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“Za Hranetsiu” – “Beyond the Border”: Constructions of Identities in Ukrainian-Canadian Literature
(2010)
Grounded in the literary and cultural studies, the dissertation “Za Hranetsiu” – “Beyond the Border”: Constructions of Identities in Ukrainian-Canadian Literature answers the question how identities of different Ukrainian immigrants and their offspring have been constructed, continuously developed and transformed in contemporary Canadian literature. The study simultaneously presents a discussion of postmodern identities, a concise historical survey of Ukrainian immigration to Canada in the nineteenth and twentieth centuries, and an overall picture of the exceptionally substantial body of Ukrainian-Canadian literature. Detailed literary analyses focus on seven Ukrainian-Canadian works: Sons of the Soil (1939-45/1959) by Illia Kiriak, Yellow Boots (1954) by Vera Lysenko, A Letter to My Son (1981) by George Ryga, The Green Library (1996) by Janice Kulyk Keefer, The Doomed Bridegroom: A Memoir (1998) by Myrna Kostash, Kalyna’s Song (2003) by Lisa Grekul, and The Ladies’ Lending Library (2007) by Janice Kulyk Keefer.
Many intrastate conflicts see more than one mediation effort. As the sequencing of mediation efforts in intrastate conflicts is neglected in existing research, this project addresses the question how and why previous mediation outcomes have an impact on subsequent mediation onset and subsequent mediation success. Drawing on bargaining theory, it is argued that governments and rebel groups engaged in intrastate conflicts account for previous mediation outcomes in their cost-benefit calculations on subsequent mediation onset, and, should subsequent talks set on, their behaviour during subsequent mediation efforts, which influences subsequent mediation success.
If mediation did not produce an agreement, the persistence of the private information problem is noted by the conflict parties. Yet, no new costs of mediation are uncovered, and hence the conflict parties will agree to subsequent mediation onset. Being aware of the necessity to overcome the private information and the commitment problem, the mediator will seek to account for the concerns of the conflict parties, and thereby work towards subsequent mediation success. If mediation produced a partial agreement, the benefits of mediation are underlined. The private information and the commitment problem seem solved with the assistance of the mediator. Subsequent mediation onset and eventually subsequent mediation success are observed. If a mediated agreement was reneged on by the rebel group, the government will refrain from further talks, pointing out the rebel group’s illegitimacy. If the government reneged on the agreement itself, it will also decide against subsequent mediation, as the previous mediation effort produced an agreement which did not mirror the power distribution in the dyad. Costs of mediation, which outweigh the benefits of it, were highlighted. Rebel groups will opt for mediation regardless which side reneged on an agreement. As both governments and rebel groups have to agree to subsequent mediation for talks to set on, subsequent mediation onset is unlikely if a mediated agreement was reneged on. Given the onset of subsequent mediation after a mediated agreement was reneged on, subsequent mediation success is unlikely to be observed, due to the previously underlined hazards of sharing private information and the persistence of the commitment problem.
The theoretical argument is tested with a mixed-methods approach. The quantitative analysis accounts for mediation efforts in African intrastate conflicts between 1993 and 2007. The qualitative analysis scrutinises the mediation efforts between the Government of Uganda and the Lord’s Resistance Army. The results of both parts of analysis largely go hand-in-hand, and show that partial mediation success and mediation which did not produce an agreement have a positive impact on subsequent mediation onset in particular, but also on subsequent mediation success. Reneged on mediated agreements have a severe negative impact on subsequent mediation onset and subsequent mediation success though.
By addressing the question which impact previous mediation outcomes have on subsequent mediation efforts, this research shows that mediation which does not produce an agreement is not the mediation outcome which needs to be feared by the international community. Instead, the deteriorating impact of short-lived agreements, a mediation outcome which is unaccounted for in existing research as an explanatory variable, becomes apparent. This research has important policy implications, especially for mediators, as it suggests that accepting mediation efforts to end without an agreement is more conducive for subsequent mediation efforts. Moreover, this research points towards the necessity of including reneged on agreements in mediation research as an explanatory variable more extensively, thereby shedding more light onto the dynamics at play in consecutive mediation efforts.
The thesis investigates the occurrence of the Early Modern European witch-hunt within the distinctively diverse society of the Grand Duchy of Lithuania. Positioned at the intersection of Latin and post-Byzantine cultures, along with Western and Eastern Christianity, this region lay on the frontlines of the Reformation and Counter-Reformation. The research aims to analyze the specific characteristics of the witch-hunt in this area, considering it a case study of social and cultural interaction within a borderland. It focuses particularly on identifying the distinctive aspects of the Lithuanian witch-hunt, examining the social and cultural roots of the witch trials, and exploring their relationship to the broader social and cultural developments of the period.
Central to this study is a detailed examination of the witch trials and an analysis of court materials. The thesis posits a socio-cultural interpretation of witch persecutions, arguing that they were culturally influenced manifestations of social tensions, enacted through legal mechanisms. The emergence of new Early Modern challenges, such as the social consequences of agrarian reform, the expansion of manorialism, and serfdom, led to novel tensions, conflicts, and responses, including accusations of witchcraft. The importation of authoritative foreign ideas about witchcraft reinvigorated, facilitated, and shaped pre-existing moderate indigenous beliefs, a process facilitated by religious struggles and Catholic post-Tridentine confessionalization. The Lithuanian legal system provided an environment conducive to an intensive witch-hunt, with witchcraft being a secular grave felony tried in highly decentralized and poorly supervised courts. However, this potential was largely unrealized. The study argues that the cultural diversity of the society played a major role in inhibiting the spread of Western witchcraft discourse, thereby limiting the extent of the witch-hunt in the Grand Duchy of Lithuania.
This thesis deals with the process considerations and optimizations of a whole-cell enzyme cascade reaction for the synthesis of ɛ-caprolactone. The enzyme cascade synthesis of ɛ-caprolactone has been conceptualized and verified using a dehydrogenase and a monooxygenase. The advantage of this enzyme combination is the closed-loop co-factor regeneration. Dehydrogenase and monooxygenase expressed in discrete whole cells were applied in defined ratio to conceptualize the cascade reaction. This necessitates the use of separate co-factor regeneration system due to impermeability of the E. coli cell wall to the co-factor. Article I deal with the design and optimization of dehydrogenase and monooxygenase co-expression in a same E. coli cell. In Article II, the cascade reaction was upscaled and a fed-batch process was realized. Following which, the important reaction metrices were analyzed and optimized. Article III extends the two-enzyme cascade with a lipase. The use of lipase helps to overcome the product inhibition of monooxygenase by ɛ-caprolactone.
In this thesis wave propagation in the whistler wave frequency range ωci≤ω≤ωce in the linear magnetized plasma experiment VINETA is investigated. The plasma is generated by a helicon antenna and has a diameter of about 10 cm. Whistler waves are launched by a loop antenna with a diameter of 4.5 cm and the fluctuating magnetic field is mapped by Ḃ-probes. Experiments are carried out for plasma parameters γ≤1/ √ 2 under which the only transversal polarized wave according to plane wave dispersion theory is the whistler wave. Due to the small collision frequencies ν≪1 cyclotron damping of whistler waves in this parameter regime is dominant and depends only on the electron plasma-β. The influence of the inhomogeneous plasma profile and excitation by a loop antenna is investigated by measurements of the fluctuating magnetic field perpendicular to the ambient magnetic field in azimuthal and radial axial planes. A mode characterized by the number of wave lengths m in the azimuthal direction is found. The mode structure is modified by the specific shape of the plasma density profile. Profiles with a homogeneous density inside the plasma radius are found to posses a comparably simple mode structure. An agreement in the mode structure of full-wave simulations in three dimensions, including a Gaussian density profile and excitation of the wave by a loop antenna, with the experimental results is found. Conclusions on the spatial structure of the excited mode are drawn using the simulations which predict excitation of an m=2 mode. The wave is found to be ducted within the plasma radius over a wide parameter range. A Helmholtz decomposition of the simulations electric field exhibits the fluctuating space charge as the dominant source for the electric field, while the contribution due to induction is negligible. The magnetic field is given partially by the electron and displacement current. Both contributions to the magnetic field are of the same order of magnitude. The frequency dependency of the excited modes spatial damping increment is investigated using measurements of the magnetic fluctuations along the symmetry axis of the plasma. In order to illustrate the parameter dependency, the electron plasma-β is varied over two orders in magnitude in the range β = 4·10-4 - 2.4·10-2. The experimental result for the spatial damping increment of the mode yields a strong damping for wave frequencies ω/ωce > 0.5 at maximum plasma-β, which shifts to higher frequencies with decreasing β. The parameter dependency of the damping for a fixed frequency is studied in an axial ambient magnetic field gradient. In both cases an excellent agreement between the experimental result and predictions for cyclotron damping from plane wave dispersion theory is found.
Overall, the present thesis provides tools for virus characterization. Importantly, the application of the developed tools contributed to the fundamental knowledge of selected, veterinary relevant viruses in terms of their underlying biology and virus-host interaction.
By using in vitro models and full-genome sequencing, important new findings were gained that contributed to the deeper understanding of the selected viruses. Results show that in vitro models can be successfully modified to enable study of specific host factors that are important for viral entry. By genetically modifying a bovine cell line using CRISPR/CAS9 technology , a stable cell culture model was established that is now available to the research community, to study the virus-host interaction of pestiviruses. The model was further used to elucidate the adaptability of bovine viral diarrhea the virus and impact on infectivity and growth. By using deep sequencing, genetic changes that occurred during the adaption process of bovine viral diarrhea virus were identified and linked to the phenotype, allowing the characterization of genetic regions important for virus binding to the host cell.
Whole-genome analysis using deep-sequencing was further used to characterize circulating rabbit haemorrhagic disease virus (RHDV) strains from Germany. The study provides more than 50 full genomes of RHDV strains sampled between 2013 and 2020. Since the virus family is drastically under sampled, in particular in central Europe, these sequences represent a very valuable addition to the field. The investigation led further to the discovery of a novel recombinant virus strain in hares, that is likely still circulating today. This finding is of special interest, since it is the first detection of a recombination event between the genogroups RHDV and European brown hare syndrome virus (EBHSV) of Lagoviruses. It highlights the importance of full genome virus surveillance and the potential risk of virus variants that might evade diagnostic detection.
Serological assay were used to study the persistency of antibodies developed during a natural infection with Schmallenberg virus. It could be shown that these antibodies are long lasting and therefore, re-emergence of this virus in Europe is likely favoured by introduction of naïve animals into a herd and not by decreasing antibody-titers over time.
Overall, the discoveries described in this thesis underline the importance of adequate tools for virus characterization and they give valuable answers to fundamental questions regarding the biology of the different viruses.
The layer-by-layer method is a robust way of surface functionalization using a wide range of materials, e.g. synthetic and natural polyelectrolytes (PEs), proteins and nanoparticles. Thus, this method yields films with applications in diverse areas including biology and medicine. Sequential adsorption of different oppositely charged macromolecules can be used to prepare tailored films with controlled molecular organization. In biomedical research, electrically conductive coatings are of interest. In manuscript 1, we investigated films sequentially assembled from the polycation poly (diallyldimethyl-ammonium) (PDADMA) and modified carbon nanotubes (CNTs), with CNTs serving as the electrically conductive material. We assume that charge transport occurs through CNT contacts. We showed that with more than four CNT/PDADMA bilayers, the electrical conductivity is constant and independent of the number of CNT/PDADMA bilayers. A conductivity up to 4∙10^3 S/m was found. It is possible to control the conductivity with the CNT concentration of the CNT deposition suspension. A higher CNT concentration resulted in thicker CNT/PDADMA bilayers, but in a lower conductivity per bilayer. We suspect that an increased CNT concentration leads to a rapid CNT adsorption without the possibility to rearrange themselves. If PDADMA then adsorbs on the disordered CNTs in the next deposition step, the average thickness of the polymer layer is thicker than on the more ordered CNT layer from the dilute solution. This leads to an increased PE monomer/CNT ratio and lower conductivity. More polycations between the CNT layers leads to less CNT contacts. Thus, the controlled composition of films can be used to fulfill specific requirements.
For many applications of polyelectrolyte multilayers (PEMs), cheap PEs with a broad distribution of molecular weights are used. It was unknown whether the distribution of molecular weights of the PE in the adsorption solution is maintained during the adsorption process and hence in the film. To investigate this, the PSS adsorption solution in article 2 consisted of a binary mixture of short and long poly (styrene sulfonate) (PSS). A good model system to study layered films in terms of composition are PDADMA/PSS multilayers. Neutron reflectivity and in-situ ellipsometry measurements were carried out to determine the PSS composition in the film and the growth regimes. At a mole fraction of long PSS of 5 % or more in solution, the exponential growth (which is characteristic of short PSS) is totally suppressed, and only long PSS is deposited in the resulting multilayer. Variation of adsorption time of PSS showed that short PSS first adsorbs to the surface but is displaced by long PSS. Between 0 and 5 % of long PSS in the adsorption solution exponential growth occurs. The fraction of short PSS in the film continuously decreases with the increase of long PSS in the adsorption solution. In the assembly of films prepared from binary PSS mixtures, the short PSS leaves the film through adsorption/desorption steps both during PSS adsorption and during PDADMA adsorption (as PDADMA/PSS complexes). Both techniques show that the composition of the film does not correspond to that of the deposition solution. The composition and thus the properties of the resulting multilayer are influenced by the choice of adsorption time. Moreover, we conclude that a multilayer grown from a polydisperse polyelectrolyte contains fewer mobile low molecular weight polymers than the deposition solution.
In manuscript 1 and article 2, the composition of multilayers was studied. In manuscript 1 adsorption kinetics were important for the arrangement of CNTs on the surface. In article 2, the adsorption kinetics, i.e. the diffusion of the polyelectrolytes to the surface, was also investigated. In article 3, we investigated the influence of the composition of the film as well as the preparation condition on the mobility of PEs in the film. The molecular weight of the polycation PDADMA and the NaCl concentration of the deposition solution were varied. The vertical PSS diffusion constant D_PSS within the PDADMA/PSS multilayers was measured using neutron reflectivity. The salt concentration of the preparation solution defines the polymer conformation during deposition. The molecular weight of the polycation determines the degree of intertwining. Together, both parameters determine the polyanion-polycation coupling and thus the PSS mobility within the network. Log−log display of D_PSS vs the molecular weight of PDADMA and fits to two power laws (D_PSS ∝ X_n(PDADMA)^(-m) ∝ M_w(PDADMA)^(-m)) reveals for films built from 10 or 200 mM NaCl a kink. Below and above the kink, the dependence of D_PSS on M_w(PDADMA) can be described by different power laws. For Χ_n(PDADMA) < X_n,kink(PDADMA) ≈ 288, the exponents are consistent with the predictions of the sticky reptation model. X_n(PDADMA) ≈ 288 is the entanglement limit. For Χ_n(PDADMA) > X_n,kink(PDADMA) ≈ 288, the decrease of D_PSS with M_w(PDADMA) is larger than below the entanglement limit, which is indicative of sticky reptation and entanglement. The PSS diffusion constant of films built from 100 mM NaCl drops three orders of magnitude when increasing the molecular weight of PDADMA from 45 kDa to 72 kDa. To figure out if an immobile PSS fraction exists in the film built from 72 kDa PDADMA (beyond the entanglement limit), the film was annealed at different conditions in article 4: both temperature and salt concentration were varied. For data analysis, the simplest model with two PSS fractions with different diffusion constants was used. These diffusion constants increase as the temperature of the surrounding solution is increased. As assumed in article 3, an immobile PSS fraction exists when annealing at room temperature. At higher annealing temperatures, at least two diffusion processes must be distinguished: the diffusion of the highly mobile PSS fraction through the entire film and a slow PSS fraction, mowing in a limited way. The choice of preparation conditions determines whether a polyelectrolyte multilayer can intermix completely. It is not clear if complete intermixing will ever occur for films built with PDADMA beyond the entanglement limit. It is possible that the diffusion is more complex. Long-term measurements will clarify this question. Calculating scattering length density profiles with subdiffusive behavior would be interesting and is a challenge for the future. Furthermore, immobile fractions are only visible with long annealing times. We hypothesize that an immobile or nearly immobile fraction is present whenever the dependence of D_PSS on the molecular weight of PDADMA cannot be described by the sticky reptation. To verify this hypothesis, further studies are necessary.
All results presented and discussed in the manuscript and articles show that by varying the preparation conditions, tailored films can be built. The composition of the film is also determined by the adsorption kinetics. In addition, the mobility of the PEs within the multilayers can be controlled by varying the conformation, mingling and entanglement of the chains within the film. The influence of the salt concentration in the preparation solution on the growth regimes during film formation is part of our future research. It is planned to investigate films built of different PDADMA molecular weights under varied annealing conditions to better understand the mobile and immobile fractions.
For many years, rangeland ecologists have debated about whether the state of semi-arid and arid rangelands is the expression of an ecological equilibrium or non-equilibrium dynamics reached in response to grazing livestock. Since the problem has been considered at different spatial scales, it is recognised that the competing concepts of equilibrium and non-equilibrium dynamics need to be integrated. Furthermore, the role of environmental variables as vegetation driving factors has long been ignored in the discussion on grazing effects on ecosystems. Present thesis, examines the dependence of plant communities on environmental in particular site-ecological conditions in three ecosystems of Western Mongolia established along a precipitation gradient to detect the vegetation-driving ecological factors involved. Furthermore, grazing impact is exemplary assessed in a desert steppe at additional spatial scales of plant communities and population. At the landscape level, a classification of plant communities in dependence on environmental conditions is carried out. Additionally, the investigations focused on the impact of grazing on soil and on the occurrence of grazing-mediated plant communities. Data were sampled along an altitudinal gradient between 1150 m to 3050 m a.s.l. from arid lowland with desert steppe via semi-arid mountain steppe to humid alpine belt. Within each altitudinal belt, data sampling was carried out along grazing gradients, established from grazing hot spots to areas distant from them. By means of an environmentally based vegetation classification, factors with highest explanation values for largest variation in vegetation were identified and considered as most responsible for vegetation patterns. To validate and affirm the classification, three different statistical methods are applied: environmentally adjusted table work of vegetation relevés supported by cluster analysis of species distribution, detrended correspondence analysis of vegetation data separately from environmental data, and the principle component analysis of only environmental data. Vegetation-driving factors change along the altitudinal gradient from abiotic forces in the desert steppe, as e.g. altitude and soil texture, to abiotic and biotic forces in the alpine belt represented by soil texture, soil nutrients and grazing. Vegetation and soil of all ecosystems respond to grazing but with different patterns and to a different extent. While desert steppe does not indicate grazing communities, mountain steppe demonstrates grazing communities at fertilised sites and alpine belt at nutrients depleted sites. Thus, the grazing sensitiveness of the ecosystems is assumed to be linked with plant productivity and the role of vegetation as site-determining factor (Chapter 2). To examine grazing impact at lower spatial scales on desert steppe as the ecosystem with lowest grazing sensitiveness at the landscape scale, at community scale the total number of species, the total vegetation cover, the percentage of annual species, the cover of annual species, and properties of soil nutrient along gradients of grazing intensity within three different communities were assessed. Vegetation parameters respond to grazing in different ways, and the responses of the same parameters vary between plant communities. Correlations with grazing intensity indicate only partly statistical significance. Significant correlations of grazing intensity with concentrations of soil nutrient point to eutrophication in two communities. A comparison of vegetation and soil properties refers to a greater indirect influence of grazing via increased soil nutrients than the direct effect on vegetation (Chapter 4). At the population level, data about stand density, aboveground biomass, individual plant weight, and the proportion of flowering plants of the dominant dwarf semi-shrub Artemisia xerophytica were collected along a grazing gradient. Soil data were used to distinguish between grazing and edaphic influences. All parameters of Artemisia xerophytica reflect the assumed gradient of grazing intensity up to 800 m distance from the grazing hot spot. As grazing pressure decreases, plant density and total biomass per plot increase. The average shrub weight, an indicator of plant vitality, is related to both: distance from the grazing hot spot and stand density, which may be explained by additional intraspecific competition at higher densities. At a longer distance, these effects are masked by variations in soil parameters determining water availability, leading to quite similar degradation forms. These results are in contrast to other studies carried out at the scale of plant communities which did not detect significant changes along a grazing gradient. One explanation is the different map scale: the study took place only within a single plant community comparing populations of one species (Chapter 3). The comparative study demonstrates that even arid desert steppes of western Mongolia display equilibrial and non-equilibrial properties, depending on the observational scale: while no grazing mediated plant communities could be identified at the landscape scale as predicted by the non-equlilibrium model, at the community level vegetation parameters imply an intermediate position between equilibrium and non-equilibrium system. At the population level, the results clearly reflect the grazing gradient as predicted by the equilibrium model (Chapter 4). As a consequence, the assessment of vegetation dynamics and grazing impact in rangelands requires a multiple-scale approach that duly considers different vegetation properties responding differently to grazing, climatic and edaphic variability at different spatial scales. It is further suggested, that future research should draw comparisons between landscapes that co-evolved with herbivory, and those that did without (Chapter 4).
Vegetation dynamics on abandoned terraces of Sicily: the course and driving factors of succession
(2007)
Secondary succession processes have been widely studied in Europe for some agroecosystems, but not for terraced ones. The first part of the present study focuses on a description of the plant communities involved in secondary succession processes on Sicily (Italy) a) from a floristic and structural point of view and b) from a species diversity point of view. In order to obtain these results, 129 vegetation relevés (sensu Braun-Blanquet) were made on abandoned terraces in five of the main terraced areas of Siciliy: 1) the Aeolian Islands, 2) Pantelleria Island, 3) Mt. Etna, 4) the Palermo Mts. and 5) the Hyblaean Plateau. Only abandoned vineyards or grain crop fields were selected as sample plots, always 50 m2-sized. The results of biodiversity evaluation by t-tests and ANOVA showed that vascular plant diversity is linked to disturbance regime and to abiotic factors (especially geological substrate). Especially grazing increases species richness. Moreover, it was found that on limestone species richness is higher than on volcanic substrates. Vegetation relevés were also analysed with DCA and TWINSPAN. The resulting 14 sample plot groups (= clusters) were then used to check the dynamic relations. From a floristic point of view, plant communities involved in secondary succession processes on Sicilian terraces are quite different between and within the five study areas. This is mainly due to different substrate and bioclimatic conditions. Moreover, vegetation is strongly influenced by abandonment age and disturbance status. If no disturbance biases succession, then plant communities evolve rather rapidly (30-50 years) to maquis communities. If frequent fires or intense grazing occur, secondary succession is blocked in a "steady state". The second part of the present study focuses on the colonization mechanisms of old fields by woody species. In a first section, the existence of 1) the neighbourhood effect and 2) the safe-site effect are checked by analyzing 51 transect relevés, made up of 357 subplot relevés (1x1m). The transects were made in target fields 1) with older neighbour (i.e. old succession stage characterized by maquis communities) and 2) with older neighbour absent within a 100 m-distance. All woody species individuals were counted, recording if they grew within the influence of a potential safe site (former crop plants of vine and the terrace wall base). Data evaluation by Kruskal-Wallis ANOVA and Mann-Whitney Rank Sum confirmed the existence of the two effects. Moreover, it was shown that animals as dispersal vectors strongly influence these effects. For the neighbourhood effect, seed dispersal distance is the crucial point, while for the safe site effect 1) passive facilitation (i.e. animals tend to create heterogeneous seed rain patterns because they frequent certain microhabitats more often than others) and 2) active facilitation (i.e. the positive influence of an existing woody or herbaceous plant individual on the establishment or the growth of another one) are crucial. The second section describes the performance of establishment of Quercus ilex L. in different microsites of terraced old fields. In November 2004, acorns were buried on a North-facing slope and on a South-facing slope in five different microsites: 1) under vine plants, 2) at wall bases, 3) under the canopies of isolated shrubs, 4) between small rock accumulations and 5) in open spaces (i.e. outside of any of the previously named microsites). In monthly checks, seedling emergence, survival, height and leaf number were recorded. Moreover, in April and July were measured air temperature and air humidity in the different microsites. Overall emergence rate was 52.4% (n = 1,020). More seedlings emerged on the South-facing slope (S; 59.8%) than on the North-facing slope (N; 45.0%). Emergence was higher when acorns were buried under vine plants and at the wall base than in other microsites of the old fields. At the end of the experiment (September 2006), 45.3% of all emerged seedlings were still alive (29.2% on N, 58.9% on S). Survival was higher in general on the South-facing slope, and higher under vine plants and at the wall base than in the open spaces of the old fields. From literature, it is known that seed vitality, seed germination and seedling survival of Quercus ilex are favoured by shady, wet and fresh conditions. The temperature and air humidity measurements showed that at the wall base, under vine plants and under isolated shrubs environmental conditions are milder than in open spaces. However, even if temperature and relative air humidity seem to play an important role for Quercus ilex seedling emergence and survival, they did not unambiguously explain the differences between the safe site types. A factor of major importance is probably soil moisture. As a last part, the present study discusses what does the obtained results mean for terrace landscape conservation and biodiversity management.
Background: High resolution three-dimensional (3-D) magnetic resonance imaging (MRI) is widely used to predict the neurovascular anatomy within the cerebellopontine angle. Objective: To assess value of 3-D three-dimensional Steady-state free precession imaging (SSFP) and Time-of-flight magnetic resonance angiography (TOF MRA) and in detecting the offending vessels in hemifacial spasm by comparison to intraoperative endoscopic visualization. Methods: 42 patients underwent endoscope-assisted microvascular decompression (MVD). All available preoperative 3-D SSFP and TOF MRA images were checked. Intraoperative videos were captured by a high definition endoscopic camera attached to endoscopes while exploring the area of facial nerve root exit zone (REZ). Evaluation of the 3-D images was performed by two independent groups of observers and compared with the operative findings. Results: 3-D MRI had an average positive predictive value (PPV) of 89.1% in differentiating between simple and complex compression. Mean accuracy of the before mentioned images in detection of the offending vessels was 83.3% and 77% according to the first and second group of observers respectively. Averaged inter-observer agreement between the two groups of observers was substantial with an averaged Kappa coefficient (K) of 0.56. In simple compression group, mean accuracy was 97% and 89.4% according to the first and second group of observers respectively. Averaged K for agreement was substantial (K=0.65). Conclusion: According to endoscopic visualisation, 3-D SSFP and TOF MRA images are accurate in detecting the offending vessels in simple compression of the facial nerve, and in predicting presence of a complex compression with variable sensitivity in identifying all offending vessels.
