth mechanism probably controlled by the multiple influx of potassium-rich fluids during late Triassic and Jurassic times. The detailed insight into the textural varieties of illite crystal growth and its calculated permeabilities provides important constraints for understanding the complexities of fluid-flow in tight reservoir sandstones.