Urban Green Areas – their functions under a changing lifestyle of local people, the example of Hanoi
(2013)
Hanoi is a rapidly developing city - in terms of area, population and economy. It also has to face social and environmental problems that often accompany the fast development of a city. Increasing environmental pollution leads to a decrease in living conditions, such as clean water, housing, social services, etc., for most of the city’s inhabitants. Other well-known social problems in cities worldwide also occur in Hanoi nowadays, for example inequality, food supply, and unemployment. In addition, the society is altering; lifestyle- change is a permanent process. Today, it seems that the changing process in Asian countries is rather leap-frogging than continuously. Although many research projects concerning to urban green areas in Hanoi have been completed recently, less is known about utilization of parks&gardens in a practical and systematic way. This study aims at contributing to fulfills the gaps with up-to-date facts and figures of parks’ utilization in the inner city of Hanoi. Based on “grounded theory”, triangular methodology was applied to collect empirical data in four main parks in the inner city of Hanoi namely: Thong Nhat, Bach Thao, Hoan Kiem, and Lenin. Scientific observations, visitor countings were done in 2010-2011; including 2143 face-to-face interviews to park users covering the course of the year and a small online-poll of 113 responses. Thirteen interviews with experts have been done in several phases and taken into account for discussing and testing hypotheses. Empirical results have shown that utilization of the parks is in abundance in terms of the use - numbers as well as activities. A comparison between the courses of the day for parks in Berlin and Hanoi shown that the time of using parks in Hanoi is earlier in the day. In details, there is 25% and 1.4% of total daily visitors went to parks in Hanoi and Berlin,, respectively. However, the biggest peak in park-visiting time for both cities is in the afternoon. The findings also clarified that students and retirees are the major users even though there is some different in structures of park user among the four parks. The length of stay depends on how large and interesting a park is. In this aspect, Hanoi parks are very poor in facilities showing by a long list of missing facilities in the parks. However, as there is no alternative, parks in Hanoi still attract a high number of visitors. In general, results from this study have shown a close relationship among socio-economic and political situations in Vietnam with UGAs and its utilization. Influencing factors on parks’ utilization were also indentified, which are social changes, lifestyle changes, economic situation, conflicts in land usage, and maintaining cost for UGAs. Three given hypotheses were confirmed: i) the demand of public UGAs in inner Hanoi will grow mid-term and increase strongly long-term; ii) Hanoi’s residents will claim strongly for more parks in the future; ii) The number of conflicts inside the area of UGAs, among the visitors will occur very soon and require a specific master plan for the development and the management of UGAs. Finally, based on the weaknesses of UGAs in Hanoi recently, two groups of recommendations were also suggested to improve UGAs. Firstly, in terms of quality – quantity: • Retain each square meter of green space as UGA – do not unblock any green space for construction; • The existing UGA have to be well maintained. Secondly, in terms of management – planning: • Elaborate a UGA-masterplan for (inner) Hanoi; • Keep UGA management in the responsibility of public bodies; • Implement participation of affected population defector in the process of planning and management (as it has already been written in planning guidelines); • Be aware of potential conflicts among park user groups; • Establish an UGA monitoring system – involving regular (or even permanent) countings based on up-to-date technology; Realize horizontal partnering structures.
Streptococcus pneumoniae (the pneumococcus) is a harmless resident of the human nasopharyngeal cavity, and, in general, every individual is likely to be colonized asymptomatically at least once during life. However, under certain conditions, the bacterium can spread to other tissues and organs causing local, non-invasive infections but also lifethreatening, invasive diseases. Pneumococcal carriage and infection is a highly regulated interplay between pathogen- and host-specific factors and the intimate contact of S. pneumoniae with the surface of the nasopharynx is the crucial step in pneumococcal pathogenesis. Pneumococcal adherence to the respiratory epithelium is mediated by surface-exposed adhesins. These adhesins engage host cell receptors either directly or indirectly by recognizing glycoproteins of the extracellular matrix (ECM) including structural components, such as collagens, laminins, and fibronectins, as well as plasma-derived ECM modulators, like vitronectin and Factor H. Pneumococcal surface protein C (PspC) is a surface-exposed protein and important virulence factor of S. pneumoniae. The multifunctional PspC protein promotes pneumococcal adherence to host cells by interacting with the secretory component of the human polymeric Immunoglobulin receptor of respiratory cells. In addition, PspC facilitates pneumococcal immune evasion by recruiting the complement inhibitor proteins C4b-binding protein (C4BP) and Factor H. Moreover, Factor H bound to the pneumococcal surface promotes bacterial adhesion to human epithelial and endothelial cells. S. pneumoniae also interacts with the human glycoprotein vitronectin. In plasma, monomeric vitronectin regulates thrombosis, fibrinolysis and the terminal complement cascade, while it additionally mediates cell-matrix interactions, cell adhesion and migration in the ECM. It was shown that multimeric, ECM-associated vitronectin facilitates pneumococcal adherence to respiratory epithelial cells. In addition, the interaction of pneumococci with vitronectin promotes their uptake by mucosal epithelial cells via the engagement of the integrin αvβ3 receptor and activation of intracellular signaling pathways culminating in cytoskeletal rearrangements. This study aims to identify and characterize the surface-exposed protein(s) that mediate binding of pneumococci to vitronectin and to elucidate the impact of vitronectin on pneumococcal pathogenesis beyond its function as molecular bridge between pneumococcus and host. Flow cytometric, immunosorbent and surface plasmon resonance experiments revealed that PspC is a vitronectin-binding protein of S. pneumoniae. The specificity of the interaction with vitronectin was confirmed using recombinant PspC proteins and Lactococcus lactis heterologously expressing PspC on their surface. Factor H did not hinder vitronectinbinding to PspC indicating that vitronectin recognizes the central part of PspC. Secretory IgA inhibited but not completely prevented vitronectin-binding to PspC, strongly suggesting that vitronectin binds near, but not directly to, the SC-binding region within the R domain(s) of PspC. In addition, PspC proteins comprising two R domains bound with higher affinity to vitronectin than PspC containing only one R domain, indicating that two interconnected R domains are required for efficient vitronectin-binding. Despite the sequential and structural differences to classical PspC, the PspC-like protein Hic specifically interacted with vitronectin with similar affinity than PspC containing two linked R domains. Binding studies confirmed that Factor H interacts with the very N-terminal region of Hic showing high sequence homology to classical PspC proteins, while vitronectin recognizes an adjacent region in the N-terminal region of Hic. The studied PspC proteins bound to both soluble and immobilized vitronectin, and the C-terminal heparin-binding domain (HBD3) was identified as PspC-binding motif in soluble vitronectin. However, in its immobilized form, vitronectin likely exposes additional binding sites for PspC since a region N-terminally to the identified HBD3 conferred binding of PspC. Vitronectin inhibits the terminal complement pathway, thereby preventing proinflammatory immune reactions and tissue damage. In general, pneumococci are protected from opsonization and MAC-dependent lysis by their capsule. However, pneumococci in close contact to human cells can become susceptible to complement attack due to reduced amounts of capsule. In addition, they can be severely affected by TCC-induced inflammatory responses. Vitronectin bound to PspC significantly inhibited the formation of terminal complement complexes. Thus, the interaction of PspC with vitronectin might aid in immune evasion of S. pneumoniae by inhibiting complement-mediated lysis and/or suppressing proinflammatory events. In conclusion, the results revealed the multifunctional PspC and Hic as vitronectin-binding proteins and proposed a novel role for the specific interaction of S. pneumoniae with vitronectin in regulating the complement cascade, beside its function as molecular bridge to the respiratory epithelium.
Autoclaved aerated concrete (AAC) is a building material that combines heat insulation
properties with sufficient mechanical strength for masonry construction. Compared to
ordinary concrete, the matrix is highly porous (>50%) and hardened by a hydrothermal curing
process at 150°C - 200°C. During this process, quartz sand and portlandite react to form first
calcium silicate hydrates (C-(A)-S-H) with Ca/Si ratios <1.3 and then tobermorite. Especially
tobermorite, which has a much larger crystallite size than C-(A)-S-H, provides improved
mechanical strength. This reaction sequence is influenced by many parameters and
additives of which calcium sulfate is probably the most important. Despite several attempts to
investigate these hydrothermal reactions, the actual reaction mechanism involved when
adding sulfate ions is not fully understood. It has been suggested that the addition of ca.
1.5 wt% significantly improves the mechanical properties due to the enhanced formation and
arrangement of tobermorite in the porous matrix. Since the sulfate content in AAC waste is
exceeding regulatory threshold for low-quality reuse in some countries, the aim of this study
was to investigate in detail the reaction mechanisms involving sulfate addition. Such
knowledge may open up the possibility to improve AAC production and to avoid the need for
sulfate addition. To achieve this goal, this research work focused on investigating the
hydrothermal curing process to determine the sequence of hydrothermal reactions and the
spatial distribution of the phases formed. For this purpose, a new setup for in situ X-ray
diffraction was specifically designed to study hydrothermal reactions and to conduct time
intensive experiments on a normal laboratory diffractometer. In order to quantitatively
evaluate the in situ measurements by Rietveld analysis using TOPAS, it was also necessary
to develop atomistic structure models for C-(A)-S-H phases. This was made possible by
adopting a supercell approach that was previously used to describe turbostratically stacked
clay minerals. The structure models, derived from tobermorite, are placed in an otherwise
empty supercell to simulate the C-(A)-S-H nanostructure. Adopting these methodological
advances, it was possible to obtain absolute phase quantities from in situ data and to track
the reaction kinetics of the hydrothermal curing process. These results were then combined
with ex situ X-ray diffraction and scanning electron microscopy. Confirming previous studies,
the major effect of sulfate ions was the formation and decomposition of hydroxylellestadite. It
was further revealed that C-(A)-S-H formation was delayed during hydroxylellestadite
formation, which is supposed to support the silicate ion diffusion and hence the tobermorite
formation at a stage critical for improved hardening of AAC. This can be linked to the
formation of lower amounts of capillary pores in the range of 1-5 µm, as observed by
scanning electron microscopy, and therefore a lower concentration of inherent defects that
resulted in the improved mechanical properties. This research work highlights how important the spatial distribution of crystallites is for the properties of a building material and how this
distribution can be influenced by small alterations in reaction chemistry.
In this work, the investigation of dusty plasma by means of tunable diode laser spectroscopy was carried out. Special interest was focused on the interactions of dust particles and metastable atoms. At first, Al density and temperature in dc and pulsed magnetron discharges were measured. Measurements with argon as working gas show an expected behavior of the measured atom density and temperature. Decrease of absorption signal was observed in argon/oxygen and argon/methane mixtures. A small admixture of oxygen leads to a complete disappearance of the absorption signal indicating vanishing Al atom density. The effect is believed to be caused by the oxidation of the magnetron target. This decrease reveals typical hysteresis behavior caused by poisoning of the target. Significant difference between critical oxygen flow value in dc and pulsed modes was registered. Then dust formation and plasma behaviors in hydrocarbon containing plasmas were analysed. The dust growing plasmas (Ar/C2H2, Ar/CH4 and Ar/C3H6 rf plasmas) were characterized by laser transmission and scattering methods, ion energy distribution function and mass spectrum evolution by plasma processing monitor, and the spatial distribution in pristine plasma and the temporal behavior of the metastable atom density in processing plasma using TDLAS. Pristine plasma were then characterized in term of metastable density and temperature. The radial distribution of neon metastable atom density in capacitive coupled rf discharge can be approximated to a Gaussian profile with the width smaller than plasma chamber radius. The diffusion flow of metastable atoms deduced from their spatial density distribution gives the loss of metastable atom in the plasma sheath. Argon metastable density was measured in rf plasma and compared with a simple model for metastable density. The model explains well the trend of metastable density with respect to the change of plasma input power. Metastable density of dusty plasma with injected dust particles was measured and compared to that of pristine plasma. The particle heating by metastable atoms was strongly evidenced. The power absorbed by dust particles due to bombardment of metastable atoms onto a dust particle surface in our experiments is about 0.04 Wm-2 for the low dust density case and lower for higher dust density which is in the same order as the contributions of kinetic energy of ions and electrons and the energy released by their recombination on the grain surface. The influence of dust particle density and size on metastable density was studied. Through measuring metastable density, TDLAS can be used as a tool to study the dust growth process in processing plasma.
Pancreatic ductal adenocarcinoma (PDAC) is one of the most aggressive malignancy and projected to be the third leading cause of cancer related death by 2030. Despite extensive knowledge and insights into biological properties and genetic aberrations of pancreatic ductal adenocarcinoma cells, therapeutic options remain temporary and ineffective. One plausible explanation for the futile response to therapy is an insufficient and nonspecific delivery of anticancer drugs to the tumor site. Superparamagnetic iron oxide nanoparticles (SPION) coupled with siRNA targeted against the cell cycle specific serine-threonine-kinase, Polo-like kinase-1 (siPLK1-StAv-SPIONs) could serve a dual purpose for delivery of siPLK1 to tumor and noninvasive assessment of delivery in vivo. siPLK1-StAv-SPIONs were designed as theranostics to function via a membrane translocation peptide (MPAP-) as well as a tumor selective peptide (EPPT-1) to increase intracellular delivery and tumor specificity, respectively. In vitro and in vivo experiments using a syngenic orthotopic PDAC model as well as the endogenous LSL-KrasG12D,LSL-Trp53R172H,Pdx-1-Cre model revealed significant accumulation of siPLK1-StAv-SPIONs in PDAC resulting in efficient PLK1 silencing. Tumor specific silencing of PLK1 halts tumor growth, marked by decrease in tumor cell proliferation and increase in apoptosis. siPLK1-StAv-SPIONs are well tolerated with no observed systemic side effects. Our data suggests, siPLK1-StAv-SPIONs with dual specificity residues for tumor targeting and membrane translocation, represent an exciting opportunity for targeted therapy in PDAC.
The confinement of energy has always been a challenge in magnetic confinement fusion devices. Due to their toroidal shape there exist regions of high and low magnetic field, so that the particles are divided into two classes - trapped ones that are periodically reflected in regions of high magnetic field with a characteristic frequency, and passing particles, whose parallel velocity is high enough that they largely follow a magnetic field line around the torus without being reflected. The radial drift that a particle experiences due to the field inhomogeneity depends strongly on its position, and the net drift therefore depends on the path taken by the particle. While the radial drift is close to zero for passing particles, trapped particles experience a finite radial net drift and are therefore lost in classical stellarators. These losses are described by the so-called neoclassical transport theory. Recent optimised stellarator geometries, however, in which the trapped particles precess around the torus poloidally and do not experience any net drift, promise to reduce the neoclassical transport down to the level of tokamaks. In these optimised stellarators, the neoclassical transport becomes small enough so that turbulent transport may limit the confinement instead. The turbulence is driven by small-scale-instabilities, which tap the free energy of density or temperature gradients in the plasma. Some of these instabilities are driven by the trapped particles and therefore depend strongly on the magnetic geometry, so the question arises how the optimisation affects the stability. In this thesis, collisionless electrostatic microinstabilities are studied both analytically and numerically. Magnetic configurations where the action integral of trapped-particle bounce motion, J, only depends on the radial position in the plasma and where its maximum is in the plasma centre, so-called maximum-J configurations, are of special interest. This condition can be achieved approximately in quasi-isodynamic stellarators, for example Wendelstein 7-X. In such configurations the precessional drift of the trapped particles is in the opposite direction from the direction of propagation of drift waves. Instabilities that are driven by the trapped particles usually rely on a resonance between these two frequencies. Here it is shown analytically by analysing the electrostatic energy transfer between the particles and the instability that, thanks to the absence of the resonance, a particle species draws energy from the mode if the frequency of the mode is well below the charateristic bounce frequency. Due to the low electron mass and the fast bounce motion, electrons are almost always found to be stabilising. Most of the trapped-particle instabilities are therefore predicted to be absent in maximum- J configurations in large parts of parameter space. Analytical theory thus predicts enhanced linear stability of trapped-particle modes in quasi-isodynamic stellarators compared with tokamaks. Moreover, since the electrons are expected to be stabilising, or at least less destabilising, for all instabilities whose frequency lies below the trapped-electron bounce frequency, other modes might benefit from the enhanced stability as well. In reality, however, stellarators are never perfectly quasi-isodynamic, and the question thus arises whether they still benefit from enhanced stability. Here the stability properties of Wendelstein 7-X and a more quasi-isodynamic configuration, QIPC, are investigated numerically and compared with another, non-quasiisodynamic stellarator, the National Compact Stellarator Experiment (NCSX) and a typical tokamak. In gyrokinetic simulations, performed with the gyrokinetic code GENE in the electrostatic and collisionless approximation, several microinstabilities, driven by the density as well as both ion and electron temperature gradients, are studied. Wendelstein 7-X and QIPC exhibit significantly reduced growth rates for all simulations that include kinetic electrons, and the latter are indeed found to be stabilising when the electrostatic energy transfer is analysed. In contrast, if only the ions are treated kinetically but the electrons are taken to be in thermodynamic equilibrium, no such stabilising effect is observed. These results suggest that imperfectly optimised stellarators can retain most of the stabilising properties predicted for perfect maximum-J configurations. Quasi-isodynamic stellarators, in addition to having reduced neoclassical transport, might therefore also show reduced turbulent transport, at least in certain regions of parameter space.
1. The study confirms an association between transverse arch dimensions and severity of ankyloglossia, which reflects relationship between molar difference and free tongue. 2. Molar difference in group A (complete and severe ankyloglossia cases) has high negative values (average -4.38) which was much smaller than the data from the literature concerning many different types of occlusion. 99 3. The exact relation between transverse arch dimension and severity of ankyloglossia needs further research.
Being the victim of traumatizing events has consequences that can lead to wellknown mental disorders, such as depression. However, newest studies show that these events do not only affect the victims’ behavior, but also the expression levels of specific genes in their blood and in their brain. Latest research discovered little pieces of RNA in the cells that were long thought to be genetic junk. Nevertheless, these so-called miRNAs can regulate the expression of multiple genes, thus modulating metabolism and cell functioning. The aim of this study was to see if childhood traumatization led to a set of differentially expressed miRNA profiles in the peripheral blood. For this, we used subjects from the SHIP trend cohort, who had previously answered various questionnaires, among them the Childhood Trauma Questionnaire and the Patients Health Questionnaire-9 and analyzed the miRNAs in their blood to find out whether there was an association between the score and the dysregulation of certain miRNAs. Furthermore, we selected 5 different independent variables: PHQ-trend, CTQ score, as well as its subscales Abuse and Neglect, and Major Depressive Disorder lifetime prevalence. The analyses showed a set of up- or downregulated miRNAs in the blood. In a second step, we tried to replicate our results comparing them to results in the literature. Some of the significantly dysregulated miRNAs had previously been described as key players in the pathogenesis of MDD, a few even displaying similar results to ours. The next step was to see if the significant miRNAs had common target genes and if these had been described in the literature as having an influence on MDD, showing positive results. One last step was to see if there were also common biological pathways that were modulated by the differentially expressed miRNA. This analysis did not show promising results since there were almost no brain pathways among the results. For future studies, it will be necessary to validate our results using a clinical sample, such as GANI_MED, where the prevalence of childhood traumatization, as well as MDD, is much higher. By doing this, new possibilities of trauma treatment through modulation of epigenetic pathways could arise. If childhood traumatization leads to a set of dysregulated miRNAs that can end in a positive diagnosis of MDD in adulthood, what effects could have a targeted miRNA therapy on the pathogenesis of these psychiatric disorders?
Tidal flats represent the transition zone between the terrestrial and marine realm. They are subject to pronounced dynamics due to distinct tidal and seasonal variations of physical, chemical, and biological parameters significantly influencing redox-sensitive element cycles. Thus, redox-sensitive trace metals may be suitable indicators for variations in bioproductivity and microbial activity. Therefore, seasonal and tidal dynamics of manganese, iron, molybdenum, uranium, and vanadium were studied in the water column and sediments of tidal systems of the German Wadden Sea (southern North Sea) in the years 2007 to 2009 involving also previously analysed data from year 2002. To demonstrate the response of the trace metal cycles on phytoplankton blooms and enhanced biological activity time series data of nutrients and phytoplankton dynamics were also involved in this study. Pronounced cycling is seen for pelagic manganese revealing distinctly higher values during low tide. Complex seasonal cycling showing maxima of dissolved manganese in spring and late summer and a depletion period in early summer is caused by benthic-pelagic coupling and reflection of exhaustion and replenishing periods in the surface sediments. Vanadium dynamics are coupled to the manganese cycling due to vanadium scavenging and release during manganese oxide formation and reduction, respectively. Molybdenum and uranium behave almost conservatively following changes in salinity and thus, being slightly enhanced during high tide. Deviations from conservative behaviour are found to occur during breakdowns of summer phytoplankton blooms. In the following, significant enrichments of manganese, molybdenum, iron, and uranium are observed in the shallow pore waters. These coherences are assumed to be caused by a tight coupling of geochemical, biological, and sedimentological processes. Intense release of organic matter during the breakdowns of algae blooms leads together with enhanced bacterial activity in summer to the formation of organic- and trace metal-rich aggregates which are deposited and incorporated into the tidal surface sediments. Microbial decomposition of the aggregates and corresponding shifts in redox-conditions effect a release of dissolved trace metals into the pore water. Subsequently, the trace metals are fixed in the sediment as sulphides, adsorbed to organic compounds or released to the overlying bottom water. Furthermore, two tidal systems, one from the East Frisian and one from the North Frisian Wadden Sea are compared. Although, both areas show different hydrodynamical, sedimentological, and ecological conditions similar manganese dynamics are observed implying that this is a common behaviour in the entire Wadden Sea. However, distinct quantitative differences appear showing a 6-fold higher level of dissolved manganese in the water column of the East Frisian area. This is explained by a higher manganese release from tidal flat sediments and a larger sediment area/water volume ratio compared to the North Frisian area. Detailed time-series data of the nutrients phosphate, silica, and nitrite+nitrate are used to verify model simulations and to calculate nutrient export budgets considering tidal and seasonal variations. The model results imply an export of nutrients from the tidal flats into the open waters of the German Bight which is in the same order of magnitude as the combined discharge of the rivers Elbe, Weser, and Ems. To investigate the importance of the Wadden Sea as a potential manganese source for the North Sea, transects were carried out into several tidal flat areas of the North Frisian Wadden Sea. The results suggest that the North Frisian Wadden Sea is a less important source for dissolved manganese compared to the East Frisian area. In contrary, the export of particulate manganese seems to be more important showing distinctly higher concentrations in the North Frisian study areas in summer. The influence of sediment permeability and bioturbation on trace metal budgets of the pore waters are investigated in natural and experimentally manipulated tidal flat sediments. Advective pore water transport in highly permeable sandy sediments and bioturbation promote exchange processes at the sediment/water interface probably leading to reduced nutrient and trace metal enrichments in the shallow pore waters. Furthermore, the penetration of oxygen into deeper sediment layers induces a release of sulphidic bound molybdenum to the pore water. During laboratory experiments with natural anoxic sediments an effective oxidative molybdenum release is determined during resuspension of the sediments in oxic seawater. Thus, pronounced sediment resuspension during storm events is suggested to cause significant release of molybdate from displaced anoxic sediment components thereby enhancing the molybdate level of the open water column. In addition to the examination of recent biogeochemical processes, the paleo-environmental influence on geochemical and microbiological processes in Holocene and Pleistocene sediments of the East Frisian study area were analysed in an interdisciplinary study. It is found that the microbial abundance and activity are higher in the Holocene than in the Pleistocene sediments. However, this is mainly caused by present environmental conditions. The impact of the paleo-environment on the microbiology is less pronounced. The lithological succession affects hydrological processes which enable the transfer of electron donors and acceptors for present early diagenetic processes into deep sediment layers. The paleo-environmental imprint is still detectable but the modern biogeochemical processes dominate in the sediment-pore water system.
In many industrial sectors biotechnological production processes have replaced pure chemical methods and allowed new, ecologically friendly and enzyme-based processes. Microorganisms, such as modified Bacillus strains are used in particular for the industrial enzyme synthesis. The two organisms Bacillus licheniformis and Bacillus pumilus are of great industrial importance. B. licheniformis is able to secrete proteins in large amounts, while B. pumilus shows high resistance to oxidative stress. During production processes different conditions can occur that affect the physiology of the production hosts and may result in a quantitative, but also a qualitative impairment of the products. This influence is based on e.g. chemical processes, the setting of temperature, pH, or oxygen availability and can lead to various stress situations for the bacteria. Cells respond to changes in their environment by sensing stressors and initiate a response to the stress, which is usually implemented by an induction or derepression of various regulons. In order to conduct an optimal production process, the metabolism and stress responses of the utilized bacteria should be known exactly. The aim of this study was to analyze of the stress response of B. licheniformis to heat and salt stress, and the stress response of B. licheniformis and B. pumilus to oxidative stress. These analyses were performed at the level of transcriptomics using cDNA microarrays, which is the most direct and global method for the analysis of changes in the physiology of a cell. The identification of stress specific markers genes and their differentiation from the SigB regulated general stress response has been another purpose of this work. Knowledge of these marker genes enables a prompt analysis of the fermentation conditions and thus a possible optimization of the process. The transcriptome analyses of this work show that B. licheniformis responds to heat stress by the induction of heat shock genes belonging to different regulons. These include the htpG gene, the HrcA regulon or the CtsR regulon, encoding chaperones and proteases, which mainly contribute to the protein quality control. The heat stress response of B. licheniformis revealed no fundamental differences to the heat stress response of the Gram-positive model organism Bacillus subtilis. The general stress response (SigB regulon), which is activated by heat stress, could be analyzed in more detail by the study of a ΔsigB mutant of B. licheniformis. Salt stress also provokes a strong induction of the general stress response in B. licheniformis. Genes for the transport and synthesis of compatible solutes were strongly induced, as well as several genes for transport systems with more or less known functions. The synthesis of the osmoprotective metabolites proline and glycine betaine could be verified in more detail by a metabolomics approach. The response to oxidative stress showed differences between both B. licheniformis and B. pumilus, and also to the oxidative stress response of B. subtilis. In B. licheniformis, the genes of the glyoxylate cycle are induced during oxidative stress. An activation of the glyoxylate bypass under oxidative conditions could be confirmed by a metabolome analysis of B. licheniformis. In addition, the PerR regulon of B. licheniformis is extended to include another two genes compared to B. subtilis. In contrast, several genes of the PerR regulon lack in the genome of B. pumilus, such as katA (vegetative catalase) or ahpCF (alkyl hydroperoxide reductase). However, other genes were induced in B. pumilus that were upregulated under oxidative stress conditions neither in B. subtilis nor in B. licheniformis. In addition, known regulons, regulated by e.g. Spx, CtsR or SOS were induced in both organisms. In summary, this dissertation transcriptionally analyzes the stress responses of B. licheniformis to heat, salt and oxidative stress, and in addition the oxidative stress response of B. pumilus. Several stress-specific regulons were identified in both, B. pumilus and B. licheniformis, which also correspond to the stress response of B. subtilis. However, it was possible to additionally assign genes to the stress specific responses of both organisms and to find differences, such as the absence of parts of the PerR regulon of B. pumilus, or the activation of the glyoxylate pathway in B. licheniformis during oxidative stress.
Compared to other human pathogens, S. aureus outstands with a remarkably broad spectrum of deseases: from minor skin infections over endocarditis, pneumoniae, and osteomyelitis, to septic shock. The prerequisite is an arsenal of adaptation strategies, encoded in the core and variable genome. It includes the coordinated expression of adhesins and toxins, evasion of the immune system, response to stress and starvation, adaptation of the metabolism, formation of biofilms and capsules, antibiotic resistance, and persistence on the skin, in nasal epithelial cells, and even in the inner of macrophages after phagocytosis. All these adaptation strategies enable S. aureus to colonize a diversity of niches within the human host. The inevitable requirement is the ability to activate the appropriate adaptation strategy at the right time and at the right place. S. aureus overcomes this challenge with a sophisticated regulatory network. This PhD thesis covers a broad spectrum of transcriptional regulators, involved in S. aureus pathogenesis: (1) the quorum sensing system Agr (regulation of early- and late stage virulence factors), (2) the Sar family (regulation of early- and late stage virulence factors), (3) SaeRS (regulation of accessory exotoxins and adhesins), (4) CodY (response to amino acid starvation, including extracellular proteases), (5) Sigma B (general stress response, including virulence factors), (6) Rex (anaerobic energy metabolism), (7) CtsR and HrcA (protein quality control), (8) PerR and Fur (oxidative stress response), and (9) antibiotic resistance. Traditionally, Proteomics constitute the long-lasting reputation of the Institute. In fact, the majority of investigations presented in this PhD thesis was initialized by proteomic analyses as the ultimate starting point. From the first day, a major goal of this PhD thesis was to add regulator-promoter interaction studies to the methodical spectrum. In particular, to complement transcriptomic and proteomic results by answering the logical follow-up question: Which regulator is responsible for the observed changes in gene expression and protein synthesis after application of a specific stimulus?
The first chapter provides specific analyses for three major regulators: Rex, CodY, and SarA. Publications were achieved for Rex (Hecker et al., 2009; Pagels et al., 2010). Results were mainly achieved by establishing regulator-promoter interaction methods (in particular EMSA and “footprinting”). Additionally, this chapter describes method development of a novel easy-to-apply method, named REPA (restriction endonuclease protection assay).
The second chapter presents method development for the genome-wide identification of regulator-promoter interactions, named “global footprinting”. This approach combines two already well-established methods: (A) Purification of a recombinant Strep-tagged regulator via Strep-tag affinity chromatography. The modification in “global footprinting” is to incubate the regulator with fragmented genomic S. aureus DNA, resulting in co-purification and enrichment of DNA streches with specific regulator binding sites. (B) Identification and quantification of these DNA streches via “next generation sequencing” (NGS). Using this combined approach, this PhD thesis was able to localize the most affine promoter binding site for the regulator Rex precisely down to one single base pair across the whole S. aureus genome.
The third chapter describes the assembly of a data library, collecting the majority of DNA microarray data and regulator-promoter interaction studies from the worldwide literature. This data library summarizes more than 50,000 regulatory events and more than 2,000 regulator binding sites. As published in the perspectives in Fuchs et al. (2018), this data library can be incorporated into the free-accessible online data base “Aureowiki” (provided and maintained by the Department of Functional Genomics, University of Greifswald). The major effort is the consolidation of these “big data” via in silico cluster analysis, comparing 282 different experimental conditions at once. The major finding of this analysis is the identification of seven functional and regulatory gene clusters in S. aureus pathogenesis that are conserved across S. aureus strain diversity. These findings allowed the creation of a prediction tool, to provide novel experimental starting points for the worldwide S. aureus research community. This prediction tool was successfully applied on several topics, and partially published: functional and regulatory prediction for a set of 20 selected lipoproteins as potential virulence factors (Graf et al., 2018), and prediciton of protein complexes (Liang et al., 2016).
Alltogether, this PhD thesis provides new insights into the molecular mechanisms of three pathogenesis-relevant regulators: Rex, CodY, and SarA. It describes the development of three novel experimental methods for wet and dry lab applications that can be used on research topics beyond S. aureus: REPA, “global footprinting”, and cluster analysis. Finally, cluster analysis identifies seven conserved fuctional and regulatory gene clusters, involved in S. aureus pathogenesis. This cluster anaysis is used as a prediction tool to provide novel experimental starting points, and to predict the physiological mode of action of newly discovered anti-staphylococcal agents.
This thesis aims to investigate effects of anthropogenic environmental impact on the Richards Bay area. Located on the east coast of South Africa, Richards Bay Harbour evolved into the country’s premier bulk cargo port. The Associated change in land-use and industrial as well as agricultural pollution pose environmental, ecological and human health risks. Here, sedimentological and geochemical investigations focus on the port as final sink for environmental and industrial pollutants, such as metal concentrations, organochlorine pesticides and microplastics.
The study is based on investigations of surface sediment samples from the water-sediment interface to identify spatial distribution patterns, as well as sediment cores to follow temporal changes. Endmember modelling of grainsize distributions, proved to be a viable parameter to distinguish different accumulation spaces and enabled the classification into six harbour sub-basins. Subsequent investigations on the content of microplastics, Polyethylene terephthalate (PET) and Low-density polyethylene (LDPE), showed that these different types of microplastics predominate in two different areas: PET appears to be directly tied to higher populated (tourism) beaches, while LDPE is deposited in low-current sub-basins. Increased metal concentrations link to activities at the bulk cargo berths, where especially Cr and Cu concentrations exceeded the local sediment guideline thresholds. In the areas of high metal concentrations, bioindicators (ostracods, foraminiferas, diatoms) also indicate increased shares of malformed specimens. Multiple recovered sediment cores recorded changes in recent export practices, indicating ceased Cu handling and increased Cr handling over the past decade. Noticing multiple possible influencing factors on elemental distributions, created by the surrounding geological and industrial impact, the usefulness of different normalisers (Al, Fe, Rb, Ti and silt fraction) for Cr, Cu, Co and Pb concentrations was compared and site specific baseline metal concentrations were defined. This identified Al and Rb to be effective normalisers in Richards Bay and Fe or Ti to be affected by local conditions. Data of organochlorine pesticide pollution was gathered in the area of Richards Bay, Goedertrouw Dam and Umlalazi River. The two dominant groups of contaminants detected are dichlorodiphenyltrichloroethanes (ΣDDT, 12 – 350 ng g-1), linked to the use of malaria vector control, and hexachlorocyclohexanes (ΣHCH 35 – 230 ng g-1), an agricultural insecticide. Both indicate recent entry and exceed sediment quality guideline limits, raising concern for local communities and estuarine environments. Seismic data was used to investigate the preindustrial evolution of the incised valley system and bayhead delta at Richards Bay Harbour. A stratigraphically supported development model was created. The thesis shows that harbour sediment is an important sink for inorganic and organic contaminants. Each investigation on environmental pollutants, such as metals, pesticides, microplastics or bioindicator analyses, indicates their deposition in distinct harbour sub-basins. Therefore, their effect can be spatially differentiated and related to plausible sources of pollution. Richards Bay thus represents a variously affected system along the South African coast, in which it is necessary to take environmental protection measures in terms of sustainable and environmentally friendly management.
To enable control of African swine fever (ASF) in Eastern and Southern Africa, prototype live vaccine candidates were generated by targeted gene deletions from a Kenyan genotype IX ASF virus (ASFV). It was attempted to delete known nonessential genes involved in virulence (encoding TK, dUTPase, CD2v, 9GL), possibly essential genes (p12, pA104R, ribonucleotide reductase), and genes with widely unknown functions (pK145R). Isolation of the desired virus recombinants by plaque assays or limiting dilutions on a wild boar lung cell line (WSL-HP) was facilitated by substitutive reporter gene insertions encoding fluorescent proteins (GFP, DsRed), or the human membrane protein CD4. The latter protein permitted enrichment of recombinant virus particles by magnetic activated cell sorting (MACS). The isolated ASFV recombinants were characterized by PCR and sequencing of the mutated genome parts, and replication kinetics and virus spread in cell culture were investigated. Deletion of TK, CD2v, or pK145R had no detectable effect on in vitro growth of ASFV Kenya. Interestingly, virus mutants lacking the DNA binding protein pA104R which has been considered to be essential for DNA replication, also exhibited almost wild type-like growth properties.
In contrast, ASFV mutants lacking ribonucleotide reductase or p12 could not be purified to homogeneity on WSL-HP cells, indicating these proteins are essential for virus replication in cell culture. Therefore, trans-complementing cells lines stably expressing ASFV p12 have been prepared which can now be used for mutant virus purification. If this approach is successful the resulting defective mutant ASFV Kenya-p12 might be suitable as a safe “disabled in second cycle” (DISC) live vaccine in swine.
In a novel approach to improve reverse genetics of ASFV the CRISPR/Cas9 cell line WSL-gRp30 (Hübner et al., 2018a) was co-transfected with genomic DNA of ASFV-KenyaCD2vDsRed, sgRNA plasmids targeting K145R or 9GL, and GFP-expressing recombination plasmids for homology-directed repair. For booting up of the noninfectious virus genome the cells were infected with phylogenetically distant helper virus (genotype II ASFV Armenia, 84% identity) which was selectively inhibited on the used cell line. The desired double-fluorescent double-deletion mutants could be isolated after few plaque purification steps on selective WSL-gRp30 cells. Next generation sequence (NGS) analyses of reconstituted ASFV Kenya genomes showed that no unwanted recombination with the helper virus occurred, indicating that the method might be also suitable for booting of synthetic ASFV genomes cloned and mutagenized in E. coli or yeast.
The modified CRISPR/Cas9 system of S. pyogenes might be also usable for generation of ASFV resistant pigs. To evaluate this alternative control measure WSL cell clones stably expressing Cas9 nuclease and single or multiple sgRNAs against essential ASFV proteins were prepared and tested for their susceptibility to infection. Strain specific sgRNAs targeting the p30 gene of ASFV Kenya or Armenia selectively inhibited the respective viruses, and a p12 gene-specific sgRNA abrogated replication of both genotypes almost completely. Interestingly, coexpression of four ASFV-specific sgRNAs did not enhance virus inhibition, but might help to reduce the frequency of escape mutants which were occasionally isolated from the single sgRNA-expressing cells, and exhibited silent base substitutions or in-frame deletions within the target genes. First attempts to express the in vitro tested CRISPR/Cas9 constructs in transgenic pigs are in progress.
CRISPR/Cas9 supported rescue of a defective BAC clone of pseudorabies virus (PrV) vaccine strain Bartha (Hübner et al., 2018b) was used to develop putative vectored vaccines against ASFV. In the present study expression cassettes for the codon-optimized p12 and p54 genes of ASFV were successfully inserted into the PrV genome. The insertions did not significantly affect PrV recombination in cell culture, and the transgenes were expressed at similar levels as in ASFV-infected cells. It has to be tested whether coinfection with vector constructs for these and other immunogenic ASFV proteins is able to protect pigs against a lethal challenge.
For characterization of the generated ASFV mutants and PrV vector constructs, monospecific antisera against several ASFV gene products (p11.5, p12, p54, pK145R, p285L) were prepared by immunization of rabbits with bacterial GST fusion proteins. The anti-p12 serum showed only weak and strain-specific reactions with the ASFV Kenya protein, but was nevertheless useful for identification of p12-expressing PrV recombinants and WSL cell lines. All other sera showed satisfying reactions in Western blot and mostly immunofluorescence analyses, and allowed i.a. precise localization of the pK145R and p285L proteins in ASFV-infected cells and virions (Hübner et al., 2019).
This work first sets out to find if economic, ecological, or social incentives drive consumers towards or against dietary decisions (Contribution A). It then develops a framework of TCA for food to describe economically conveyed incentives that are tied to ecological and social indicators within the food market (Contribution B). The framework is subsequently enhanced and broadened to include a deeper understanding and broader field of indicators for more holistic TCA calculations (Contributions C and D). Lastly, based on these calculations, TCA of food is implemented in a factual use case as the framework and calculations are deployed for commodities of a German supermarket chain; then consumer, as well as expert feedback is used for the discussion on socially responsible campaigning and policy change (Contribution E).
Foot-and-mouth disease virus (FMDV) is a positive-sense RNA virus of the family Picornaviridae that comprises of seven serotypes and is distinguished by a high contagiosity with the ability of rapid spread. Strategies for abatement and control are based on an early detection, quick initiation of retaliatory actions and mass vaccinations. Therefore, aim of the study was the development of a fast and easy method for genome sequencing as well as an investigation into the causes, why some cell lines that are mainly used for vaccine production, are resistant towards FMDV infection. Finally, adaptive sequence changes in different cell culture systems and associated effects on particle stability and immunogenicity were examined.
In case of an outbreak it is of major importance to detect and rapidly characterize the circulating virus isolate to choose an appropriate vaccine to minimize the viral spread. In addition, comprehensive genome analysis of the outbreak strain provides information about the origin of the virus and allows molecular epidemiology. A universal primer set, covering most parts of the open reading frame of the viral genome, was developed to perform quick sequence analyses, independently of the viral serotype (Paper I). Especially in endemic regions, vaccination of susceptible animal species is the main action to combat foot-and-mouth disease (FMD) in an acute outbreak situation as well as a preventive measure. Reasons, why some baby hamster kidney (BHK) cell lines are resistant towards an infection with FMDV, were examined in a second study that narrowed down the cause for this phenomenon to an impaired attachment of the virus to the cell surface. Furthermore, an alternative approach could be developed to successfully adapt the virus to the resistant vaccine-production cell line by using a FMDV-sensitive “wet-nurse” cell line (Paper II). Adaptive changes in the capsid-coding region of the viral genome caused through cultivation and passaging of the virus in different BHK cell systems were the topics of the third study. It was shown that capsid alterations are rather serotype-specific and dependent on the cell line used than influenced by the cell media. Viral titers and neutralization profiles of the adapted isolates were not affected compared to the original viruses (Paper III).
Overall, this work expanded our knowledge on the control and eradication of FMD and will support the global effort to combat the disease.
Experience in the construction of optimized stellarators shows the coil system is a significant challenge. The precision necessary allow the generation of accurate flux surfaces in recent experiments affected both cost and schedule negatively. Moreover, recent experiments at Wendelstein 7-X have shown that small field corrections were necessary for the operation of specific desired magnetic configurations. Therefore, robust magnetic configurations in terms of coil geometry and assembly tolerances have a high potential to facilitate swifter and less expensive construction of future, optimized stellarators. We present a new coil optimization technique that is designed to seek out coil configurations that are resilient against 3D coil displacements. This stochastic version of stellarator coil optimization uses the sampling average approach to incorporate an iterative perturbation analysis into the optimization routine. The result is a robust magnetic configuration that simultaneously reproduces the target magnetic field more accurately and leads to a better fusion performing coil configuration.
Although the Pleistocene deposits exposed in the steep coastal cliffs of Mecklenburg-Vorpommern have been studied for more than a century, the depositional conditions of many lithostratigraphic units remain unclear. There is, in particular, a question whether the individual tills (locally more than 9 successive till units) are mainly subglacial deposits or resedimented (mass flows) in origin (at least in part). The Pleistocene deposits preserve information concerning the former glacial depositional processes. Detailed micromorphological analysis of these deposits can provide key information regarding these processes and thereby aid in the reconstruction of former glacial environments. The island of Rügen is located on the southwestern Baltic Sea coast and was situated in the marginal zone of the Scandinavian Ice Sheet during the last glacial period (Weichselian). Therefore, the region is considered as an ideal area for reconstructing the complex fluctuations in the position of the margin of this ice sheet as it expanded across the Baltic Sea and into northern Germany. Successive glacial advances and retreats of the ice sheet can be reconstructed by specific glacial sedimentation processes and flow-direction criteria derived from a variety of glacial deposits. The investigation area is located near Sassnitz on Rügen, where an imbricated and folded Weichselian succession disconformably overlies Maastrichtian chalk bedrock. The individual till units were sampled for micromorphological analyses to identify the former depositional conditions. Detailed description of the sedimentology and variation in facies, the description of macroscale deformation structures provides the context for the detailed micromorphology study. The three dimensional analysis of the microfabrics is based on the microstructural mapping methodology which enables the identification and interpretation of polyphase deformation within subglacial sediments.
This thesis is devoted to experiments on three-dimensional dust clouds which are confined in low temperature plasmas. Such ensembles of highly electrically charged micrometer-sized particles reveal fascinating physics, such as self-excited density waves and vortices. At the same time, these systems are challenging for experimental approaches due to their three-dimensional character. In this thesis, new optical diagnostics for dusty plasmas have been developed and, in combination with existing techniques, have been used to study these 3D dusty plasmas on different size and time scales.
The deep geological underground represents an important georesource for the short-
term storage of renewable energy and the long-term reduction of greenhouse gas emissions. To ensure the economic viability and safety of any subsurface storage project, detailed characterisation of the quality and integrity of the reservoir and its cap rock is required. This characterisation includes the accurate determination of the petrophysical properties, such as porosity and permeability, as well as the potential mineral reactions, such as the dissolution of reactive phases, which may occur during the lifespan of such a project. Clay minerals are common components of many reservoir systems and, depending on their type and structure, can have a significant impact on storage and transport properties. These processes are, however, currently not well understood. In order to address these issues, the main focus of this thesis is on mineralogical analyses using X-ray diffraction (XRD) and microstructural studies using focused ion beam scanning electron microscopy (FIB-SEM) together with micro X-ray computed tomography (µXCT) to gain a better understanding of the influence of clay minerals on reservoir and cap rock properties.
A central part of this thesis focuses on the analysis of clay minerals and pore structures of the Bebertal Sandstone of the Parchim Formation (Early Permian, Upper Rotliegend), which is considered a natural analogue for the tight reservoir sandstones of the North German Basin. Two illite polytypes with a variety of characteristic structures have been identified in the Bebertal sandstone. Disordered 1Md illite forms the majority of the observed structures, which include omnipresent grain coatings, altered permeable feldspar grains and pore-filling meshwork structures. Trans-vacant 1M illite represents the second and youngest generation of authigenic illite and occurs as fibrous to lath-shaped particles that grew into open pore spaces and led to a significant reduction in porosity and permeability during late diagenesis. Based on these results, a model for the formation of illite polytypes in the aeolian layers of the Bebertal sandstone was developed that describes the temporal and spatial evolution of porosity and permeability during diagenesis. Information from this model was then used to improve the prediction of permeability of the Bebertal sandstone based on µXCT pore space models and direct numerical simulations. To achieve this, a micro-scale pore space model was created that allowed the simulation of permeability reduction by clay minerals by including nanoporous illite domains based on a novel morphological algorithm. By performing Navier-Stokes-Brinkman simulations, more accurate predictions of permeabilities with respect to experimentally determined values were obtained compared to conventional Navier-Stokes simulations.
The detailed characterisation of the Bebertal sandstone has shown that natural reservoir rocks are usually complex heterogeneous systems with small-scale variations in texture,
composition, porosity and permeability. Flow-through experiments on the Bebertal sandstone revealed that the coupled geochemical and hydrodynamic processes that occur during the dissolution of calcite could not be predicted by reactive transport models. Therefore, as part of this thesis, a novel approach for developing synthetic sandstones at low temperatures based on geopolymer binder was developed. It is shown that simpler and more homogeneous porous materials can be produced with porosity and permeability values in the range of natural sandstones. These can be used to better understand the dynamic and coupled processes relevant to the storage of renewable energy in reservoir rocks through improved experimental constraints.
The final part of this thesis reports on a detailed clay mineral and pore space study of
three shale formations and one mudstone that were identified as potential seals for the Mt. Simon sandstone reservoir in the Illinois Basin. During the Illinois Basin - Decatur Project, this reservoir was used for the sequestration of one megaton of supercritical carbon dioxide. In order to better assess the quality of the sealing units and to better understand the role of the intergranular clay mineral matrix as potential pathway for fluid migration, a multi-scale evaluation was conducted that included thin section analysis, quantitative evaluation of minerals by scanning electron microscopy (QEMSCAN), mercury intrusion capillary pressure (MICP) measurements, quantitative XRD and high-resolution FIB-SEM. The results allow for the classification of the studied formations into primary and secondary seals and emphasise the importance of three-dimensional clay-mineral-related pore structure characterisations in cap rock studies. XRD proved the most reliable method for the identification and quantification of clay minerals in the studied cap rocks and mudstones. In contrast, FIB-SEM and QEMSCAN provided the spacial constraints for reconstructing fluid flow pathways within the clay mineral matrix.
Overall, this thesis highlights the importance of the precise identification of clay minerals in geological reservoirs and their cap rocks. It also illustrates the need for three-dimensional characterisation and modelling of the associated small pore structures for an improved understanding of the rocks diagenetic history as well as the prediction of the transport and storage properties of these crustal reservoir systems.
Body sensations play a crucial role in the etiology and maintenance of diverse anxiety and health problems (e.g., in panic disorder or respiratory diseases) as they may be perceived as threatening and consequently elicit anxious responses. The factors that may affect the perception of bodily sensations as a threat and thus modulate the anxious response to body sensations have so far rarely been studied. Therefore, the present thesis targeted at elucidating the effect of contextual (i.e., the predictability, expectation, and proximity of a threat) and dispositional factors (i.e., tendency to fear arousal sensations or trait fear of suffocation) on the defensive response to body sensations.
In study 1, it was investigated how a personality factor, that is, fear of suffocation, affects the acquisition of fear to body sensations (i.e., mild dyspnea induced by inspiratory resistive loads) and contexts when faced with a predictable and unpredictable respiratory threat (i.e., severe dyspnea). Study 2 aimed at examining the main and interactive effects of the tendency to fear arousal sensations, again a personality trait factor, and current arousal expectations as varied by situational variables on anxious responding to arousal sensations. In this study, expected and unexpected arousal sensations were induced by administering caffeine in coffee or bitter lemon soda, respectively. Moreover, in study 3, it was explored how subjective anxiety, bodily symptoms, and defensive respiratory responses change and might culminate into active defense behavior (i.e., escape/active avoidance) during increasing dyspnea that was evoked by inspiratory resistive loads increasing in intensity. For a detailed analysis of the factors that contribute to the initiation and maintenance of avoidance of or escape from increasing dyspnea, in study 4 changes in subjective, autonomic, somatic reflex and brain responses were analyzed during repeated avoidance of increasing dyspnea.
In study 1, it was demonstrated that only individuals who fear suffocation learned to fear mild dyspnea preceding the onset of severe dyspnea and developed anxiety during a context of unpredictable respiratory threat. Moreover, the data from study 2 indicate that individuals who fear arousal sensations show an increased attention allocation towards unexpected arousal sensations and higher threat appraisal when expecting arousal sensations. Increasing intensity of dyspnea as provoked in study 3 led to increased defensive respiratory responses that were associated with increased symptom reports in individuals with high compared to low fear of suffocation. Moreover, culminating dyspnea elicited repeated avoidance behavior preceded by increases in defensive respiratory mobilization. The analysis of repeated avoidance of increasing dyspnea in study 4 revealed that physiological fear responses might be involved in the initial initiation of this avoidance behavior while no indication of response preparation and physiological arousal was related to persistent avoidance.
Taken together, the present data suggest that the fear of suffocation, as well as the tendency to fear arousal sensations along with the predictability, expectation, or proximity of interoceptive threat, may increase the perceived threat and thus the anxious response to body sensations. Therefore, contextual and dispositional factors may set the stage for the culmination of body sensations into defensive action and might contribute to the development of pathological anxiety and fear of body sensations. The present findings are integrated into the current literature and discussed in relation to the development and maintenance of pathological anxiety and fear of body sensations.
To what extent do norms of regional Intergovernmental Organizations (IGOs) have an impact on member states’ borders and their permeability? International agreements and regional integration measures quite often highlight how harmonization of mechanisms and procedures related to cross-border interaction within specific communities takes place. As these agreements and measures contain mutual expectations about appropriate behavior, a form of convergence in bordering practices – and therefore effects – is implied. This leads to the assumption that cross-border interaction is gradually increasing and eventually leading to a ‘borderless’ realm that allows for the free movement of goods, services, persons, and capital. However, the nature of borders or a deeper understanding of the bordering process itself is often not central to the studies of international relations. They represent mere fixtures of international interaction and appear in the public discussion only if sudden restrictions are implemented or if large-scale changes in the international environment affect their functioning.
Specific literature on borders is relatively new and located mainly within an interdisciplinary setting that largely lacks coherency in its ontological concepts or deals exclusively with individual cases. The literature on the normative capacity of (regional) IGOs on the other hand is well matured and one of the cornerstones of international studies. However, here a blatant neglect of borders and bordering is apparent. This situation is aggravated by the circumstance that the field of International Relations by definition is dealing with cross-border interaction.
Apart from the general ontological issue of what borders and bordering processes are from a political science perspective, three main gaps in conjunction with the above question could be identified within the literature. The first relates to the general efficacy of the normative influence of regional IGOs on enhancing cross-border interaction through the issuing of specific normative provisions. On this, the relevant literature is divided. Arguments range from an all-permeating relevance of norms as intersubjective understandings that create specific expectations of appropriate behavior to the primacy of rational choices that are targeted to create benefits in most economic and security- related matters. The second gap relates to the relevance of domestic precognition in cross-border interaction. It is not clear to what extent dominant normative conceptions at the national level create obstacles to the efficacy of IGO provisions in shaping cross- border interaction. Finally, the impact of critical junctures – as kind of catalysts – that shift member state preferences in following communal obligations are being analyzed. Here, the assumption is that these junctures may either enhance or negate IGO provisions dependent on the dominant domestic preferences. Essentially, the approach taken here is a layered one, where each identified gap provides the basis for the following ones. The analysis itself is divided into a quantitative and a qualitative part. For the former, a new dataset has been created that specifically lists all normative provisions targeting the free movement of goods, services, persons, and capital of the two IGOs selected for this research project. This is an important departure from the usual dichotomous perception of IGO influence used throughout the literature. In conjunction with specific data related to each of the four freedoms, multiple variations of a gravimetric Poisson Pseudo-Maximum Likelihood model are specified. The qualitative approach draws upon descriptive and matching approaches to analyze the impact of dominant domestic norms and critical junctures on the bordering process. For this purpose, a corpus of source material is created that includes government declarations and media articles, as well as the specific IGO provisions on bordering to each of the four freedoms that are central to this research.
The quantitative findings indicate a strong and consistently positive impact of regulative IGO norms while evaluative IGO norms do not provide similar results. The qualitative findings point in a similar direction. As long as IGO norms have a more regulative direction and are obligatory, the effect is less likely to be diminished by contesting dominant domestic norms or critical junctures vis-`a-vis more evaluative IGO norms.
The results and additional findings of this research have implications for further research. Central to this is the capacity of regional IGOs to exert normative influence on the bordering practices of their member states. An additional finding relates to the interrelatedness of normative provisions. The more these provisions are cross-referencing each other – or are interlocked – the more robust they seem to get. This is a trait that is relevant for policy-makers and IGO bureaucracies if they want to enhance the compliance of their agents. On a methodological level, the here introduced data set on normative IGO provisions provides other researchers with a substantially more fine- grained approach to investigating the impact of specific IGO measures on a particular dimension of cross-border interaction.
Objectives: To examine the association between third molars and orofacial pain. We hypothesized that impacted third molars are a cause of orofacial pain.
Methods: Magnetic resonance images of 1808 participants from two populationbased cohorts from Northeastern Germany were analysed to define the status of third molars according to the Pell and Gregory classification. A self-reported questionnaire and a clinical dental examination were used to detect chronic and acute complaints of orofacial pain, masticatory muscle pain, migraine and other types of headache. Logistic regression models were used to analyse the associations between third molar status and orofacial pain.
Results: Individuals with impacted third molars in the maxilla had a higher chance of chronic orofacial pain than those with erupted third molars (odds ratio 2.19; 95% CI 1.19-4.02). No such association was detected for third molars in the lower jaw. Third molars were not associated with masticatory muscle pain, migraine or other types of headache.
Conclusions: Impacted maxillary third molars might be a cause of chronic orofacial pain. Thus, physicians should consider the eruption/impaction status of third molars in their decision-making process when treating patients who complain of orofacial pain.
Bacteria are exposed to oxidative stress as an unavoidable consequence of their aerobic lifestyle. Reactive oxygen species (ROS) are generated in the stepwise one-electron reduction of molecular oxygen during the respiration. Pathogens encounter ROS during the oxidative burst of macrophages as part of the host immune defense. Besides ROS, bacteria also have to cope with reactive chlorine, electrophilic and nitrogen species (RCS, RES, RNS). To cope with these reactive species, bacteria have evolved different defense and repair mechanisms. To maintain the reduced state of the cytoplasm, they utilize low molecular weight (LMW) thiols. LMW thiols are small thiol-containing compounds that can undergo post-translational thiolmodifications with protein thiols, termed as S-thiolations. S-thiolations function as major redox regulatory and thiol-protection mechanism under oxidative stress conditions. In eukaryotes and Gram-negative bacteria, the tripeptide glutathione (GSH) functions as major LMW thiol, which is present in millimolar concentrations. The Actinomycetes, such as Mycobacterium and Corynebacterium species do not produce GSH and utilize instead mycothiol (MSH) as their alternative LMW thiol. In Firmicutes, including Bacillus and Staphylococcus species, bacillithiol (BSH) functions as the major LMW thiol. LMW thiols protect protein thiols against the irreversible overoxidation of cystein residues to sulfinic and sulfonic acids. In addition, LMW thiols contribute to the virulence and survival of pathogens, function in metal homeostasis and serve as enzyme cofactors for detoxification of xenobiotics and antibiotics. In this doctoral thesis, we aimed to investigate the roles of MSH and BSH in redox regulation of main metabolic enzymes under oxidative stress in the pathogens Corynebacterium diphtheriae and Staphylococcus aureus. Previous redox proteomics studies identified the glyceraldehyde-3-phosphate dehydrogenase GapDH and the aldehyde dehydrogenase AldA as S-thiolated in S. aureus and C. diphtheriae. Thus, we aimed to study the redox regulation of the metabolic enzyme GapDH in C. diphtheriae in response to NaOCl and H2O2 stress by S-mycothiolation, which is described in chapter 1. Moreover, we studied the involvement of the mycoredoxin-1 (Mrx1) and thioredoxin (Trx) pathways in reactivation of S-mycothiolated GapDH in vitro. Using shotgun proteomics, 26 S-mycothiolated proteins were identified under NaOCl stress in C. diphtheriae. These are involved in energy metabolism (Ndh, GlpD) and in the biosynthesis of amino acids (ThrA, LeuB), purines (PurA) and cell wall metabolites (GlmS). The glycolytic GapDH was identified as conserved target for S-thiolation across Gram-positive bacteria. GapDH was the most abundant protein, contributing with 0.75 % to the total cystein proteome. Moreover, GapDH is a conserved target for redox regulation and S-glutathionylation in response to oxidative stress in several prokaryotic and eukaryotic organisms. Treatment of GapDH with NaOCl and H2O2 in the absence of MSH resulted in irreversible enzyme inactivation due to overoxidation. Pretreatment of GapDH with MSH prior to H2O2 or NaOCl exposure resulted in reversible inactivation due to S-mycothiolation of the active site Cys153. Since S-mycothiolation is faster compared to overoxidation, S-mycothiolation efficiently protects the GapDH active site against overoxidation. The activity of S-mycothiolated GapDH could be restored by both, the Mrx1 and Trx pathway in vitro. Interestingly, the recovery of Smycothiolated GapDH by Mrx1 was faster compared to its reduction by the Trx pathway. In previous studies, the reactivation of S-mycothiolated Mpx and MrsA by the mycoredoxin pathway occurred also faster compared to the Trx pathway, which is consistent with our results. We were further interested to analyze the redox regulation of the glyceraldehyde-3phosphate dehydrogenase Gap of S. aureus under NaOCl and H2O2 stress, which is described in chapter 2. Using the quantitative redox proteomic approach OxICAT, 58 NaOCl-sensitive cystein residues with >10% thiol oxidation under NaOCl stress were identified. Gap and AldA showed the highest oxidation increase of 29% under NaOCl stress at their active site cystein residues. Using shotgun proteomics, five S-bacillithiolated proteins were identified, including Gap, AldA, GuaB, RpmJ and PpaC. Gap contributed with 4 % as most abundant cystein protein to the total cystein proteome. Our activity assays demonstrated that Gap of S. aureus is highly sensitive to overoxidation by H2O2 and NaOCl in vitro in the absence of BSH. The active site Cys151 of Gap was oxidized to the BSH mixed disulfide under H2O2 and NaOCl stress in the presence of BSH in vitro, which resulted in the reversible Gap inactivation. Moreover, inactivation of Gap by NaOCl and H2O2 due to S-bacillithiolation was faster compared to overoxidation, indicating that S-bacillithiolation protects the Gap active site against overoxidation in vitro. We further showed that the bacilliredoxin Brx catalyzes the reduction of S-bacillithiolated Gap in vitro. Molecular docking of BSH into the Gap active site revealed that S-bacillithiolation does not require major structural changes. Apart from Gap, the aldehyde dehydrogenase AldA was identified as S-bacillithiolated at its active site Cys279 under NaOCl stress in S. aureus previously. Thus, the expression, function, redox regulation and structural changes of AldA were analysed under NaOCl and aldehyde stress in S. aureus as summarized in chapter 3. AldA was S-bacillithiolated in the presence of H2O2 and BSH as demonstrated in BSH-specific Western blots in vitro. The expression of aldA was previously shown to be regulated by the alternative sigma factor SigmaB in S. aureus. Transcription of aldA was strongly increased in a SigmaB-independent manner under formaldehyde, NaOCl and diamide stress in S. aureus. Using an aldA deletion mutant, we demonstrated that aldA is required for growth and survival under NaOCl stress in S. aureus. The purified AldA enzyme was shown to catalyze the oxidation of various aldehyde substrates, including formaldehyde, methylglyoxal, glycolaldehyde and acetaldehyde in vitro. In addition, the function of the conserved Cys279 for AldA activity was investigated in vivo and in vitro. The purified AldAC279S mutant was shown to be inactive for aldehyde oxidation in vitro. Moreover, the aldAC279S mutant was very sensitive under NaOCl stress in vivo, and this phenotype could be reversed using the aldA complemented strain. These experiments demonstrate the function of Cys279 for AldA activity both in vitro and in vivo. AldA activity assays showed that AldA is sensitive to overoxidation and irreversible inactivation by H2O2 alone in vitro. In the presence of BSH, AldA is protected against overoxidation by reversible Sbacillithiolation in vitro. Molecular docking and molecular dynamics simulations revealed that BSH occupies two different positions in the Cys279 active site, which depend on the NAD+ cofactor. In the apoenzyme, BSH forms the disulfide with Cys279 in the “resting” state position, while Cys279 is S-bacillithiolated in the “attacking” state position in the holoenzyme in the presence of the NAD+ cofactor.
The present work is a cumulative dissertation that covers the research work of the author at the Department of Analytical and Physical Chemistry of Chelyabinsk State University. It contains a short description of the study and a set of attached publications in peer-reviewed journals and conference proceedings.
The phase and chemical equilibria in binary systems Me – Si
(where Me is the 4th-period transition metal) as well as Mo – Si, Mn – Ge and Fe – Ge at low temperatures were considered. The solid solubility of silicon in vanadium, chromium, manganese, iron, nickel, cobalt and copper and that of germanium in manganese and iron was estimated.
The phase equilibria in Me – Si – O, Mo – Si – O, Mn – Ge – O and Fe – Ge – O ternary systems at standard conditions were considered from a thermodynamic viewpoint. The atmospheric corrosion of transition metals silicides and manganese and iron germanides was discussed.
The chemical and electrochemical equilibria in Me – Si – H2O, Mo – Si – H2O, Mn – Ge – H2O and Fe – Ge – H2O systems were considered from a thermodynamic viewpoint. Pourbaix diagrams for some 4th-period transition metals and molybdenum, as well as for silicon, were revised. The potential – pH diagrams for Me – Si – H2O, Mo – Si – H2O, Mn – Ge – H2O and Fe – Ge – H2O systems were plotted in the first time. The corrosion-electrochemical behaviour of transition metals silicides and manganese and iron germanides in aqueous media was discussed.
The potential – pH diagrams for some siliceous brasses and bronzes (which are multicomponent alloys containing both transition metals and silicon) were plotted, and the corrosion of these alloys in aqueous media was discussed.
Method of estimation of corrosion-electrochemical behaviour of multicomponent alloys, which takes into account both thermodynamic and kinetic data and is based on mutual construction of equilibrium and polarisation potential – pH diagrams, was described. Its usage was illustrated in the example of the structural steel 20KT.
In this thesis, I was able to provide answers to transport processes in lipid monolayers, which are ultimately, all of biological relevance. In particular, I was interested in lipid oxidation and dynamic compression/expansion processes of surfactant monolayers at the air-water interface:
Lipid oxidation was shown to be a consequence of the formation of a high concentration of reactive oxygen species (ROS) during cell respiration, which finally can lead to severe cell damage. It is not yet understood clearly, which part of the lipid molecules is especially prone to a ROS attack. I was particularly interested in the role of the double bonds of the acyl chains of the lipid molecules during oxidation. Further, I wanted to know the time scales of lipid interaction with the ROS.
Compared to lipid vesicles, lipid monolayers have the advantage that many parameters of the system can be adjusted easily. In our system, I made use of this by setting the lateral pressure to low values during H2O2 treatment, which facilitated the ROS to reach the double bonds in the acyl chains.
A prime example of biological systems out of thermal equilibrium was given in the alveolus surface, which is covered with a surfactant monolayer. During breathing, these monolayers undergo such a highly dynamic compression and expansion. Arising flows from breathing could disrupt a film and consequently, it would lose its protective role. One of my goals was to understand flows and their influence on domain shape. Dependent on the strength of the flows, I expected different growth regimes, with differing prevailing transport processes. Once understanding the underlying mechanisms in domain shaping would allow me to draw conclusions on biological systems.
In order to address these questions, I established two systems, both based on the compression of lipid monolayers. I used isotherms to study the phase behavior of the lipids:9 During compression, the lipids can undergo phase transitions from the gaseous phase to the liquid expanded phase (LE-phase) and further from the LE-phase to the liquid condensed phase (LC-phase). A coexistence regime is observed in between the LE-phase and the LC-phase, characterized by a flat increase of lateral pressure with decreasing molecular area. Some lipids exhibited LC-phase domains. These were further investigated with Brewster angle microscopy (BAM). The used BAM was equipped with an integrated Scheimpflug optics, enabling an overall focused image plane. Furthermore, time-resolved observation of the growth of the domains was possible by recording videos (20 frames per seconds).
The first system enabled the investigation of lipid peroxidation, when the lipids were exposed to ROS. I chose DMPC, POPC, DOPC and PLPC, since these are phospholipids differing in the number and position of double bonds in acyl chains, but not in the head group. I used a H2O2 enriched phosphate buffered saline (PBS) solution, which served as a precursor for more reactive ROS, like hydroxyls (.OH). PBS was chosen, since it resembles the cell environment best. During defined waiting times of H2O2 treatment, the ROS diffused vertically from the subphase towards the monolayer. The lipid molecules were in the LE-phase, which facilitated the ROS molecules to reach also the double bonds of the acyl chains. The oxidized monolayers were then compressed at constant compression speed. Since the corresponding isotherms could be measured with high precision, the relative area increase δA/A between oxidized and non-oxidized monolayer along the isotherm proved to be a good measure for lipid peroxidation. The area increase δA in the molecular area of the oxidized molecules was explained by the eventually added, more hydrophilic −OOH group at the position of a carbon atom adjacent to a double bond in the unsaturated acyl chain. The −OOH group is drawn to the hydrophilic head group of the lipid. This leads to a kink in the acyl chain, which increases the molecular area A by δA. A model, which explained this peroxidation process in lipid vesicles, could be adopted to monolayers.
I compared the oxidation of phospholipids, differing in the number and position of the double bonds of their acyl chains. I found that δA/A increased with the growing number of double bonds in one acyl chain. However, a comparison of DOPC with POPC also showed the importance of the position of the acyl chain. I determined a slow reaction kinetic. It could be estimated by a √t dependence of the number density N_surface, which denominates the ROS sticking on the monolayer. The transport of ROS towards the monolayer was found to be diffusive, because it was the slowest process in the reaction. This interpretation was reinforced by a comparison of the temperature dependence of the relative area increase δA/A with the Stokes-Einstein diffusion coefficient of water molecules. The initial ROS concentration c_0 in the trough could be traced back (c_0~ 50 nM), which is indeed a realistic value found in human cells.
Concluding, our results can be understood as a feasibility study. The complexity of the monolayer can be arbitrarily increased, for example by the addition of proteins, allowing the investigation of other oxidative processes occurring in the cell membrane.
The second system allowed the investigation of growth of LC domains during fast compression processes of monolayers. I chose erucic acid monolayers, due to its low line tension and a continuous nucleation phase, enabling the formation of fractal domains. The monolayers were investigated with isotherms and BAM videos. Since v_C (compression speed of the monolayer) was continuous over the whole compression time, I had a system with well-defined hydrodynamic conditions. This allowed me a complete analysis of the system, starting with descriptive features of the observed domains to a classification of the observed growth regimes by means of hydrodynamic theory, through to the distinction and quantification of different kind of flows and supersaturations, involving Ivantsov theory:
Dependent on the compression speed v_C, I observed seaweed or dendritic domains. The LE/LC phase transition pressure pi_t was slightly increased compared to pi_inf of the equilibrium isotherm. A high compression speed v_C induced a supersaturation Δc. I introduced the excess lateral pressure Δpi=pi-pi_inf as an appropriate quantity to describe the supersaturation Δc. I showed a linear behavior of Δc on Δpi. Δc is a macroscopic quantity since it is averaged over the whole monolayer area. I characterized the domains of the seaweed and dendritic regime with respect to tip radii, branch lengths, side branch separations and fractal dimensions. I calculated the growth speed of the main branches. A roughly doubling of the growth speed of dendritic domains, compared to seaweed domains was observed. This was an evidence of adjunctive (Marangoni) flow in the subphase.
For each monolayer, I observed drifts during domain growth, which I explained by an anisotropy in the LE-phase, caused by the continuous nucleation of the domains. These kind of surface flows were superimposed to bulk flows in the subphase. Since I had a well established system, I could analyze the influence of these surface flows on domain shape, in terms of magnitude, direction and duration of the surface flows. I therefore used FFT spectra and directionality histograms. At low flows, the FFT showed six-fold symmetry. Higher drifts exhibited incisions in the FFT, eventually leading to dumbbell shaped FFTs at very high drifts. The domains grew preferentially in the direction parallel to the incision.
I used directionality histograms to analyze the angular distribution of the growing domains. They showed that the drift direction always correlated with a minimum in the histogram. In order to analyze drift duration, I split the domain in downstream and upstream side. I could show that for small drift durations, downstream growth was preferred. However, for longer drift durations, the flows got more isotropic and consequently growth was more balanced then.
I could observe only a weak correlation between drift velocity v_D and compression speed v_C. However, dendrites were formed when the compression speed v_C was high, while seaweed domains were formed when v_C was small. Domain distortion occurred in the same way, independent if seaweed or dendritic domains were considered. I further showed that hydrodynamic flows in the subphase and surface flows are superimposed and scale differently. Consequently, they have different impact on domain shape: hydrodynamic flows act on μm scale and influence the domain morphology (distance between side branches, and tip radius) and the growth speed of the main branches. Surface flows act on the mm to cm scale, cause an anisotropic flow in the LE phase surrounding the domain, and thus affect the overall domain shape.
The anisotropy in the LE-phase led to a locally different degree of supersaturation. To take this into account, I introduced a local normalized supersaturation Δ, based on the Ivantsov solution. Therefore, I calculated Péclet numbers p of measured quantities of the system. I obtained values of 0.88 ≤Δ≤0.90 for the seaweed regime (p<5) and 0.93 ≤Δ≤0.96 for the dendritic regime (p>6). Since the Ivantsov solution can only be applied for purely diffusive processes, I applied a modified Ivantsov solution Δ_mod, which calculates Δ at a distance 𝛿 ahead of the dendrite tip. I was able to determine the progression of the diffusive layer 𝛿, however a quantitative determination failed.
Applying hydrodynamic theory allowed me to classify the two growth regimes with respect to the Boussinesq number Bq. Since for both growth regimes, I achieved values of Bq<1, bulk viscous losses dominated over surface viscous losses. Further, a cross-over length 𝜉 was calculated, from which one can distinguish, whether advective transport dominates over diffusion.
I further connected the two defined supersaturations Δ and Δc via the excess lateral pressure Δpi. From this, I saw differences in the seaweed and dendritic growth regimes: The local normalized supersaturation Δ of seaweed growth seemed to be quite stable for a further increase of the lateral excess pressure Δpi, whereas it reacted quite sensitive in the dendritic regime. This was found to be an indication of a non-equilibrium regime, caused by the strong coupling of the monolayer to the subphase. It reinforces therefore the theory of Marangoni-flow.
The findings of this thesis emphasize the importance of understanding highly dynamic compression/expansion processes arising in surfactant monolayers. Using the example of the compression of the alveolus surface, it can be seen that a more realistic model of the pulmonary alveolus is not only enabled by increasing the complexity of the surfactant monolayer (e.g. by adding specific proteins or lipid mixtures to the monolayer). Equally important is the understanding in transport processes and the consequences for the monolayer structure. By the analysis of domain shapes, I presented a method, which is suitable for such a study.
Pyrrolobenzodiazepines (PBDs) are a group of antitumor antibiotics that exert their biological activity by alkylation of guanine bases within the minor groove of double-stranded DNA through nucleophilic attack of the guanine amino group on the PBD imine functionality. In trying to increase both the binding strength and sequence selectivity for further enhancing their biological activity, PBDs were linked to additional DNA binding moieties. Preliminary DNA melting experiments partly also performed in our lab with a series of closely related PBD-naphthalimide and benzimidazole conjugates revealed extraordinary DNA-binding capability of hybrids PBD-NIM and PBD-BIMZ. These studies also indicated the favorable contribution of the piperazine structure on drug binding to the DNA duplex. Previously, in vitro cytotoxicity studies also showed promising antitumor activity of both compounds with PBD-BIMZ having the largest cytotoxic potential among various examined conjugates. In the present work, the kinetics, thermodynamics and structural details of the drug-DNA interactions have been determined employing a variety of spectroscopic, calorimetric and computational methods. Thus, a high thermal duplex stabilization upon DNA binding could be ascertained for both drugs and attributed to their covalent attachment to the DNA guanine bases. The 1:1 binding stoichiometry as well as the exclusive minor groove binding for the benzimidazole and the mixed minor grove - intercalative type of binding for the naphthalimide hybrid could be verified by several spectroscopic methods including NMR spectroscopy. Furthermore, by using a combination of solution NMR and some of the most recent molecular modeling techniques, the first high-resolution structures of DNA-drug complexes with PBD hybrid drugs could be obtained giving detailed insight into the specific drug-DNA interactions. Thus, details on van der Waals and hydrogen bond contacts within the complex and the tight fit of the benzimidazole hybrid into the DNA minor groove could be revealed. By using recent data analysis techniques like clustering algorithms, the high flexibility of the piperazine moiety within the PBD-BIMZ-DNA complex could be nicely captured and visualized. Additionally, a thermodynamic analysis for the non-covalent drug binding by UV and fluorescence spectroscopy as well as by direct calorimetric methods revealed a 1:1 binding mode driven by enthalpy changes and counteracted by unfavorable entropic contributions to result in moderately strong association constants. Analysis of the solvent-accessible surface area confirmed the importance of hydrophobic effects on drug binding and the combination of these data with ITC measurements allowed for an extensive thermodynamic characterization of the drug binding process. With respect to the influence of the individual drug moieties on DNA binding, the importance of the piperazine ring for drug-DNA interactions and the basis for its capability to enhance drug binding were addressed. Furthermore, it could be shown that the naphthalimide and benzimidazole moieties also impart additional sequence selectivity to the alkylating PBD structural unit and these distinct differences in the sequence selectivity could be linked to the three-dimensional structures of the DNA-drug complexes. Clearly, the combination of detailed structural and thermodynamic data of complex formation allows for a better understanding of the binding mechanism and structure-activity relationship when it comes to drug-DNA interactions. Therefore, the information gathered can assist in the design of more efficient derivatives of this type of alkylating DNA binding drugs in particular and of DNA recognition by ligands composed of several motifs in general.
Therapeutic Sealing of Proximal Tooth Surfaces: Two-Year Clinical and Radiographic Evaluation
(2009)
The diagnosis, prevention and treatment of proximal carious lesions comprise a constant problem in clinical dentistry. The purpose of this investigation was to test the safety and clinical effect of a new treatment for proximal caries. In 50 patients with two proximal initial lesions (D1-3 without cavitation, bitewing X-ray), orthodontic rubber rings were applied to gain access to the interproximal space. One of the lesions was sealed with a thin polyurethane-dimethacrylate foil using a bonding agent (Heliobond®, Vivadent, Schaan/Liechtenstein); the other lesion received oral home-care with dental floss and fluoridated toothpaste and was left as control. In clinical follow-ups after 6 and 12 months and X-ray evaluation after two years, clinical retention of proximal tape and the underlying sealant, marginal adaptation, discoloration, tooth vitality, proximal plaque and gingivitis were checked. In addition, caries was assessed clinically and radiographically. The sealants showed good retention, marginal adaptation and colour. After two years, vitality of all teeth was still positive and no relevant differences in plaque accumulation or gingival status were found between sealed and control teeth. Two sealed surface had to be filled due to caries progression (D3 with cavitation). 9 sealed lesions showed caries regression. In contrast, only 4 control lesions regressed and also two showed progression. The loss of tape had no significant influence on the lesion progression indicating the effect of the underlying bond. All other sealants and control lesions were stable indicating an arrest of the lesion. In conclusion, sealing initial proximal lesions showed no clinical problems and mostly arrest of initial carious lesions on bitewing X-rays.
In the present work, a time- and radial-dependent fluid model has been developed to describe the glow-to-arc transition of the positive column in the course of constriction. The self-consistent model comprises the particle balance equations for the relevant species, the balance equation of the mean electron energy and the heavy particle temperature in the plasma, the Poisson equation for the space-charge potential, and a current balance determining the axial electric field. The model adopts the nonlocal moment method, i.e., the system of the balance equations resulting from the moments of the radially dependent Boltzmann equation is solved. The electron transport and rate coefficients are adapted as functions of the mean energy of the electrons, the gas temperature and the ionization degree. The model is applied to a description of the constriction of the dc positive column in argon, for a wide range of pressures and applied currents. Pronounced nonlocal features of the mean electron energy balance are found and their influence on the constricted argon positive column is analyzed. Different assumptions concerning the electron velocity distribution function (EVDF) have been considered in the present model. The assumption of a Maxwellian distribution for the electrons was found to be inappropriate, while the assumption of a Druyvesteyn distribution for the electrons was found to be suitable for describing qualitatively the glow-to-arc transition. However, the standard model using the EVDF obtained from the solution of the steady-state, spatially homogeneous electron Boltzmann equation including electron-electron collisions allows to describe the constriction effect and provides best agreement with experimental data and other available modelling results. The fluid model has also been used to study a medium-pressure pulsed positive column in xenon at conditions of the contracted discharge. The simulation results provide a detailed insight in the physical mechanisms of xenon discharges in pulsed mode. The stepwise ionization of the excited atoms, the conversion of the atomic ions into molecular ions as well as the dissociative recombination of the molecular ions are found to be the most important processes for the pulsed positive column in xenon plasmas at conditions of the contracted discharge. The comparison of the model predictions with experimental results generally shows good agreement. In particular, the model predictions are suitable for qualitative reproduction of the significant increase of low-lying atomic levels densities as well as of the higher and of the relaxed lowest vibrational states of the Xe2* excimers in the afterglow phase of the pulse.
An already existing shortage of nurses was exacerbated by the COVID-19 pandemic. Inactive (former) nurses were regarded as a so-called silent reserve and were called upon by various agencies to volunteer for nursing. The question arose as to what factors might encourage or hinder such volunteering and facilitate deployment.
First, inactive nurses were asked via an online survey whether they had registered for deployment or not and what the reasons were for this decision. Further information on professional background was collected, including the reason for having left the profession in the first place. Based on the results of the online survey, focus group discussions were conducted with registered and unregistered inactive nurses, with nurses who had returned to the profession permanently, and with care home managers.
Only one third of the participants in the online survey said they had registered for a temporary assignment during the pandemic. The main reasons for registering were that inactive nurses ‘wanted to do their bit’ to manage the crisis, felt it was their duty and/or felt a sense of belonging to the nursing profession. The main reasons given for not having registered was that respondents ‘could not see a reason at the moment’, had health concerns, and ‘other relevant job commitments’. The majority of respondents still had jobs related to health, care or nursing.
The topics covered in the focus group discussions included the following: perception of the pandemic as a crisis, identity as a nurse and sense of professional commitment, role of current occupation in the decision to register, winning over inactive nurses with a very negative attitude towards returning to care during a crisis situation, support measures and offers regarding a deployment in nursing.
Both in the online survey and in the focus group discussions, a sense of belonging to the nursing profession was evident among many participants. However, this identity does not necessarily lead to a willingness to return to nursing during a crisis situation. Weighing up the risk of deployment against the positive or negative experiences gained during the active period can influence willingness. However, the possibility of taking a break from current work and returning to nursing at short notice is not always given. Many inactive nurses continue to work in the health sector and fulfil equally important tasks during a crisis situation which render them unavailable for deployment.
Different kinds of support for those willing to return to nursing during a crisis situation and communication on conditions of deployments need to be implemented and continuously improved to offer the inactive nurses the greatest possible security and to enable a largely unbureaucratic deployment.
Background: Microvascular Decompression represents an effective treatment for hemifacial spasm. The use of lateral spread responses (LSRs) monitoring remains a useful intraoperative tool to ensure adequate decompression of the facial nerve. Objective: To assess the value of LSRs intraoperative monitoring as a prognostic indicator for the outcome of microvascular decompression in hemifacial spasm. Methods: Our study included 100 patients prospectively. The patients were classified into 4 groups whether LSRs were totally, partially, not relieved or not detected from the start. According to clinical outcome, the patients were classified into 4 groups depending on the clinical course after surgery and the residual symptoms if any. Then, correlations were made between LSRs events and treatment outcome to detect its reliability as a prognostic indicator. Results: LSRs were relieved totally in 56% of the patients, partially relieved in 14%, not relieved in 10% and were not detected in 20% of the patients from the start. HFS was relieved directly after operation in 62% with clinical improvement of 90-100%. 31% described 50-90% improvement over the next 3 months after surgery. Almost all of these 31% (28 out of 31 patients) reported further clinical improvement of 90-100% within one year after surgery. 3% suffered from a relapse after a HFS-free period and 4% reported minimal or no improvement describing 0-50% of the preoperative state. The percentage of the satisfied patients with the clinical outcome who reported after one year a clinical improvement of 90-100% was 90%. Statistical analysis did not find a significant correlation between the relief of LSRs and clinical outcome. Conclusion: LSRs may only represent an intraoperative tool to guide for an adequate decompression but failed to represent a reliable prognostic indicator for treatment outcome.
The UNESCO Man and the Biosphere Programme has been active in South Africa for almost 20 years. The country currently has six designated biosphere reserves with a few sites in various stages of the nomination process. Within the South African context, agencies are using a series of seemingly different instruments to practice landscape-scale management. The UNESCO biosphere reserve concept sometimes finds it difficult to obtain prominence amongst these different landscape initiatives. Biosphere reserves are special sites wherein sustainable development is promoted. For this reason, the biosphere reserve concept has much to offer towards long-term sustainable socialecological land management. In our modern age of population growth, dwindling natural resources and a general disconnectedness of humans from nature due to large scale urbanization, there is an urgent need for innovative ways in which to showcase sustainable living practices. South Africa has limited natural, economic and social resources and therefore needs to prioritize where these resources could best be allocated. This dissertation comprises the history of the MAB Programme in South Africa, as well as a multicase study on five existing biosphere reserves. Results from this study indicated that not all biosphere reserves are equally effective in their implementation of the three functions of biosphere reserves and that all biosphere reserves in South Africa face an uncertain future due to pressing challenges. Collective results of the multicase study as well as literature reviews were used to inform options for the future effective implementation of the MAB Programme in South Africa. Options that could contribute towards effective biosphere reserves include more sustainable funding support, and community-based demonstration projects. In addition a new suite of criteria to inform the selection of future biosphere reserves was developed. Biosphere reserves need to be optimally located in order to secure long-term efficiency and effectiveness. These sites need to be representative of biodiversity, efficiently managed and persistent in the long run. Presently in South Africa, new sites for biosphere reserves are nominated in an ad hoc manner. Should their locations be selected discerningly, they offer many benefits to the South African social and environmental landscape that should be recognized and utilized. The final suite of selection criteria are structured according to four subsections, namely a general section that addresses national matters of general concern to the MAB Programme, and three sections covering the three biosphere reserve functions of conservation, sustainable development and logistic support. This suite of biosphere reserve selection criteria for South Africa is being put forward for deliberation and discussion at local, provincial and national level. It has the potential to be of valuable assistance in selection processes for future effective and efficient biosphere reserves that will proudly earn their place in the South African landscape as “special places for people and nature”.
The southern Baltic Sea embodies an incomparable geological archive of the tectonic evolution of the 450 Ma old Trans‐European Suture Zone (TESZ). This WNW to NW trending suture formed during the collision of Baltica and Avalonia and has accommodated the repeatedly changing stress regimes since then, as evidenced by numerous fault zones and systems. The German offshore part in the vicinity of Rügen Island is strongly block‐faulted, with each block showing a specific geological pattern, enabling the reconstruction of the structural evolution of the area.
The work of this thesis is part of the USO working group of the University of Greifswald and the Geological Survey of Mecklenburg‐Western Pomerania, which aims to build a unified three‐dimensional tectonic model of the southern Baltic Sea area. This thesis presents the results of new structural investigations of the Arkona, Wolin and Gryfice blocks north and east of Rügen. Especially, conflicting structural analyses in the previous work are united into a consistent model.
The integrated interpretation of 144 reprocessed seismic vintage lines (original Petrobaltic data) and 23 high resolution academic seismic sections (from the Universities of Hamburg and Bremen), with additional consideration of on‐ and offshore wells, revealed 19 seismostratigraphic horizons that subdivide the succession between the Proterozoic basement and the Upper Cretaceous. Up to 100 faults of superior fault zones and systems control the tectonic situation. Besides NW trending deep faults formed during the Palaeozoic, for instance the Wiek and Nord Jasmund faults, and NNW trending Mesozoic faults and flexures that belong to the Western Pomeranian Fault System, other major faults such as the Adler‐Kamień Fault Zone document the polyphase evolution of this area.
The restoration of selected seismic sections support the evaluation of separately generated faults and their reactivation, leading to a subdivision of the tectonic evolution of the area into six stages:
(1) The Caledonian Orogeny (Ordovician/Silurian) was accompanied by a NE‐SW compression, resulting in the formation of the TESZ and an accretionary wedge within the upper crust. (2) The following S to SW trending extension of the Variscan Foreland (Devonian/Carboniferous) triggered the
evolution of the Middle Devonian Old Red Rügen Basin south of the Wiek Fault. Further WNW to NW trending faults (e.g. Nord Jasmund Fault) subdivided the basin. (3) The advancing Variscan Orogeny (Late Carboniferous) caused an increasing NE‐SW orientated compression and subsequently reactivated faults and tilted blocks (e.g. Lohme Sub‐block). (4) The North German Basin and Mid Polish Trough formed by thermic subsidence in the S to SE of the research area during the Permo‐Carboniferous. Simultaneously, the evolution of the Gryfice Graben as part of the Teisseyre‐Tornquist Zone commenced. (5) Due to the Arctic‐North Atlantic Rifting an E‐W trending extension increased. Consequently, grabens such as the Gryfice Graben continued their subsidence. As the stress system rotated counter‐clockwise, the shear strength increased along the NE trending faults. The Western Pomeranian Fault System developed due to intense transtension during the Keuper and Jurassic, and is characterised by pull‐apart structures. (6) In the Upper Cretaceous, a NE‐SW compression, forced by the Africa‐Iberia‐Europe convergence, triggered the reactivation of faults and flexures as reverse ones, the inversion of grabens (e.g. Gryfice Graben), and the formation of anticlines, for instance at the Wolin Block.
This thesis combines the calculation of gridded time structure maps and a detailed fault pattern analysis, and represents the base for a velocity‐ and subsequently depth‐based 3D modelling.
The target specificity of thioredoxin family proteins is determined by electrostatic compatibility
(2021)
The thioredoxin (Trx) family of proteins comprises many key enzymes in redox signaling, that catalyzes specific reversible redox reactions, e.g. dithiol-disulfide exchange reactions, (de-)glutathionylation, trans-nitrosylation, or peroxide reduction. With the analysis of a large number of proteins, as well as a certain redox couple in [article 1] and [article 4], we demonstrated that electrostatic complementarity is the major distinguishing feature that controls the specific interactions of Trxs with their target proteins. The primary aim of this work was to determine the importance of this specific interaction and the prediction, modulation, and engineering of functional redox interactions of Trx family proteins. To understand the role of electrostatic complementarity for the mammalian Trx1-TrxR complex, we generated more than 20 hTrx1 mutants and systematically engineered the electrostatic potential within and outside the contact area with TrxR [article 1]. The effects of these specific alterations distributed all over the protein surface were analyzed by enzyme kinetics, differential scanning fluorimetry (DSF), circular dichroism (CD) spectroscopy, and MD simulations. Trx family proteins have a broad and very distinct substrate specificity, which is a prerequisite for redox switching. In [article 4], we comprehensively compared the classification of various redoxins from all kingdoms of life based on their similarity in amino acid sequence, tertiary structure, and electrostatic properties. These similarities were then correlated to the existence of common interaction partners. Our analyses confirmed that the primary and tertiary structure similarities do not correlate to the target specificity of the proteins as thiol-disulfide oxidoreductases. However, we demonstrated that the electrostatic properties of the protein from both Trx or Grx subfamilies is the major determinant for their target specificity.
Although structurally very similar, CxxC/S-type or class I Grxs act as oxidoreductases and CGFS-type or class II Grxs act as FeS cluster transferases. In [article 3], we re-investigated the structural differences between the two main classes of Grxs to solve the mystery of the missing FeS transferase activity of the CxxC/S-type and the lack of oxidoreductase activity of the CGFS-type Grxs. The presence of a distinct loop structure adjacent to the active site is the major determinant of the Grx function. We confirmed that the function of Grxs can be switched from oxidoreductase to FeS cluster transferase by construction of a CxxC/S-type Grx with a CGFS-type Grx loop and vice versa. Results of several in vitro and in vivo assays together with the detailed structural analyses indicate that not a radically different substrate specificity accounts for the lack of activity, but rather slightly different modes of GSH binding, which is an essential nucleophile required in redox and iron homeostasis.
Various processes within the cell depend on GSH, including redox reactions, reversible posttranslational modifications, and iron metabolim. GSH is not only important in the export of FeS precursors from mitochondria, but it is also an essential cofactor for cluster binding in iron sulfur Grxs. In [article 2], we discussed the role of GSH and iron sulfur Grxs in iron metabolism, the physiological role of CGFS-type Grx interactions with BolA- like proteins, and the cluster transfer between Grxs and recipient proteins. The first well characterized physiological function of a Grx-BolA hetero complex is presented with the Grx3/4-Fra2-mediated regulation of iron homeostasis in yeast.
In synopsis, the results presented and discussed in these articles and the manuscript support the concept of electrostatic properties as the main determinant in substrate specificity towards functional predictions in Trx family proteins. The mathematical model presented here showed significantly accuracy and precision in function prediction. We are aware that our findings are focused on Trx family proteins as a particular family of proteins, but by using a machine learning strategy this mathematical model is being trained with numerous different protein models for better efficacy and accuracy, that may lead to new insights also in the specific interactions of other protein families. The new concept for the substrate specificity determinant doesn’t eliminate previously described aspects for molecular recognition, instead it reveals a deeper understanding of the protein-protein interaction. The 3D structural elements of a protein play a significant role in the specificity and function. We have been able to activate an inactive protein by replacing defined structural elements. Elimination of the loop structure from CGFS-type Grx5 transformed it from an FeS transferase into an oxidoreductase and the activity was further increased by modification of the active site. We believe that the present findings may be useful to investigate proteins in great detail regarding their function based on structure and electrostatic properties. Understanding the nature of the specific interactions may enable us to specifically modify the signal transduction pathways.
Given a manifold with a string structure, we construct a spinor bundle on its loop space. Our construction is in analogy with the usual construction of a spinor bundle on a spin manifold, but necessarily makes use of tools from infinite dimensional geometry. We equip this spinor bundle on loop space with an action of a bundle of Clifford algebras. Given two smooth loops in our string manifold that share a segment, we can construct a third loop by deleting this segment. If this third loop is smooth, then we say that the original pair of loops is a pair of compatible loops. It is well-known that this operation of fusing compatible loops is important if one wants to understand the geometry of a manifold through its loop space. In this work, we explain in detail how the spinor bundle on loop space behaves with respect to fusion of compatible loops. To wit, we construct a family of fusion isomorphisms indexed by pairs of compatible loops in our string manifold. Each of these fusion isomorphisms is an isomorphism from the relative tensor product of the fibres of the spinor bundle over its index pair of compatible loops to the fibre over the loop that is the result of fusing the index pair. The construction of a spinor bundle on loop space equipped with a fusion product as above was proposed by Stolz and Teichner with the goal of studying the Dirac operator on loop space". Our construction combines facets of the theory of bimodules for von Neumann algebras, infinite dimensional manifolds, and Lie groups and their representations. We moreover place our spinor bundle on loop space in the context of bundle gerbes and bundle gerbe modules.
The present work is the first work dealing with turbulence in the WEGA stellarator. The main object of this work is to provide a detailed characterisation of electrostatic turbulence in WEGA and to identify the underlying instability mechanism driving turbulence. The spatio-temporal structure of turbulence is studied using multiple Langmuir probes providing a sufficiently high spatial and temporal resolution. Turbulence in WEGA is dominated by drift wave dynamics. Evidence for this finding is given by several individual indicators which are typical features of drift waves. The phase shift between density and potential fluctuations is close to zero, fluctuations are mainly driven by the density gradient, and the phase velocity of turbulent structures points in the direction of the electron diamagnetic drift. The structure of turbulence is studied mainly in the plasma edge region inside the last closed flux surface. WEGA can be operated in two regimes differing in the magnetic field strength by almost one order of magnitude (57mT and 500mT, respectively). The two regimes turned out to show a strong difference in the turbulence dynamics. At 57mT large structures with a poloidal extent comparable to the machine dimensions are observed, whereas at 500mT turbulent structures are much smaller. The poloidal structure size scales nearly linearly with the inverse magnetic field strength. This scaling may be argued to be related to the drift wave dispersion scale. However, the structure size remains unchanged when the ion mass is changed by using different discharge gases. Inside the last closed flux surface the poloidal ExB drift in WEGA is negligible. The observed phase velocity is in good agreement with the electron diamagnetic drift velocity. The energy in the wavenumber-frequency spectrum is distributed in the vicinity of the drift wave dispersion relation. The three-dimensional structure is studied in detail using probes which are toroidally separated but aligned along connecting magnetic field lines. As expected for drift waves a small but finite parallel wavenumber is found. The ratio between the average parallel and perpendicular wavenumber is in the order of 10^-2. The parallel phase velocity of turbulent structures is in-between the ion sound velocity and the Alfvènvelocity. In the parallel dynamics a fundamental difference between the two operational regimes at different magnetic field strength is found. At 500mT turbulent structures can be described as an interaction of wave contributions with parallel wavefronts. At 57mT the energy in the parallel wavenumber spectrum is distributed among wavenumber components pointing both parallel and antiparallel to the magnetic field vector. In both cases turbulent structures arise preferable on the low field side of the torus. Some results on a novel field in plasma turbulence are given, i.e. the study of turbulence as a function of resonant magnetic field perturbations leading to the formation of magnetic islands. Magnetic islands in WEGA can be manipulated by external perturbation coils. A significant influence of field perturbations on the turbulence dynamics is found. A distinct local increase of the fluctuation amplitude and the associated turbulent particle flux is found in the region of magnetic islands.
Methane (CH4) is a potent greenhouse gas with rising atmospheric concentrations.
Microorganisms are essential players in the global methane cycle. In fact, the largest part of methane emissions derives from microbial production by methanogenic Archaea (methanogens). Microorganisms do not only produce methane: methanotrophs can also oxidize the methane produced by methanogens. In addition, soil methanotrophs are the only biological methane sink, oxidizing up to 30-40 Tg of this potent greenhouse gas per year worldwide.
However, intensified management of grasslands and forests may reduce the methane sink capacity of soils.
In general, the interaction of methanogens and methanotrophs determines whether a soil is a source or a sink for methane. It is, therefore, crucial to understand the microbial part of the methane cycle and which factors influence the abundance and activity of methane-cycling microbes. However, capturing the soil microbiome's abundances, activity, and identity is
challenging. There are numerous target molecules and myriad methods, each with certain
limitations. Linking microbial markers to methane fluxes is therefore challenging. This thesis aimed to understand how methane-cycling microbes in the soil are related to soil methane fluxes and how soil characteristics and human activity influence them.
The first publication investigated the biotic and abiotic drivers of the atmospheric methane sink of soils. It assessed the influence of grassland land-use intensity (150 sites) and forest management type (149 sites) on potential atmospheric methane oxidation rates (PMORs) and the abundance and diversity of CH4-oxidizing bacteria (MOB) with qPCR in topsoils of three temperate regions in Germany. PMORs measured in microcosms under defined conditions were approximately twice as high in forest than in grassland soils. High land-use intensity of grasslands negatively affected PMORs (−40%) in almost all regions. Among the different aspects of land-use intensity, fertilization had the most adverse effect reducing PMORs by 20%.
In contrast, forest management did not affect PMORs in forest soils. Upland soil cluster (USC)α was the dominant group of MOBs in the forests. In contrast, USCγ was absent in more than half of the forest soils but present in almost all grassland soils. USCα abundance had a direct positive effect on PMOR in forests, while in grasslands, USCα and USCγ abundance affected PMOR positively with a more pronounced contribution of USCγ than USCα.
In the second publication, we used quantitative metatranscriptomics to link methane-cycling microbiomes to net surface methane fluxes throughout a year in two grassland soils. Methane fluxes were highly dynamic: both soils were net methane sources in autumn and winter and net methane sinks in spring and summer. Correspondingly, methanogen mRNA abundances per
gram soil correlated well with methane fluxes. Methanotroph to methanogen mRNA ratios were higher in spring and summer when the soils acted as net methane sinks. Furthermore, methane uptake was associated with an increased proportion of USCα and γ pmoA and pmoA2 transcripts. High methanotroph to methanogen ratios would indicate methane sink properties.
Our study links the seasonal transcriptional dynamics of methane-cycling soil microbiomes for the first time to gas fluxes in situ. It suggests mRNA transcript abundances as promising indicators of dynamic ecosystem-level processes.
We conclude that reduction in grassland land-use intensity and afforestation can potentially increase the methane sink function of soils and that different parameters determine the microbial methane sink in forest and grassland soils. Furthermore, this thesis suggests mRNA transcript abundances as promising indicators of dynamic ecosystem-level processes. Methanogen transcript abundance may be used as a proxy for changes in net surface methane emissions from grassland soils.
As the tree of life is populated with sequenced genomes ever more densely, the new challenge is the accurate and consistent annotation of entire clades of genomes. In my dissertation, I address this problem with a new approach to comparative gene finding that takes a multiple genome alignment of closely related species and simultaneously predicts the location and structure of protein-coding genes in all input genomes, thereby exploiting negative selection and sequence conservation. The model prefers potential gene structures in the different genomes that are in agreement with each other, or—if not—where the exon gains and losses are plausible given the species tree. The multi-species gene finding problem is formulated as a binary labeling problem on a graph. The resulting optimization problem is NP hard, but can be efficiently approximated using a subgradient-based dual decomposition approach.
I tested the novel approach on whole-genome alignments of 12 vertebrate and 12 Drosophila species. The accuracy was evaluated for human, mouse and Drosophila melanogaster and compared to competing methods. Results suggest that the new method is well-suited for annotation of a large number of genomes of closely related species within a clade, in particular, when RNA-Seq data are available for many of the genomes. The transfer of existing annotations from one genome to another via the genome alignment is more accurate than previous approaches that are based on protein-spliced alignments, when the genomes are at close to medium distances. The method is implemented in C++ as part of the gene finder AUGUSTUS.
The role of uptake and efflux transporters in the pharmacokinetics of ß1-receptor blocker talinolol
(2016)
Introduction: The β1-adrenergic receptor antagonist talinolol is a probe drug for P-glycoprotein (P-gp). It is absorbed erratically and incompletely from the gastrointestinal tract. However, its pharmacokinetics might also be influenced by further uptake and efflux transporters as concluded from interaction studies with naringin and verapamil in human. Additionally, the transcellular transport through the different tissues, including enterocytes, hepatocytes and kidney tubular cells, is not completely understood so far. Therefore, we aimed to measure the affinity of talinolol to drug transporting proteins (OCT1-3, PEPT1, OCTN2, ASBT, NTCP, MRP 1-3 and P-gp as well as OATP 1B1, 1B3, 2B1 and 1A2) and some of their genetic variants known to be of pharmacokinetic relevance (OATP1A2 *2 and*3 as well as OATP2B1 V201M, R312Q and S486F). In a further step, we retrospectively evaluated the impact of clinically relevant genetic polymorphisms of transporters on the pharmacokinetics of talinolol in healthy subjects. Materials and Methods: Time and concentration-dependent uptake assays with [3H]-talinolol were performed either in stable transfected HEK293 or MDCKII cells expressing OATP1A2 *1, *2 and *3, OATP1B1, OATP1B3, OATP2B1 (and its genetic variants p.V201M, p.R312Q and p.S486F), NTCP, ASBT, PEPT1, OCTN2, OCT 1-3 and the respective vector control or in inside-out lipovesicles expressing the efflux transporters MRP1-3 and P-gp. Talinolol was quantified by liquid scintillation counting. The transport rates were then corrected by the transporter proteomics measured in the cellular membrane. Regarding the pharmacogenomic evaluation, it was carried out retrospectively in 39 healthy subjects who had participated in former pharmacokinetic studies with talinolol. This evaluation included a variety of transporter related genetic variants, known to be of a clinical meaning for their substrates. Results: Among the uptake transporters, talinolol was shown to be a substrate of OATP1B3 (Km= 153 ± 137 μmol/l; Vmax= 168 ± 30.3 μmol/mgxmin), OATP1B1 (Km= 301 ± 133 μmol/l; Vmax= 1135 ± 348 μmol/mgxmin), OATP2B1 (Km= 459 ± 260 μmol/l; Vmax= 4.32 ± 1.33 μmol/mgxmin), OATP1A2 (Km= 477 ± 158 μmol/l; Vmax= 0.61 ± 0.1 μmol/mgxmin) and NTCP (Km= 2560 ± 781 μmol/l; Vmax= 15944 ± 3741 μmol/mgxmin) but not a substrate of OCT1-3, OCTN2, PEPT1 or ASBT. When it comes to the efflux transporters, talinolol was transported by both P-gp (Km = 175 ± 206 mol/l; Vmax = 14 ± 10.8 nmol/mgxmin) and MRP3 (Km= 86.8 ± 62.8 μmol/l; Vmax= 133 ± 51.5 μmol/mgxmin) but not by MRP2. The pharmacogenomic analysis supported the in-vitro results, as it showed a significant decrease in talinolol absorption (AUC and Cmax) in subjects with the loss of function variant MRP3 211C>T and in those with a decreased P-gp function due to having less than 5 T-allels in the haplotype P-gp 1236-2677-3435-TTT. No significant changes were found associated with other transporters’ genetic variants. Conclusion: Our in-vitro results suggested the vectorial transport of talinolol through the enterocytes to consist mainly of apical OATP2B1 and P-gp and basolateral MRP3. Additionally in the hepatocytes, apical OATP1B1, OATP1B3 and NTCP seem to be involved as well. This vectorial transport was demonstrated in-vivo for the first time by our pharmacogenomic analysis, where talinolol absorption was significantly influenced by both P-gp and MRP3 genetic variants.
The proteasome is a major part of the ubiquitin-proteasome-system playing an important role in cell homeostasis due to its protein quality control function. Moreover, the proteasome is involved in cell cycle regulation and in the regulation of transcription factors. Upon induction of interferons, or treatment with lipopolysaccharides, an isoform of the standard-proteasome is composed, named immunoproteasome (i-proteasome). The i-proteasome is constitutively expressed in immune cells and deficiency of proteolytic subunits of this multiprotein complex has been associated with a poor outcome during infectious diseases. I-proteasome-deficiency has been shown to result in reduced MHC class I presentation. Using mice which are deficient for all three proteolytic active subunits LMP2, MECL-1 and LMP7, we could demonstrate that i-proteasome-deficiency lead to an altered recruitment of immune cells to the CNS when challenged with the intracellular parasite Toxoplasma gondii, resulting in increased frequencies of neutrophils and other cells of myeloid origin. The shift to reduced frequencies of CD45highCD11blow lymphocytes can be further explained by a decreased migratory capacity of i-proteasome-deficient CD8+ T cells. In contrast to previous studies using other pathogens, effector function of CD8+ as well as CD4+ T cells, measured by frequencies of IFNγ, TNF, IL-2 and granzyme B producing cells, were not impaired in these mice, whereas induction of CD4+ Tregs was strongly reduced. In addition, we found that parasite control was comparable to control mice and that i-proteasome deletion caused an overall pro-inflammatory cytokine milieu within the brain. Our results indicate that i-proteasome-deficiency lead to prolonged tissue inflammation during T. gondii infection which could be an explanation for the more severe course of disease observed in these mice.
The Src homology domain containing phosphatase 2 (SHP2) is a tyrosine phosphatase modulating several signaling pathways and therefore has an influence in cell cycle, differentiation, proliferation and cell activation. However, SHP2 is assumed to play a negative role during T-cell activation as the phosphatase has been shown to inhibit T-cell receptor-induced signaling cascades. Although, various gain-of-function mutations in the SH2 or PTP domain of this phosphatase, such as D61Y, have been associated with myeloproliferative diseases such as juvenile myelomonocytic leukemia (JMML), effects of such mutations on T cells have not been addressed in scientific literature so far. Therefore, in the second part of this thesis we could demonstrate that D61Y mutation in the SH2 domain of SHP2 did not cause JMML pathology when only introduced into T cells. Especially in aged mice, T cells of SHP2 mutant mice showed an increased expression of cell adhesion molecule CD44. In accordance with these findings, we observed increased influenza A virus-specific T cells in the bone marrow of SHP2 D61Y mutant mice, indicating a role of the phosphatase in memory formation or maintenance of CD8+ Tem. Although SHP2D61Y mice revealed a comparable viral clearance, IFNγ production of virus experienced CD4+ and CD8+ T cells was diminished compared to control mice, underlining a negative involvement of the phosphatase in the JAK/STAT1 signaling axis as suggested before by studies using mice with SHP2-/- T cells.
This thesis highlights the impact of surface charges and negative ions on the pre-ionization, breakdown mechanism, and lateral structure of dielectric barrier discharges operated in binary mixtures of helium with nitrogen or electronegative oxygen. Sophisticated diagnostic methods, e.g., non-invasive optical emission spectroscopy and the electro-optic Pockels effect as well as invasive laser photodetachment and laser photodesorption, were applied at one plane-parallel discharge configuration to investigate both relevant volume and surface processes. Moreover, the experimental findings were supported by numerical fluid simulations of the discharge. For the first time, the memory effect of the measured surface charge distribution was quantified and its impact on the local self-stabilization of discharge filaments was pointed out. As well, it turned out that a few additional seed electrons, either desorbed from the charged dielectric surface or detached from negative ions in the volume, significantly contribute to the pre-ionization resulting in a reduced voltage necessary for discharge breakdown. Finally, effective secondary electron emission coefficients of different dielectrics were estimated from the measured breakdown voltage using an analytical model.
Background: Sedentary behavior (SB) is a modifiable behavior with increasing prevalence worldwide. There is emerging evidence that time spend in SB and the manner in which SB is accumulated over time is associated with cardiovascular and cardiometabolic health. The requirement for SB data to be accurately measured is minimization, or at least accurate quantification of human-related sources of measurement errors such as accelerometer measurement reactivity (AMR). The present thesis was to examine SB and their associations with cardiovascular and cardiometabolic health, and to focus on challenges related to the assessment of SB. The first aim of the thesis was to identify patterns of SB describing how individuals accumulate their time spend in SB day-by-day over one week, and to examine how these patterns are associated with cardiorespiratory fitness as a marker for cardiovascular health (paper 1). The second aim of the thesis was to examine the multiple types of SB, and how this is associated with a clustered cardiometabolic risk score (CMRS; paper 2). The third aim of the thesis was to examine AMR and the reproducibility in SB and physical activity (PA) in two measurement periods, and to quantify AMR as a confounder for the estimation of the reproducibility of SB and PA data (paper 3).
Methods: The three papers were based on data of two different studies. For study 1, 1165 individuals aged 40 to 75 years were recruited in three different settings. Among these, 582 participated in a cardiovascular risk factor screening program including cardiopulmonary exercise testing. For the analyses of paper 1, 170 participants were eligible, agreed to wear an accelerometer, fulfilled the wearing regime, and completed the study period by wearing the accelerometer for seven consecutive days. Patterns in accelerometer data were classified based on time spent in SB per day applying growth mixture modeling. Model‐implied class‐specific peak oxygen uptake (VO2peak) means were compared using adjusted equality test of means (paper 1). The underlying study of paper 2 and 3 were based on data of a pilot study aiming to investigate the feasibility of a brief tailored letter intervention to increase PA and to reduce SB during leisure time. Among the individuals who agreed to be contacted again in study 1, a random sample of those aged between 40 and 65 years was drawn. Of those, 175 attended in a cardiovascular examination program. Assessment included giving blood sample, standardized measurement of blood pressure, waist circumference, body weight, and height at baseline, and after twelve months. Further, they agreed to complete a paper-pencil questionnaire on SB (Last 7-d Sedentary Behavior Questionnaire, SIT-Q-7d) and PA (International Physical Activity Questionnaire, IPAQ), and to receive seven-day accelerometery at baseline, and after 12 months. In addition, self-administered assessments were conducted at months one, three, four, and six after baseline. Only individuals of a random subsample (= intervention group) received up to three letters tailored to their self-reported SB and PA at months one, three, and four. For paper 2, associations between SBs and a clustered cardiometabolic risk score (CMRS) were analyzed using linear as well as quantile regression. To account for missing values at baseline, multiple imputations using chained equations were performed resulting in a total sample of 173 participants. Paper 3 comprised data of 136 individuals who participated at the baseline and twelve months assessments, and fulfilled the wearing regime. AMR was examined using latent growth modeling in each measurement period. Intraclass correlations (ICC) were calculated to examine the reproducibility of SB and PA data using two-level mixed-effects linear regression analyses.
Results: Results of paper 1 revealed four patterns of SB: 'High, stable', 'Low, increase', 'Low, decrease', and 'High, decrease'. Persons in the class 'High, stable' had significantly lower VO2peak values (M = 25.0 mL/kg/min, SD = 0.6) compared to persons in the class 'Low, increase' (M = 30.5 mL/kg/min, SD = 3.6; p = 0.001), in the class 'Low, decrease' (M = 30.1 mL/kg/min, SD = 5.0; p = 0.009), and in the class High, decrease' (M = 29.6 mL/kg/min, SD = 5.9; p = 0.032), respectively. No differences among the other classes were found. In paper 2, results revealed that the only factor positively associated with a CMRS in all regression models was watching television. Depending on the regression analysis approach used, other leisure-time SBs showed inconsistent (using a computer), or no associations (reading and socializing) with a CMRS. In paper 3, results revealed that time spent in SB increased (baseline: b = 2.3 min/d; after 12 months: b = 3.8 min/d), and time spent in light PA decreased (b = 2.0 min/day; b = 3.3 min/d). However, moderate-to-vigorous PA remained unchanged. Accelerometer wear time was reduced (b = 4.6 min/d) only at baseline. The ICC coefficients ranged from 0.42 (95% CI = 0.29 - 0.57) for accelerometer wear time to 0.70 (95% CI = 0.61 - 0.78) for moderate-to-vigorous PA. None of the regression models identified a reactivity indicator as a confounder for the reproducibility of SB and PA data.
Conclusions: The present thesis highlights SB in the field of cardiovascular and cardiometabolic research that have implications for future research. Individuals sit for different purposes and durations in multiple life domains, and the time spent in SB is accumulated in different patterns over time. Therefore, research should consider the fact that SB is embedded in an individual's daily life routine, hence might have differential effects on cardiovascular and cardiometabolic health. Further, methodological aspects have to be considered when dealing with SB. In order to detect how SB is 'independently' associated to an individual's health, an accurate measurement of SB is fundamental. Therefore, human-related sources of bias such as AMR should be taken into account when either planning studies or when interpreting data drawn from analysis of SB data.
Group A streptococcus (GAS) and Streptococcus pneumoniae are both Gram-positive bacteria that asymptomatically colonise various human body parts. Both microbes cause diseases ranging from mild to severe invasive infections. The later are associated with high mortality. GAS is the major microbial aetiology of type II necrotising skin and soft tissue infections (NSTIs). Type II NSTIs typically affect the lower and upper limbs of healthy young adults and often require debridement as a surgical intervention to prevent the spread of infection. S. pneumoniae is the major cause of respiratory tract infections including community-acquired pneumonia in young children and the elderly. Although most respiratory tract infections are successfully treated with antibiotics, emerging antibiotic resistance is a major cause of concern. Secreted virulence factors of Gram-positive bacteria play a major role in the successful invasion of host tissues causing different diseases. Additionally, they facilitate the spread of infection, contribute to tissue pathology, and potentially act as immune evasion mechanisms. This thesis summarises the consequences of streptococcal pyrogenic exotoxin B (SpeB), a potent cysteine protease secreted by GAS and pneumococci-derived hydrogen peroxide (H2O2) on host responses.
GAS have developed genetic or phenotypic ways of adapting to the immune response to escape immune clearance. Analysis of GAS clones recovered from NSTI patient biopsies exhibit a mixed SpeB phenotype, with most clones being SpeB negative. SpeB negative clones have been associated with hyper-virulence. In Paper II, we showed that SpeB negative GAS clones recovered from tissue exhibit reversible impaired SpeB secretion due to environmental factors. In addition, mutations in covS and ropB, the major transcriptional regulators of SpeB expression, were responsible for the irreversible loss of SpeB expression. Immunohistochemistry analysis demonstrated that neutrophil degranulation, necrosis and excessive inflammation observed in NSTIs patient biopsies correlated with bacterial load and SpeB negativity of clones. Proteomic data analysis showed that SpeB negative GAS recovered from neutrophil infection harboured the protease intracellularly suggesting that the bacteria expressed but did not secrete SpeB. We have also shown that neutrophil-derived reactive oxygen species, H2O2 and hypochlorous acid, drive the SpeB negative phenotype. The SpeB negative clones survived neutrophil-mediated antimicrobial killing and induced excessive degranulation when compared with SpeB positive clones. These results provide new insights into GAS fitness induced by host factors in tissue and may be useful for the development of new treatment strategies in NSTIs.
Pneumococci produce H2O2 as a by-product of carbohydrate metabolism in a reaction catalysed by pyruvate oxidase SpxB. However, very little is known about the effects of pneumococcal H2O2 as a virulence factor. Our study aimed to investigate the role of H2O2 in initiating epithelial cell death, focusing on apoptosis and pyroptosis. In Paper III, we showed that pneumococci-derived H2O2 caused epithelial cell cytotoxicity by priming and activating the NLRP3 inflammasome resulting in subsequent IL-1β production and release. Additionally, H2O2 caused apoptotic and pyroptotic cell death as evidenced by activation of caspase-3/7 and caspase-1, respectively. However, the release of IL-1β was dependent on apoptosis and not pyroptosis since inactive gasdermin D was detected post-infection. These observations were not detected in the absence of H2O2. Overall, we showed the damaging effects of pneumococci-derived H2O2 on human bronchial epithelial cells.
The Flavivirus genus (Flaviviridae family) comprises the most important arboviruses in the world such as dengue virus, West Nile virus (WNV), Zika virus (ZIKV), Japanese encephalitis virus and yellow fever virus (YFV). Every year, several outbreaks caused by flaviviruses are reported worldwide (i.e.: ZIKV and YFV outbreaks in South America) with a huge impact on economy and public health. In the last few decades, many aspects of the flavivirus biology and the interaction of flaviviruses with host cells have been elucidated. However, many underlying mechanisms concerning receptor usage, entry process and viral interaction with host cell factors are still not completely understood. Integrins, the major class of cell adhesion molecules have been implicated in the infectious cycle of different viruses including flaviviruses. A previous report proposed that a particular integrin, the αVβ3 integrin, might act as a cellular receptor for WNV. However, this hypothesis was not confirmed by other groups. In the present study, murine cell lines lacking the expression of one or more integrin subunits were used to evaluate the involvement of different integrins in the flavivirus infection cycle. Mouse fibroblasts lacking the expression of β1 integrin (MKF-β1-/-) or β3 integrin (MEF-β3-/-) subunits or αVβ3 integrin (MEF-αVβ3-/-) as well as their corresponding wild-type cells were utilized. A second model using Chinese hamster ovary cells (CHO-K1), a cell line that has been described to be refractory to some flaviviruses, were modified to express either αV (CHO-αV+/+) or β3 (CHO-β3+/+) integrin subunits. All cell lines were first characterized by confocal laser microscopy, flow cytometry and functional assays prior to infection to assess their integrin expression. The cell lines were then inoculated with different flaviviruses of public health relevance: WNV, YFV-17D, Usutu virus (USUV), Langat virus (LGTV) and ZIKV. Infection assays were designed in order to evaluate whether integrins influence i) cell susceptibility; ii) binding; iii) internalization and iv) replication of the investigated flaviviruses. Our findings clearly demonstrate that β1, β3 and αVβ3 integrins do not act as flavivirus cellular receptor or attachment factor since their ablation does not completely abrogate flavivirus infection in the investigated cell lines. Flavivirus binding to the cell surface of MEFs, MKFs and CHO cells was not disturbed by the genomic deletion of the above-mentioned integrins. The deletion of β1 and β3 integrin subunit did not affect internalization of any of the flaviviruses tested. In contrast to that, loss of αVβ3 integrin in the MEF-αVβ3-/- cells showed a statistically significant decrease in WNV and USUV internalization while ZIKV, YFV-17D and LGTV internalization remained unaffected suggesting that αVβ3 integrin might be involved in the internalization process of at least some flaviviruses. On the other hand, flavivirus replication was substantially impaired in the integrin-deficient cell lines in comparison to their corresponding wild-type cells. Both, MEF-β3-/- and MKF-β1-/- cells showed a statistically significant reduction on viral load for all flaviviruses tested in comparison to their respective wild-type cells. The MEF-αVβ3-/- cells in particular, showed a strong inhibition of flavivirus replication with a reduction of up to 99% on viral loads for all flaviviruses tested. Levels of flavivirus negative-strand RNA were substantially decreased in MEF-αVβ3-/- cells indicating that integrins might influence flavivirus RNA replication. The ectopic expression of either αV or β3 integrin subunits in CHO cells slightly increased the replication of all flaviviruses tested. Taken together, this is the first report highlighting the involvement of integrins in ZIKV, USUV, LGTV and YFV infection. The results strongly indicate that the investigated integrins play an important role in flavivirus infection and might represent a novel host cell factor that enhances flavivirus replication. Although the exact mechanism of interaction between integrins and flaviviruses is currently unknown, the results provided in this study deepen our insight into flavivirus - host cell interactions and open doors for further investigations.
The leading hypothesis of why organisms age is the “Free Radical Theory of Aging”, which states that the accumulation of reactive oxygen species (ROS), such as superoxide (O2•-) and hydrogen peroxide (H2O2), causes protein, lipid and DNA damage and leads to the observed age-related decline of cells and tissues. A major obstacle in analyzing the role of oxidative stress in aging organisms is the inability to precisely localize and quantify the oxidants, to identify proteins and pathways that might be affected, and ultimately, to correlate changes in oxidant levels with the lifespan of the organism. To directly monitor the onset and extent of oxidative stress during the lifespan of Caenorhabditis elegans, we utilized the fluorescent H2O2 sensor protein HyPer, which enabled us to quantify endogenous peroxide levels in different tissues of living animals in real time. We made the surprising observation that wildtype C. elegans is exposed to very high peroxide levels during development. Peroxide levels drop rapidly as the animals mature, and low peroxide levels then prevail throughout the reproductive age, after which an age-accompanying increase of peroxide level is observed. These results were in excellent agreement with findings obtained by using the highly quantitative redox proteomic technique OxICAT, which monitors the oxidation status of redox-sensitive proteins as read-out for onset, localization, and protein targets of oxidative stress. By using OxICAT, we detected increased protein thiol oxidation during the development of C. elegans and in aging animals. Many processes in C. elegans might potentially contribute to the elevated peroxide levels observed during development, including cuticle formation, apoptosis, proliferation, gametogenesis, or ROS signaling. The finding that all investigated C. elegans mutants regardless of their lifespan are exposed to high developmental peroxide levels argues for ROS accumulation to be a universal and necessary event. Yet, recovery from the early oxidative boost might determine the subsequent adult lifespan, as we found that long-lived daf-2 mutants transition faster to reducing conditions than short-lived daf-16 mutants, which retain higher peroxide levels throughout their mature life. These results suggest that changes in the cellular oxidant homeostasis, encountered at a very early stage in life, might determine subsequent redox levels and potentially the lifespan of organisms. Manipulation of developmental oxidant levels using glucose restriction or a short bolus of superoxide caused a disruption in developmental growth, a delay in reproduction, and a shortened lifespan. These results suggest that developmental oxidant levels are fine-tuned and optimized. Future experiments are aimed to investigate the sources of developmental hydrogen peroxide, and to elucidate whether active down-regulation of antioxidant enzymes during the larval period might foster peroxide accumulation. Preliminary results indicate that this might indeed be the case for peroxiredoxin 2, whose expression was significantly lower during development than at later stages in life. Finally, we investigated whether the observed variances in the developmental peroxide levels of individual worms within a synchronized wildtype population might be responsible for the observed significant variances in lifespan, and hence could serve as a predictor for adult lifespan. Preliminary results revealed that neither too low nor too high peroxide levels during development are beneficial for the lifespan of wildtype worms, suggesting that ROS level during development might be optimized for maximized lifespan. Future experiments aim to reveal the processes that are affected by ROS and which might influence the individual’s lifespan early in life.
The human innate response plays a pivotal role in detection of pathogen- or damage-associated molecular patterns (PAMPs and DAMPs) and contributes to a crucial inflammatory response. PAMPs or DAMPs are recognized by the host immune system via pattern recognition receptors (PRRs). NLR family pyrin domain-containing 3 (NLRP3) inflammasome is one of these PRRs. NLRP3 is a cytoplasmic immune sensor that upon activation produce pro-inflammatory cytokines such as IL-1β and IL-18. These cytokines induce a diverse range of protective host pathways aiming to eradicate the pathogen. However, excessive or chronic inflammasome activation are implicated in the pathogenesis of several autoimmune and auto-inflammatory disorders. Pharmacologic inhibitors of IL-1 are commonly used to combat these disorders. In paper I, we explore the currently available IL-1β inhibiting therapies and how patients undergoing these treatments are at a disproportionate risk to experience invasive bacterial infections. We also summarize the limited knowledge on the role of NLRP3 inflammasome in pneumococcal pathogenesis.
Hydrogen peroxide (H2O2) is a physiological metabolite and an important virulence determinant produced by pneumococci. It is highly cytotoxic to host cells. However, not much is known about its impact on host cell death pathways such as NLRP3 inflammasome mediated pyroptosis. In Paper II, we examined the effect of pneumococci-derived H2O2 on epithelial cells by analyzing the interplay between two key cell death pathways, namely apoptosis and pyroptosis. We show that H2O2 can prime as well as activate the NLRP3 inflammasome. Furthermore, we demonstrate that pneumococcal H2O2 initiates cell death via the activation of both apoptotic as well as pyroptotic pathways, mediated by the activation of caspase-3/7 and caspase-1, respectively. H2O2 mediated inflammasome activation results in caspase-1 dependent IL 1β production. However, we show that the final IL-1β release is independent of gasdermin-D (GSDMD) and mainly dependent on the apoptotic cell lysis.
In paper III, we focused on understanding the host metabolic responses to infections with pathogens which cause respiratory diseases. We performed metabolome profiling of in vitro single bacterial and viral as well as co-infections of bronchial epithelial cells with Influenza A virus (IAV), Streptococcus pneumoniae, and Staphylococcus aureus. We show that IAV and S. aureus use the host resources for survival and multiplication and have minimal effects on the host metabolome. In contrast, pneumococci significantly alter various host metabolome pathways, including glycolysis, tricarboxylic acid (TCA) cycle and amino-acid metabolism. A hallmark of pneumococcal infections was the intracellular citrate accumulation, which was directly attributed to the action of pneumococci-derived H2O2.
Host cell death during an infection results in the release of pro-inflammatory cytokines and danger signals such as ATP. Released ATP can induce neutrophil chemotaxis mediated via purinergic signaling. Neutrophils are typically the first leukocytes to be recruited to the site of infection and are key players in bacterial clearance. However, excessive neutrophil activation is associated with further tissue injury. In paper IV, we investigated the role of ATP in neutrophil response to pneumococcal infections. We show that pneumolysin (Ply), a highly effective pore-forming toxin produced by pneumococci, is a potent activator of neutrophils. Microscale Thermophoresis analysis revealed that Ply and ATP bind to each other. Subsequently, ATP binding neutralizes Ply-mediated neutrophil degranulation, suggesting that Ply-ATP interactions are potentially beneficial during the course of the infection as this could limit the lung injury resulting from excessive Ply-mediated neutrophil activation.
Abstract
In this work we investigated immunological mechanisms involved in the onset of PE, a multifactorial pregnancy related disease of global importance. The clinical symptoms range from de novo hypertension, renal and hepatic damage, to IUGR and convulsions (eclampsia). An imbalance between vasospastic and vasodilatory mediators, leading to generalized endothelial dysfunction, is most probable responsible for the onset of the disorder. Autoimmune reactions provoked by the semi-allogen fetus have also been postulated as a possible cause. Preterm delivery is the only curative therapie available.
Our focus was on a subset of B lymphocytes, the CD19+ CD5+ B1-a B cells. These cells belong to the innate immune system and produce natural polyreactive (and possibly autoreactive) antibodies such as AT1-AA but also different cytokines. In the context of PE it has been reported that B1-a B cells in the peripheral blood are augmented. Female sex hormones, pregnancy associated hCG and its isoform h-HCG modulate the immune functions in pregnancy and thus may be involved in the development of PE. Cytokine production patterns of B1-a B cells and the impact of female sex hormones were analyzed.
For our experiments an established mouse model for immunological pregnancy loss (CBA/J x DBA/2J model) was used. Aditionally, isolated human peripheral blood B1-a B cells were used.
In the mouse model we could demonstrate that in vivo transferred B1-a B cells induced deposits in the mothers’ kidneys, correlating with renal damage. Secretion patterns of the cytokines IL10, IFN-γ, TNF-α and IL17 in disturbed pregnancies were altered as measured by FACS or MBAA respectively. Our data revealed an increased expression of anti-inflammatory IL10 in normal pregnant mice.
The activation levels of human and murine B1-a B cells (as recorded by CD69 and CD86 expression) were influenced by female sex hormones in a dose-dependent manner. In humans, recombinant h-HCG had a strong capacity to activate B1-a B cells. PG exerted a comparable effect on murine B1-a B cells.
We provide further evidence for a possible autoimmune component in the pathogenesis of PE. B1-a B cell involvement might include AA secretion as well as cytokine production. H-HCG emerges as a potentially important factor for human B1-a B cell activation in vitro.
The role of cell-penetrating peptides in the induction of T cell responses by virus-like particles
(2023)
Many viral structural proteins can self-assemble into virus-like particles (VLPs). VLPs can serve as an effective vaccine or be used as a vaccine platform. One of these structural proteins is the hepatitis B virus core antigen (HBcAg), which appears to be suitable as an antigen carrier due to its high immunogenicity. HBcAg has a major immunodominant region (MIR) that is presented on the surface of the VLPs after self-assembly. Foreign antigens can be inserted into this region. Since HBcAg VLPs, unlike the Hepatitis B virus (HBV), do not have an envelope, they are not able to penetrate cell membranes efficiently. As an extracellular antigen, HBcAg VLPs primarily induce a strong humoral immune response.
In the present study, we investigated the extent to which HBcAg can be modified to also elicit an enhanced cellular, particularly a cytotoxic, immune response. A cytotoxic CD8+ T cell response is predominantly induced by intracellular antigens. Therefore, our goal was to increase the cell penetration capacity of VLPs. We aimed to achieve this by fusing cell-penetrating peptides (CPPs) to HBcAg. CPPs can spontaneously penetrate cell membranes to enter the cytoplasm of cells. To guarantee that the CCPs were localized to the surface of the VLPs, we fused CPPs to the N-terminus of HBcAg. The CCPs were followed by a tag to allow the purification of VLPs. The T cell epitopes, against which the induced CTL should be directed, were derived from the Large T antigen and inserted into the MIR of HBcAg. Finally, we fused fluorescent proteins to the C-terminus of HBcAg to track the entry of VLPs into cells.
Modifications of HBcAg may lead to reduced stability or altered structure of VLPs. To analyze the stability of VLPs, we used nanoscale differential scanning fluorimetry (nanoDSF) analysis. This revealed that the N-terminal fusion of CPPs or the tag to HBcAg does not reduce VLP stability. However, some peptides incorporated into the MIR had a significant effect on the structure and stability of the VLPs. While the incorporation of a Flag-tag or a peptide from ovalbumin had no negative effect on VLP stability, the incorporation of peptides representing T cell epitopes of Large T antigen interfered with VLP formation. Denaturation and reassembly of the aggregates significantly improved the homogeneity of the VLPs, and the C-terminal addition of arginine-rich domains enhanced stability.
Using live cell imaging and flow cytometry, we demonstrated that HBcAg VLPs functionalized with CPP exhibited up to 40% more efficient penetration into professional antigen-presenting cells (JAWS II) than HBcAg VLPs without CPP. This resulted in the increased presentation of integrated T cell epitopes by dendritic cells. In vivo, we detected significantly increased induction of SV40 Large T antigen-specific CTL in mice immunized with CPP-conjugated VLPs compared to unconjugated VLPs.
In this study, we demonstrated that a stronger cellular immune response can be induced by CPP-functionalized HBcAg VLPs than with the unmodified HBcAg VLPs in vitro as well as in vivo. This discovery may have positive implications for future vaccine development where an enhanced cellular component of the immune response is desirable.
The aim of the study was to develop and evaluate the reliability and agreement of new computer planimetric method for measurement and assessment of plaque on all types of removable dental prostheses RPDs. The instrument (new method) was tested by evaluating the efficacy of the rotating needles device in cleaning specific parts of RPD. From a database containing 780 images, which were taken in a standardized method for 65 RDPs for 49 participants, 55 images were selected randomly for image analysis. Adobe Photoshop software was used according to a standard operating procedure (SOP) by a main examiner two times in different sessions, and 1 time by 3 other examiners. In order to estimate the intra- and inter-examiner reliability, intraclass correlation coefficients ICC(2,1) was used. Three parameters were used to estimate agreement: standard error of measurement (SEM), smallest detectable change at 95% confidence level (SDC95%), and limits of agreement (LoA) according to Bland¨CAltman method. In the database, only 34 subjects were found with double crown retained removable denture and veneer over the secondary crown. 49x2 (before x after) images for 34 RDPs went under image analyses to calculate POP before and after cleaning the RDPs with the rotating needle device. Data were analysed using Wilcoxon signed-rank test. In all steps of image analysis, both intra-examiner and inter- examiner reliability were excellent with ICC(2,1) values > 0.85 at 95% confidence level. Intra- and inter-examiner values for both, SEM and SDC95% were ¡Ü 6% and ¡Ü17% respectively. The Bland¨CAltman analysis revealed a satisfactory level of agreement. POP is significantly more on the veneer than on the base(B-O), P <0.05. The rotating needles device is effective in cleaning the veneer and base(B-O), P <0.05 with absolute effect size 0.62. No statistical significance was detected in the effectiveness of the rotating needles device between base(B-O) and veneer. This study showed an excellent inter- and intra-examiner reproducibility, satisfactory level of examiners agreement, and acceptable measurement error of the new computer planimetric method . Furthermore, the method can be used with all types of RDPs. The rotating needles device can significantly reduce plaque on the double crown retained removable denture. The Computerized Planimetric Method (CPM) is more suitable for clinical researches because of its objectivity, reliability, high level of standardization, and the ability to detect and quantify small changes in plaque. Extra attention should be given to the veneer over the secondary crown as they are a potential part for RDP plaque accumulation.
This thesis draws a comprehensive picture about the radiation and diversification of truncatelloidean gastropods across the south pacific. It covers three more specifc studies focussing on the Truncelloideans from Fiji, Vanuatu and New Caledonia, respectively. And a conclusive analysis that combines the results of the three more specific studies and enhances them using species from the Austral Islands, Lord Howe Island, the Indonesian island Sulawesi as well as several species from New Zealand and Australia. Molecular phylogenies were calculated using four nuclear gene fragments (ITS2; 18S rRNA; 28S rRNA and Histone 3) besides the mitochondrial COI and 16S rRNA. Further molecuular data was used to calculate dated phylogenies, perform ancestral range reconstructions and develop a modified molecular barcoding approach.
Anthropogenic greenhouse gases such as carbon dioxide (C02) must be mitigated and reduced to preserve
a stable climate for future generations. One promising technology is carbon capture and storage (CCS) in
geologic formations, which is currently being deployed in numerous pilot projects across the United
States. One of these is the Illinois Basin–Decatur Project that has successfully stored 1 million metric tons
of C02 in the Mt. Simon storage complex. The Mt. Simon Sandstone reservoir has been largely unexplored
due to a previous lack of economic interest. Oil-bearing formations in the Illinois Basin are in younger
successions and formation waters in the Mt. Simon are highly saline but with low levels of critical elements
(i.e. lithium, magnesium). In the Illinois Basin, a limited number of drill holes penetrate the Mt. Simon
formation with an even smaller number of core samples in these deep strata. This has left the earliest
Paleozoic rocks in the Illinois Basin poorly understood. The stratigraphic test well at the IBDP revealed
the lowest most section of the Mt. Simon to be a thick highly porous and permeable sandstone. With a
near to complete lack of other wells penetrating this lower Mt. Simon unit, major questions arose such as
1) what is the origin of this deep porous sandstone; 2) what controls the distribution of this sandstone
and where can more of it be found; 3) what controls porosity at this depth when overlying sandstones
have largely poor reservoir properties; and 4) is it suitable for geologic carbon storage (i.e. are there high
quality seals that provide secure storage and prevent vertical migration)?
This research examines the origin and diagenesis of the Mt. Simon storage complex by first resolving the
age of the underlying Precambrian basement and investigating basement structures associated with
sediment accommodation (chapter ii). Basement geochronology and a comprehensive investigation of
the Mt. Simon provenance (chapter iii) suggests a largely local sediment supply depositing into a rift basin.
Detrital zircon geochronology of the lower Mt. Simon yields a dominant Mesoproterozoic proximal source
as confirmed in regional basement samples yielding Eastern Granite-Rhyolite, Southern Granite-Rhyolite,
and Mazatzal Province rocks. A small peak of Early Cambrian zircons (527 to 541 Ma) in the lower Mt.
Simon is indicative of rift volcanics as confirmed by the geochronology of a basalt sample recovered in a
deep stratigraphic test hole along the rift axis in west-central Indiana. Failed rifting pre-dated the
formation of the Illinois Basin with the earliest Paleozoic sediments deposited in a northward trending
Cambrian aulacogen. Locally sourced arkose in the lower Mt. Simon is considered to present an
anomalously high porosity that was preserved throughout its diagenetic history. Petrographic
characterization shows the lower Mt. Simon contains abundant diagenetic grain coatings of illite that
prevented pervasive nucleation of authigenic quartz found in the other overlying Mt. Simon units (chapter
iv). These clay coating are considered the most significant feature that controlled porosity preservation
in the Mt. Simon storage complex. Geochronology of these illite coatings reveals two major events of
illitization both of which correspond with structural deformation and igneous activity in and around the
basin in response to regional orogenic events (chapter v). The early illitization event (mostly
Carboniferous) was associated with smectite illitization and potassium feldspar dissolution, which caused
significant secondary porosity. The later illitization event (Triassic) is identified in non-reservoir units of
the Mt. Simon where pore occluding kaolinite was partially illitized. Lastly, high-resolution pore space
characterization of thick pervasive shale formations overlying the Mt. Simon indicates the Eau Claire shale, directly overlying the Mt. Simon, provides the best seal to the Mt. Simon reservoir completing the Mt. Simon storage complex (chapter vi).
Glacitectonic deformation in the Quaternary caused the tectonic framework of large-scale folds and displaced thrust sheets of Maastrichtian (Upper Cretaceous) chalk and Pleistocene glacial deposits in the southwestern Baltic Sea area.
A wide spectrum of methods has been compiled to unravel the structural evolution of the Jasmund Glacitectonic Complex. The analyses of digital elevation models (DEM) suggest a division into two structural sub-complexes – a northern part with morphological ridges striking NW–SE and a southern part with SW–NE trending ridges. Geological cross sections from the eastern coast (southern sub-complex) were constructed and restored using the software Move™ and the complementary module 2D Kinematic Modelling™.
The final geometric model of the southern sub-complex shows a small-scale fold-and-thrust belt. It includes three different orders of architectural surfaces (see PEDERSEN, 2014): erosional surfaces and the décollement (1st order), thrust faults (2nd order), and beds outlining hanging-wall anticlines as well as footwall synclines (3rd order). Thrust faults of the southern structural sub-complex are mainly inclined towards south, which indicates a local glacier push from the S/SE.
The glacitectonic structures have a surface expression in form of sub-parallel ridges and elongated valleys in between. Geomorphological mapping and detailed landform analyses together with the structural investigations provide an insight into the chronology of sub-complexes formation. The northern part of the glacitectonic complex is suggested to have been formed before the southern one, considering the partly truncated northerly ridges and their superimposition by the southern sub-complex.
Although there is a high number of scientific publications on the glacitectonic evolution of Jasmund, these presented models often lack a consistent theory for the development integrating all parts of the 100 km2 large complex. Therefore, the combination of all results leads to a more self-consistent genetic model for the entire Jasmund Glacitectonic Complex.
This work describes the recent scientific and technical achievements obtained at the high-precision Penning trap mass spectrometer SHIPTRAP. The scientific focus of the SHIPTRAP experiment are mass measurements of short-lived nuclides with proton number larger than 100. The masses of these isotopes are usually determined via extrapolations, systematic trends, predictions based on theoretical models or alpha-decay spectroscopy. In several experiments the masses of the isotopes 252-255No and 255,256Lr have been measured directly. With the obtained results the region of enhanced nuclear stability at the deformed shell closure at the neutron number 152 was investigated. Furthermore, the masses have been used to benchmark theoretical mass models. The measured masses were compared selected mass models which revealed differences between few keV/c² up to several MeV/c² depending on the investigated nuclide and model. In order to perform mass measurements on superheavy nuclei with lower production rates, the efficiency of the SHIPTRAP setup needs to be increased. Currently, the efficiency is 2% and mainly limited by the stopping- and extraction efficiency of the buffer gas cell. The stopping and extraction efficiency of the current buffer gas cell is 12%. To this end, a modified version of the buffer gas cell was developed and characterized with 223Ra ion source. Besides a larger stopping volume and a coaxial injection the new buffer gas cell is operated at a temperature of 40K. The operation at cryogenic temperatures increases the cleanliness of the buffer gas. From extraction measurements and simulations an overall efficiency of 62(3)% was determined which results in an increase by a factor of 5 in comparison to the current buffer gas cell. Aside from high-precision mass measurements of heavy radionuclides the mass differences of metastable isobars was measured to identify candidates for the neutrinoless double-electron capture. Neutrinoless double-electron capture can only occur if the neutrino is its own antiparticle and a physics beyond the standard model exists since the neutrinoless double-electron capture violates the conservation of the lepton number. Due to its expected long half-life this decay has not yet been observed. However, the decay rate is resonantly enhanced if mother and daughter nuclide are degenerate in energy. Suitable candidates for the search of the neutrinoless double-electron capture have been identified with mass difference measurements uncertainties of about 100eV/c². In this work the results of the mass difference measurements of 12 possible candidates are presented.
The first part of my work comprises empirical findings and theoretical foundations on stress in its historical development and socio-emotional and behavioural factors.
The first study of my dissertation focuses on the relationship between perceived stress in adolescence, the context variables of perceived helpfulness and competition and socio-emotional and behavioural strengths and difficulties (i.e., emotional problems, symptoms of hyperactivity, problems with peers, prosocial behaviour and conduct problems) from early to middle adolescence. I postulated a moderation or mediation of the effect of perceived stress on socio-emotional and behavioural strengths and difficulties through the two context variables. My hypotheses were tested using a latent moderating structural equation model (moderation analysis) and a multi-group structural equation model taking into account the gender and age of the students (mediation analysis). The theoretical basis of my first study is the transactional stress model by Lazarus and Folkman (1984).
The second study of my dissertation is dedicated to the question whether perceived stress is a moderator in the relationship between depressive symptoms in early adolescence and socio-emotional and behavioural strengths and difficulties in middle adolescence. Based on the cognitive vulnerability-transactional stress theory of Hankin and Abramson (2001), which assumes reciprocal and dynamic relationships between the individual and the environment, I investigated this question and tested the relationships using a latent moderating structural equation model.
The third study of my dissertation is based on Bronfenbrenner’s socio-ecological model (1975). Using a cross-lagged panel design, I investigate the within time and longitudinal relationships between variables of emotional (in-)stability (i.e., depressive symptoms, perceived stress and loneliness) and socio-environmental factors (i.e., sense of belonging, student-student and teacher-student-relationship) from early to middle adolescence.
At the end of my work there is a summary of all results, a discussion and an outlook for future research.
Streptococcus pneumoniae (the pneumococcus) is an opportunistic human pathogen that causes life-threatening diseases including pneumonia, sepsis, meningitis but also non-invasive local infections such as otitis media. Pneumococci have evolved versatile strategies to colonize the upper respiratory tract (URT) of humans. Binding to epithelial surfaces is thereby mediated through direct interactions with host cell receptors or indirectly via binding to components of the extracellular matrix (ECM). However, successful colonization and subsequent infection require S. pneumoniae to cross tissue barriers protected by the immune system of the host. Pneumococci have therefore evolved a wide range of mechanisms to circumvent the antibacterial activity of the immune system such as the acquisition or expression of serine protease activity. Serine protease enzymes have emerged during evolution as one of the most abundant and functionally diverse groups of proteins in eukaryotic and prokaryotic organisms. However, the epithelial barriers, integrins, and other cell surface receptors are often initially inaccessible for pneumococci colonizing the nasopharyngeal cavity. Therefore, pneumococci recruit host-derived extracellular serine proteases such as plasmin(ogen) for extracellular matrix and mucus degradation, which results in enhanced binding to epithelial and endothelial cells. S. pneumoniae expresses four surface-anchored or surface-associated serine proteases depending on the serotype: HtrA, SFP, PrtA, and CbpG. These enzymes belong to the category of trypsin-like or subtilisin-like family proteins, which are characterized by the presence of three-conserved amino acid residues, Ser-His-Asp. The catalytic triads are critical for the cleavage of peptide bonds. Studies focusing on the deletion of single pneumococcal serine proteases are difficult to interpret due to the compensatory effects of the other serine proteases.
Initially, a comprehensive in silico analysis of the distribution and genes organization of pneumococcal serine proteases was carried out in this study. Interestingly, the genes encoding PrtA, HtrA, and CbpG were highly conserved among the 11 analyzed strains. Surprisingly, the gene encoding the subtilisin-like protein SFP was not present in some of the strains and seems to be strain-dependent. Therefore, pneumococci have at least three serine proteases as shown e.g., for serotype 19F_EF3030 strain. Computer-assisted analyses of the structure of pneumococcal serine proteases showed high similarities in the catalytic domains between HtrA and CbpG or between PrtA and SFP in 3D structural models.
The focus of this study lies on the impact of single extracellular pneumococcal serine proteases on pneumococcal pathogenesis during adherence, colonization, virulence and biofilm formation. Therefore, double and triple deletion mutants were generated in the colonizing S. pneumoniae serotype 19F strain EF3030 and the more invasive serotype 4 strain TIGR4, respectively. In adherence studies with human Detroit-562 epithelial cells, we demonstrated that both TIGR4Δcps and 19F_EF3030 mutants without serine proteases or expressing only CbpG, HtrA, or PrtA have a reduced ability to adhere to Detroit-562 cells. In a mouse colonization model, the inactivation of serine proteases in strain 19F_EF3030 strongly reduced nasopharyngeal colonization in CD-1 mice. The bacterial load in the nasopharynx was thereby monitored for a period of 14 days. Mutant strains showed significantly lower bacterial numbers in the nasopharynx on days 2, 3, 7, and 14 post-inoculations.
Following up on pneumococcal pathogenesis, an in vivo acute pneumonia mouse infection model and in vitro phagocytosis was used to analyze the impact of single serine proteases during infection and phagocytosis. Mice were intranasally infected with the bioluminescent TIGR4lux wild-type or isogenic triple mutants expressing only CbpG, HtrA, PrtA, or SFP. The acute lung infection was monitored in real-time by using an IVIS®-Spectrum in vivo imaging system. The TIGR4lux mutant expressing only PrtA showed a significant attenuation and was less virulent in the acute pneumonia model. Phagocytosis assays were conducted using murine J77A.1 macrophages. The number of triple serine protease mutants internalized by macrophages were significantly reduced in comparison to the isogenic wild-type.
Finally, two different experimental biofilm models were used to study the influence of serine proteases on biofilm formation grown on an abiotic surface (glass) and a biological surface. Biofilm development on living epithelial cells was stronger after 48 and 72h than on the glass surface. On epithelial substratum, the serine protease mutant with only CbpG+ showed higher and denser biofilm development after 48h and 72h of incubation compared to the parental strains and other serine protease mutants. Moreover, the bacterial dispersal from biofilms was significantly more in the mutant strains lacking serine proteases than in the wild type.
In conclusion, nasopharyngeal colonization is a prerequisite for invasive diseases and transmission. Pneumococcal serine proteases are indispensable for nasopharyngeal colonization and facilitate access to eukaryotic cell-surface receptors by the cleavage of ECM proteins. Thus, serine proteases could be promising candidates for developing antimicrobials to reduce pneumococcal colonization and transmission.
The influence of regulatory proteins on the physiology and virulence of Streptococcus pneumoniae
(2015)
In conclusion, this work identifies the regulator ArgR2 as activator of the S. pneumoniae TIGR4 arginine deiminase system and arginine-ornithine transporter ArcD, which is needed for uptake of the essential amino acid arginine. Although ArgR2 activates ArcD expression and uptake of arginine is required to maintain pneumococcal fitness, the deficiency of ArgR2 increases TIGR4 virulence under in vivo conditions, suggesting that other factors regulated by ArgR2 counterbalance the reduced uptake of arginine by ArcD. Thus this works illustrates that the physiological homeostasis of pneumococci is complex and that ArgR2 plays a key role in maintaining bacterial fitness. Moreover, Rex was identified as a regulator of housekeeping genes including genes encoding glycolytic enzymes. In vitro studies and gene expression analyses suggested that the regulator Rex does not have an influence on the physiology of S. pneumoniae. However, a co-infection experiment demonstrated that Rex is involved in maintaining pneumococcal fitness and robustness under in vivo conditions.
Can established parties influence the electoral success of new parties? To answer this research question, the author examined the relationships of 168 new parties in 18 highly developed democracies with their established competitors based on their respective election programmes and election results. His analysis of the textual similarity of these election manifestos shows that established parties can influence their competitors' election results by selectively changing the emphasis of their policies. However, competition among the parties must also be taken into account. This study thus contributes to a better understanding of the dynamics of party competition and the opportunities offered by computer-assisted textual analysis in the social sciences.
The present work examines the decision-making process of clinicians and managers in terms of pricing. This dissertation attempts to make often unconscious processes in both the clinical and economic areas more transparent. Due to this increase in transparency and an illustration of the overall decision-making process, a prioritization of the decision-drivers is enabled. Similarily, overall decision-making on stakeholder level is improved. The findings of this work are based on a dual sample: The paper primarily combines qualitative expert discussions in the clinical field with a quantitative manager survey. Therefore, the advancement of knowledge is specifically furthered in terms of pricing decision-making, as well as specific economic and thematic aspects. These form the basis for clinical/managerial decision-making. Since such specific understanding enables better acting and reacting during the negotiation processs, clients of medical device companies (eg clinics) could additionally benefit from improved understanding. Although the focus of this work rests on the clinical area, this paper also examines how companies of the medical technology industry could offer more economic medical products by means of using the instrument of pricing. Based on an interdisciplinary approach and a collection of primary data, this work also discusses a solution approach for corporate/entrepreneurial inefficiencies discovered in this paper. A final conceptual model illustrates different value allocations from both stakeholder groups (clinicians vs. managers). With regard to the research focus, the conceptual model is understood as a holistic solution for recognizing and correcting business gaps in the areas of knowledge transfer, innovation, knowledge of markets and standardization of processes.
Psychiatric disorders are highly heritable. But the underlying molecular mechanisms are largely unknown or not understood. For many disorders, candidate genes have been proposed which are biologically driven or based on large GWAS studies. In this work different approaches were shown to investigate the impact of genetic risk factors for major psychiatric disorders in the general population. These genetic risk variants include single nucleotide polymorphisms associated with schizophrenia or major depression and were analyzed using the whole-genome information in polygenic scores or candidate marker analysis in GxE studies. Genetic data from SHIP-0 and SHIP-TREND have been used to calculate a polygenic risk score for schizophrenia. Here, the association between this genetic score and brain alterations is shown in three independent samples (SHIP-2, SHIP-TREND and BIG) which revealed no hint of a common genetic basis for schizophrenia and brain structure. These results are in line with other studies that also failed to find a genetic overlap. The same polygenic scores had been used in a PHEWAS analysis in SHIP-0 where an inverse association to migraine was found. This association could be attributed to the NMDA receptor activation via D-serine at the glutamatergic synapse. To assess the impact of environmental factors on the path from genes to phenotype, gene-environment interactions were applied. A significant interaction could be observed between rs7305115 (TPH2) and rs25531 (5-HTTLPR) and childhood abuse on current depression score in SHIP-LEGEND and SHIP-TREND. In summary, genetic variants associated with major psychiatric disorders can exhibit pleiotropic effects on common phenotypes in the general population.
Cardiovascular diseases are the most common cause of death in industrial nations. The basis of these diseases is a dysfunction in the interaction between the cells the heart is composed of. The main types of cells making up the human heart are cardiomyocytes that build the myocardium and provide the contraction properties, endothelial cells that delimit the blood flowing through the inner chambers and coronary arteries from the myocardial tissue, and fibroblasts, which build the connective tissue. A common process in the development of cardiovascular diseases is the formation of fibrosis due to injury of the endothelium and subsequent infiltration of the cardiac tissue by immune cells, and inflammatory agents like cytokines. Cytokines exert different functions in cardiac cells. Tumor necrosis factor α (TNFα) is an inducer of apoptosis. Transforming growth factor ß (TGFß) is known for activation of proliferation. Other cytokines like C-X-C motif chemokine 11 (CXCL11), interleukin-6 (IL-6), or brain-derived neurotrophic factor (BDNF) have not yet been investigated or their impact on such cells is unknown. Eventually, however, fibrotic scar tissue arises from the transition from fibroblasts to myofibroblasts leading to a stiffening of the cardiac muscle and impaired pump function. In order to prevent the occurrence of these events the balance of proliferation, migration, and differentiation of cardiac cells needs to be controlled very delicately.
The mechanisms controlling these interactions are still not well understood, which is why this work aimed at the elucidation of molecular mechanisms within the three main cell types that might play a role in the regulation of cardiac function. A proteomic approach using mass spectrometry was used to identify alterations in protein levels that could provide hints about the involved pathways and find new players as candidates for more detailed investigation. Initially, the proteomic composition of HL-1 cardiomyocytes, L929 fibroblasts, and human umbilical vein endothelial cells (HUVECs) that were cultivated in standard growth conditions without stress was investigated. Half of the total protein intensity was made up by only 42 to 53 proteins, depending on the cell type. More than a third of all proteins were identified in all three cell types, which may be proteins performing common cell functions. Indeed, the proteins displaying the highest abundance seem to be predominantly involved in such common cellular functions as the regulation of glucose metabolism or the cytoskeleton. More specific functions like heart development and muscle contraction were found enriched in cardiomyocytes as were mitochondrial proteins. The proportion of proteins with extracellular localization and function was higher in fibroblasts and endothelial cells.
Secondly, the impact of cytokines on the proliferative behavior and the proteomic composition of cardiomyocytes and fibroblasts was analyzed. HL-1 cardiomyocytes and L929 fibroblasts were treated with different concentrations of cytokines with a cytotoxic, proliferative, or yet unknown effect on these cells. While HL-1 cells exhibited no macroscopic reaction to any of the cytokines used, cytotoxic/growth inhibitory (TNFα, CXCL11) and proliferative (TGFß, IL6, BDNF) effects were observed for L929 cells. The latter also showed CXCL11-induced upregulated EIF2 signaling, pointing to a higher need of protein synthesis.
The third aim was the examination of proteome adaptations in endothelial cells due to different kinds of stress, as these cells are the first line of defense against inflammatory agents or injury and therefore prone to wounding. The role of the growth factors vascular endothelial growth factor (VEGF) and basic fibroblast growth factor (bFGF) in wounding and starvation was another object of this study as they are known for their angiogenic and cell survival supporting properties. Additionally, the impact of the cellular sex on the response to stress and growth factors was examined, because a person’s sex plays an important role in susceptibility, risk factors, and outcome of cardiovascular diseases. This has mainly been attributed to the different hormone levels, especially the higher levels of estrogen in premenopausal women, which exerts cardioprotective properties, but also genetic background was reported to play an important role. Only few studies that examined the molecular properties of HUVECs considered the cellular sex and if so, the genetic bias of unrelated samples was not taken into account. This is why Lorenz and colleagues at the Charité in Berlin collected HUVECs from newborn twins of opposite sex, cultivated them without stress in standard growth medium, exposed them to wounding and serum starvation, and investigated the impact of the growth factors and the sex on migrational behavior and metabolic issues. The current work focused on the alterations of not only the intra- but also the extracellular proteome, because paracrine signaling is crucial for intercellular communication in order to cope with stress. General differences between male and female cells were observed for proteins encoded on the X chromosome with higher levels in females (DDX3X, UBA1, EIF1AX, RPS4X, HDHD1), except for one protein with higher levels in male cells (G6PD). A Y-chromosomal protein was, for the first time, identified in endothelial cells (DDX3Y). Wounding, starvation, and growth factor treatment led to alterations and sex-specific different levels in an unexpectedly high number of proteins, with VEGF showing a stronger impact than bFGF. Many proteins with alterations observed without taking the sex into account, were actually only changed in male or female cells. Some proteins were regulated in opposite directions, or growth factors inhibited their secretion in a sex-specific way by unknown mechanisms. Tissue factor pathway inhibitor 2 (TFPI2) should be emphasized as a protein with sex-specific differences, especially in the extracellular space and with increased levels after starvation and VEGF treatment. These observations suggest a temporal lack in TFPI2 synthesis and secretion in male cells, which might explain the enhanced adaptation of females to wounding.
The results of this work lay the basis for future investigation by providing a database of intra- and extracellular proteome changes due to different environmental circumstances. It strongly suggests the investigation of male and female HUVECs, and other cells, separately to avoid the impact of the sex observed in this work. Essentially, the observations suggest a number of candidate proteins for more detailed investigations of endothelial and cardiovascular diseases.
The human antibody response to experimental colonization with Staphylococcus aureus NCTC8325-4
(2008)
The four main work packages and their most important results are briefly described as following. 1. Characterization of the extracellular proteome of S. aureus NCTC8325-4 Reference maps of the extracellular proteins of S. aureus NCTC8325-4 were produced at pH ranges 6-11 and 4-7. In total, 119 (pH 6-11) and 177 (pH 4-7) protein spots were identified, corresponding to 48 and 114 proteins, respectively. Among them were many well-known virulence factors such as alpha-hemolysin (Hla), beta-hemolysin Hlb, gamma-hemolysin subunits (HlgA-C), hyaluronate lyase (HysA) and staphylococcal superantigen-like protein 11 (Ssl11). We also detected various extracellular enzymes, which can cause tissue degradation and are involved in nutrient acquisition, for example, autolysin (Atl), glycerol ester hydrolase (Geh), lipase (Lip), thermonuclease (Nuc), several serine proteases SplA-F (SplA-F), V8 protease (SspA), cysteine protease (SspB), staphopain thiol proteinase (88195808, SspP). Many of these proteins probably also contribute to the virulence of S. aureus. 2. Optimization of a 2-D immunoblot (IB) method for the comprehensive investigation of IgG binding to S. aureus extracellular proteins (strain NCTC8325-4) The immune proteome of S. aureus NCTC8325-4 was revealed by probing 2-D blots of S. aureus extracellular proteins at the two pH ranges 6-11 and 4-7 with a pool of sera from 16 volunteers. IgG binding was detected with high sensitivity using a peroxidase-coupled secondary Ab in combination with an ECL-substrate. With application of the software package Delta2D, we could clearly define 66 immune reactive spots on the immunoblots (IBs) of pH range 6-11 and 38 spots on IBs of pH range 4-7. 72 of these 104 immune reactive spots could be identified by matching the IBs with the protein reference maps. These spots represented 36 identified proteins, many of which are known virulence factors, or they are involved in bacterial cell wall biosynthesis and degradation. Generally, the most abundant proteins were also highly immune reactive, but there was no strict correlation between protein abundance and immune reactivity. Some low abundance proteins, especially basic proteins, showed high immune reactivity on 2-D IBs, for example, Atl, 88195808 (SspP) and iron-regulated surface determinant protein A (IsdA). On the other hand, we observed proteins, which were present in large amounts but did not bind IgG such as peptidoglycan hydrolase (LytM) and a hypothetical protein 88193909 (SAOUHSC_00094). 3. Determination of the anti-staphylococcal Ab profiles of S. aureus carriers and noncarriers Comparing the serum IgG binding patterns of sera from the 16 individual volunteers, we observed pronounced heterogeneity in total IgG binding, spot patterns and spot intensities. Five spots were stronger in carriers than in noncarriers (P< 0.05, Mann-Whitney U test). These spots represent IgG binding to SspA, SspB, IsaA, and two hypothetical proteins. A principal component analysis based on differential IgG binding to these spots showed that the carriers were more closely related to each other than the noncarriers, but that they could not be clearly separated from the noncarriers. 4. Does experimental colonization induce changes of the anti-staphylococcal Ab profiles? Finally, we tested whether symptom-free experimental colonization of the 16 volunteers with S. aureus NCTC8325-4 elicited an IgG response. When we compared sera obtained before colonization with those taken 4 weeks after the inoculation with the laboratory S. aureus strain, we did not observe major changes in the Ab patterns. We conclude that short- term colonization with a strain of low virulence does not suffice to induce an Ab production, which is comparable to that present already before the colonization. Thus, either long term high density colonization is required, or as we consider most likely, the adaptive immune response is primarily triggered by (minor) S. aureus infections. Taken together, in this work we have separated the soluble proteins from complex extracellular S. aureus protein extracts with good reproducibility, large coverage (pH 6-11 and 4-7) and high resolution. With application of an ECL substrate, our 2-D immunoblotting procedure resulted in the highly sensitive detection of IgG binding over a wide range of signal intensities. The most important finding with this technique was the pronounced variability of anti-staphylococcal Ab profiles in healthy adults. This could well explain differences in susceptibility to S. aureus infection and its complications. The Ab responses are presumably triggered by long-term colonization or, more likely, by minor infections with S. aureus, since experimental nasal colonization of healthy volunteers with a bacterial strain of low virulence did not induce impressive changes in the Ab profiles.
The Black Sea experienced fundamental environmental changes during the last glacial-interglacial transitions. During the last 670,000 years, the Black Sea was at least twelve times connected to Mediterranean Sea, received saltwater via the Bosporus strait, and evolved to a brackish anoxic water body. A lowered global sea level during glacials caused isolation of the basin from the open ocean, and the Black Sea became limnic and well-oxygenated. The last glacial-interglacial history of the Black Sea is relatively well understood and demonstrates the high sensitivity of this basin to global climate and environmental changes. Previous studies particularly focussed on the evolution during the last glacial with meltwater pulses, warming during the glacial-interglacial transition, and the development from a ventilated lake to the present euxinic/brackish water body. Apart from the interglacial warming, the Black Sea sediments clearly recorded short-term abrupt temperature changes associated with cooling during Heinrich events and the Younger Dryas as well the Bølling-Allerød warming, which occurred over the northern hemisphere. However, our knowledge about the Black Sea history before 40,000 BP is comparatively poor even though crucial for understanding hemisphere-wide atmospheric teleconnection patterns and climate mechanisms during older glacials and interglacials. A multiproxy approach has been applied on three gravity cores and surface sediment from the southeastern Black Sea comprising ostracod geochemistry (Mg/Ca, Sr/Ca, U/Ca, 87Sr/86Sr), major and trace elements (Al, Ca, Fe, K, Ti, Mo, Re, Sr, W, Zr) and organic biomarkers (n-alkanes, alkenones, UK’37-palaeotemperatures, glycerol dialkyl glycerol tetraethers, TEX86-palaeotemperatures, BIT-index). The cores cover the last 134,000 a and provide new findings concerning the last and penultimate glacial-interglacial transitions (12,000- 0 a BP; 134,000-120,000 a BP) as well as the abrupt climate changes during the last glacial period (64,000-20,000 a BP). The major topics of this work are i) the penultimate glacial-interglacial transition (Saalian-Eemian), ii) the environmental conditions in the Black Sea “Lake” during abrupt climate oscillations of the last glacial period, iii) and the comparison of the redox evolution during Eemian and Holocene sapropel formation. Two meltwater pulses caused a pronounced freshening of the Black Sea “Lake” during the ending penultimate glacial, which originated from the melting Fennoscandian Ice Sheet. Due to unusually high radiogenic Sr-isotope signatures of benthic ostracods, a potential Himalayan source communicated via the Caspian Sea is also likely. During the glacial-interglacial transition the temperatures in the Black Sea increased from 9°C to 17°C and the associated global sea-level rise allowed the reconnection between the Mediterranean and Black Seas around 128,000 a BP. Eemian sapropel formation started shortly after the intrusion of saltwater and the water body became gradually euxinic. In comparison with the Holocene sapropel, the Eemian proxy records imply warmer and stronger euxinic conditions and distinctly higher enrichments of redox-sensitive trace elements like e.g. Mo, Re, and W. Because the seawater forms the ultimate source for several trace metals, these enrichments were most likely favoured by the higher salinity due to a ca. 10 m higher sea level and enhanced Mediterranean Sea - Black Sea water exchange. Based on biomarker analyses, lake surface temperatures could be calculated for the first time for the period between 64,000 and 20,000 a BP, which includes the Marine Isotope Stage (MIS) 3. Abrupt stadial/interstadial temperature changes with amplitudes of up to 4°C in the Black Sea “Lake” clearly resemble the Greenland Dansgaard-Oeschger pattern. However, an exceptional cooling during the so-called Heinrich events is not evident from our cores. This finding agrees with modelling results proposing a deeper penetration of regular Dansgaard-Oeschger cycles into the Eurasian continent when compared with the Heinrich events. During the warm and more humid interstadials, the Black Sea “Lake” became fresher and more productive and the water level probably increased. During the colder and more arid stadials the freshwater supply was decreased and productivity was low. Aridity and stronger westerly winds favoured the input of aeolian transported detritus. The long-term pattern from 64,000 to 20,000 a BP demonstrates a strong influence of orbital-driven changes in the Eurasian ice volume and associated atmospheric circulation patterns over the Black Sea region. The present multi-proxy study demonstrates that the sediments from the SE Black Sea clearly record not only orbital- but also millennial-scale climate and environmental changes and thus represent an important continental archive for climate change bridging the North Atlantic-Eurasian corridor.
The key objective of this dissertation is to study the expected impact of the introduction of the Social Health Insurance (SHI) on the public hospital management and to develop recommendations that will improve this management. In addition to the key objective, this study aims to analyze the health sector financing in Syria, to outline problems affecting on management of public hospitals in Syria. Furthermore, it aims to study the various countries' experience with SHI and analyze key components of the Syrian SHI.
Enzymes are well-known for being remarkably selective catalysts. They are often able to catalyse reactions for certain molecules while leaving other similar molecules completely unchanged. Nevertheless, many enzymes are capable of catalysing other reactions and/or transforming other substrates than their physiologically relevant activities. This phenomenon is referred to as enzyme promiscuity and it is thought to play an important role in the emergence of novel functions by providing a starting point for divergent evolution towards different enzymatic activities. It is important for enzymes to be selective to avoid harmful side-products and increase reaction efficiency, but often catalysts are not optimised beyond what is required for their function. Life profits from the cross-reactivity and enzyme promiscuity through accidental discovery of new helpful molecules and pathways, while using regulation to quickly adapt to changing circumstances.
Enzymes are grouped together with other similar proteins into structural families and superfamilies. Members of a structural family share significant structural elements and often have similar catalytic mechanisms. However, they often catalyse very different chemical reactions and accept a variety of different substrates. Promiscuous activities are common within superfamilies, where the primary function of one family member is often found as promiscuous activity in other family members. Together with the structural similarities, this prevalent cross-reactivity suggests a common evolutionary origin. One of the largest structural superfamilies is the α/β-hydrolase-fold family. Despite sharing a highly conserved core structure, this superfamily is catalytically diverse and spans several distinct enzyme classes including hydrolases, acyltransferases, oxidoreductases, lyases, and isomerases. Epoxide hydrolases and dehalogenases of the α/β-hydrolase-fold family even share the same Asp/Glu-His-Asp catalytic triad and form similar covalent alkyl-enzyme reaction intermediates, yet they are known for attacking either epoxides or C-X bonds with perfect chemoselectivity. Although promiscuity is often observed within the α/β-hydrolase fold family and despite their mechanistic similarities, no α/β-hydrolases were known that exhibit both epoxide hydrolase and dehalogenase activity simultaneously.
The versatility of the catalytic triads used by α/β-hydrolases makes these enzymes attractive targets for the conversion of catalytic activity through protein engineering. Several attempts were made to introduce dehalogenase activity in an epoxide hydrolase, and after several rounds of designing and screening different variants of the epoxide hydrolase PaeCIF from Pseudomonas aeruginosa, minor dehalogenase activity was detected for some of the variants. However, despite promising first results it proved extremely difficult to reliably reproduce the results, primarily due to expression problems and low sensitivity of the halide detection assays that were available at the time. Since the conversion proved to be more difficult than expected (unpublished data), it was decided to investigate other potential protein scaffolds.
Considering the prevalence of catalytic promiscuity among members of the α/β-hydrolase-fold superfamily, and the close relationship and catalytic similarities between epoxide hydrolases and dehalogenases, it seemed odd that no enzyme is known to have both epoxide hydrolase and dehalogenase activity. We argued that it is highly probable that a promiscuous epoxide hydrolase-dehalogenase enzyme exists, but it simply has not been found yet due to the absence of sensitive high-throughput halide assays and not screening the right set of enzymes. Although several established assays were available for the determination of dehalogenase activity, these assays suffer major drawbacks. For example, one of the most popular assays, the Iwasaki assay, is not very sensitive and uses extremely toxic chemicals, while pH assays like the phenol red assay are inherently unreliable and insensitive due to the low buffer concentrations employed107,114. Thus, a new assay for the screening of dehalogenase activity through the selective detection of halides was developed115. The halide oxidation assay provides a safer, more reliable, and most importantly, much more sensitive method to detect dehalogenase activity.
Using molecular phylogenetics, we studied the evolutionary relationship between epoxide hydrolases and dehalogenases to identify interesting extant epoxide hydrolases. Molecular phylogenetics uses a multiple sequence alignment of the amino acid or nucleotide sequences of extant enzymes to construct a phylogenetic tree. At first, we tried using a large dataset with almost 3,500 putative epoxide hydrolase and dehalogenase sequences, but we quickly realised the resulting phylogenetic tree was impractical. Most of the sequences in this large dataset were not characterised experimentally but annotated automatically based on their sequence similarity to a rather limited number of characterised sequences. Although automated annotations can be used as predictions for catalytic activity, they are often wrong. As we were particularly interested in the interface of both epoxide hydrolase and dehalogenase activities, we needed more certainty and a change in direction was necessary.
Instead of trying to filter the α/β-hydrolase fold database, experimentally characterised sequences were collected through literature research. This smaller dataset consisting of characterised sequences resulted in a phylogenetic tree containing 45 epoxide hydrolases, 30 haloalkane dehalogenases and 7 haloacetate dehalogenases from a variety of different organisms. Ancestral sequence reconstruction was attempted for several interesting nodes in this phylogenetic tree. By combining the multiple sequence alignment, the evolutionary relationships from the phylogenetic tree, and evolutionary models, a hypothetical sequence of the theoretical ancestor can be determined. Unfortunately, it was difficult to get good soluble protein expression with the ancestral sequences and despite our best efforts it was not possible to obtain reliable and reproducible screening results. Instead of trying to improve protein expression and purification protocols for the ancestral sequences, we decided to focus on screening extant sequences with the newly developed halide oxidation assay to find a promiscuous epoxide hydrolase-dehalogenase.
In addition to reconstructing ancestral sequences, eight extant epoxide hydrolases could be selected for screening towards dehalogenase activity and as promising potential engineering scaffolds from this phylogenetic tree. The eight selected epoxide hydrolases were screened for dehalogenase activity with several haloalkane substrates and the epoxide hydrolase CorEH from Corynebacterium sp. C12 was found to exhibit promiscuous dehalogenase activity. Interestingly, the measured concentrations of bromide for the initial hit with CorEH were only 150-250 nM, well below the lowest detection limit of 20 µM achievable in microtiter plate format with the Iwasaki assay. This means that the dehalogenase activity of CorEH would probably not have been detected were it not for the development of the sensitive halide oxidation assay.
CorEH is an epoxide hydrolase that can also catalyse the dehalogenation of haloalkanes, particularly bromoalkanes such as 1-bromobutane and 1-bromohexane. The dehalogenase activity of wild-type CorEH with 1-bromobutane (0.25 nmol·min-1·mg-1) is about 4,000-fold lower than the average activity of several natural dehalogenases with two halide-stabilising residues (1 μmol·min-1·mg-1) and approximately 400-fold lower compared to the dehalogenases with a single halide-stabilising residue. The crystal structure of CorEH was determined to 2.2 Å. Our structure-function studies suggest that the dehalogenase activity of CorEH probably stems from the presence of at least one halide-stabilising residue. Unfortunately, this could not be confirmed experimentally via mutagenesis as the W100A variant lost both the dehalogenase and epoxide hydrolase activity in equal measure, making it difficult to demonstrate that W100 is involved in halide stabilisation. The loss of both activities for variant W100A can possibly be explained by the secondary function of the tryptophan; removal of W100 might lead to the incorrect positioning of the catalytic nucleophile for the nucleophilic attack involved in both epoxide hydrolysis and dehalogenation. Nevertheless, computational modelling of Michaelis-Menten complexes, utilising the crystal structure of CorEH, supports the hypothesis that the tryptophan W100 is involved in halide stabilisation in CorEH. Based on docking studies, the epoxide ring-opening tyrosine is also close enough to form hydrogen bonds to stabilise the substrate. However, it is also possible that like several characterised haloalkane dehalogenases, CorEH only uses a single residue to stabilise the halide. Removal of the tryptophan at the primary halide-stabilising position resulted in the loss of both activities, likely due to the loss of its secondary function to properly position the catalytic nucleophile. Substitution of the uncommon tryptophan in the HGxP-motif with phenylalanine does not completely remove the dehalogenase activity. Nevertheless, it causes a significant drop in both haloalkane dehalogenase and epoxide hydrolase activities, indicating that this residue is important for catalysis or the structural integrity of CorEH.
Enzyme promiscuity plays an important role in enzyme evolution and the diversification of enzymes. Several researchers have attempted to interconvert epoxide hydrolase and dehalogenase activity, or to find an enzyme with both activities, without success. It would be hard to maintain the view that promiscuity is a fundamental property crucial to enzyme evolution if we could not observe promiscuity between two enzyme classes with such similar reaction mechanisms. Our findings show that dual epoxide hydrolase and dehalogenase activity can occur in one natural protein scaffold. We believe that we succeeded because we used a phylogenetic analysis of characterised sequences to select the right subset of epoxide hydrolases to investigate and due to the much more sensitive halide assays not available to those before us. The versatility of the catalytic triad in α/β-hydrolases combined with the variety of possible supporting residues found in both epoxide hydrolases and dehalogenases shows that catalytic mechanisms can be flexible. This flexibility allows space for diversification of catalytic residues without loss of function, giving rise to novel (promiscuous) functions and new cross-reactivities.
Medical doctors sometimes make diagnoses in persons who are not their patients and who did not ask for their medical opinion, e.g., when an off-duty dermatologist diagnoses melanoma in a stranger, outside of the hospital setting. These diagnoses are referred to as unsolicited medical opinions.
The unsolicited medical opinion raises several ethical questions. Most importantly, it poses a moral challenge for the physician: a possible disease, which may lead to a serious loss of health, is recognised in a person who is not the physician’s patient, outside of the formal medical context. The fundamental ethical question addressed in this dissertation is: Does a medical doctor who makes a clinical diagnosis in a stranger, outside of the formal medical context, have an ethical obligation to offer an unsolicited medical opinion?
This ethical question involves some related questions: If physicians do have an ethical obligation to offer an unsolicited medical opinion, are there any limiting factors to this obligation, which would justify not acting? A more practical question is also raised: How should a physician approach the person in whom an unsolicited diagnosis is made?
The cumulative dissertation is based on three publications addressing the unsolicited medical opinion. Firstly, the unsolicited medical opinion is explored from the perspective of utilitarianism, and a utilitarian argument is made in favour of offering an unsolicited medical opinion. Secondly, the topic is placed in the context of the existing scientific literature and analysed from the perspective of several ethical theories: virtue ethics, care ethics, principlism and contract theory. Lastly, the unsolicited medical opinion is discussed in the context of “medically unknown symptoms”. As in the central argument of this thesis, a utilitarian principle is applied and an argument made in favour of an unsolicited mental health diagnosis.
The need for the diversification of utilised species has emerged in the present aquaculture
production environment. Shifts in consumer interest, climate change-induced temperature
increases, and major fish disease outbreaks have put a strain on this industry. In this context,
the pikeperch (Sander lucioperca) has become a new target species for aquaculture in Central
Europe. This new aquaculture focus species exhibits high numbers of offspring, fast growth,
and high consumer acceptance. It can also effectively deal with higher temperatures and turbid
water. However, the rate of successful rearing is still low, as various developmental
transformations and environmental effects commonly lead to high mortality rates during the
early ontogenetic stages. The aim of this doctoral project was thus to obtain insight into
embryonic to larval developmental changes during pikeperch ontogeny. Specifically, the times
of change that influence survival were of focus. Based on the available literature, particular
attention was paid to general growth patterns and the connected developmental changes, the
determination of myogenesis gene marker expression changes, and the support of animal
welfare efforts for pikeperch rearing procedures. To achieve the aims of the study, a methodical
setup consisting of morphometric and developmental observations was combined with
transcriptome gene marker analysis for the different ontogenetic stages.
Three developmental phases were differentiated during the embryo-larval transition. Each of
these possessed distinct growth patterns with different growth rates. The intermediate
threshold phase showed internal organ development that focused on digestive, neuronal, and
heart tissues. Three activity phases of myogenesis were determined: during early embryonic
development, before hatching, and after hatching during the larval stages. Therefore, muscle
development seemed to be regulated to balance energy expenditures. Additionally, two
coinciding skeletogenic phases were found. Furthermore, a cell line from whole embryos was
developed to support the replacement of animals in future experimental setups. A software
system for video analyses was developed to support rearing procedures in aquaculture
facilities. This prototype can be used to automate the counting of specimens and thus allows
for faster responses to increasing mortalities. Based on the results of this thesis project, further
insights into the early development of pikeperches were obtained. This will facilitate the design
and adaptation of raising and husbandry protocols, which can help to further establish
pikeperch as an aquaculture species and support its application in modern recirculatory
systems.
The Effect of the Patients Nutritional Status on Immune Alterations Induced by Ischemic Stroke
(2018)
Ischemic stroke is one of the leading causes of death and disability throughout the world.
One important aspect of stroke pathophysiology are immunological changes after stroke, especially a combination of post stroke immunodepression, leading to
infectious complications after stroke and an activation of the immune system, leading to cerebral injury. Adipose tissue has several immunological functions and obesity
leads to immunological complications and is accompanied by a chronic immune activation.
To study the effects of body weight and obesity on the immune system and measure weight and fat tissue changes after ischemic stroke we conducted the LIPS Trial and enrolled 50 stroke patients and 16 control subjects between July 2015 and July 2016. On the day of admission and on the days 1, 2, 3, 4, 5, 7, 30, 90 and 180 after admission stroke patients were weighed with an in-bed scale, body composition was measured with BIA, the triceps-skin fold thickness was measured, the NIHSS scale was obtained and blood was drawn. FACS-analysis was performed and triglycerides,cholesterol, CRP and PCT were measured at the central laboratory facility of the Universitätsmedizin Greifswald. Luminex-multiplex analysis for multiple cyto- and chemokines was performed at the Multiplex Facility at the University Leiden. A cerebral MRI and an abdominal MRI were performed shortly after admission and on days 5-7 for most patients and the infarct volume, abdominal fat and hepatic fat percentage were measured. On days 30, 90 and 180 after stroke Bartel Index and mRS were obtained.
After stroke our patients showed the typical immunological changes described previously as stroke induced immune alterations, namely a post stroke immunodepression as well as signs of an activated immune system and an acute
phase response. Our patients lost weight, but only 1.7 ± 0.5 kg. Skinfold thickness did not change during the course of our trial and abdominal fat measurement did not change in stroke patients. Immunological parameters (leukocytes, neutrophils,CRP, PCT, IL-6) did not differ between BMI subgroups (normal weight: BMI < 25,overweight: BMI ≥ 25, < 30, obese: BMI ≥ 30) and in this trial we could not detect a
difference in patients with normal weight, overweight or obesity in the post stroke periode. In an additional analysis we could show that rapid clinical improvement
did result in a rapid improvement of post stroke immune alterations, especially for leukocytes, neutrophils, IL-6 and CRP.
The effect of interdental cleaning on progression of caries, periodontitis and tooth loss is a highly discussed topic in dental research since these conditions are among the most common infectious diseases of mankind. Caries is a multifactorial disease defined by a demineralization process of the dental hard tissue, caused by bacteria, which, if untreated ultimately results in tooth decay and tooth loss. A study published in 2015 confirmed that untreated caries in permanent teeth is still the most prevalent condition worldwide. Gingivitis, an acute inflammation of the gingival tissue, caused by substances deduced from the microbial plaque can develop into the clinical picture of an acute periodontitis. Severe periodontitis is still the sixth-most prevalent condition globally with a prevalence of 11.2% between 1990-2010. Progression of periodontitis leads to bone loss which as well ultimately results in tooth loss, if left untreated. In our study we want to examine the use of IDA in relation to caries and periodontal diseases, thus tooth retention to gain more detailed and long-term results about the effect of IDA and therefore prevent, counteract and understand these oral diseases better.
Using data from SHIP-TREND, a population-based observational cohort study conducted in Western Pomerania (Germany), we examined effects of daily usage of interdental cleaning aids on follow-up (SHIP-TREND-1) values of oral outcomes comprising caries (DFS, interdental DFS, non-interdental-DFS), gingivitis (plaque, BOP), chronic periodontitis (mean PD, mean interdental PD, mean non-interdental PD, mean CAL, mean interdental CAL, mean non-interdental CAL, CDC/APP case definition) and tooth loss (number of missing teeth) using comprehensively adjusted linear and ordinal logistic regression models. In total, data from over 2,000 participants with a follow-up time of approximately seven years were utilized. Based on interviews, participants were asked about their habit and the regularity of using interdental aids as a cleaning aid at home. Furthermore, the type of IDA was then analyzed and differentiated into groups of IDA non-users, wooden stick users, floss users and interdental brush users.
Regular interdental aids usage was associated with reduced levels of periodontitis severity (mean PD and mean CAL) and gingivitis variables (plaque and BOP). The beneficial effect was more pronounced in participants using dental floss or interdental brushes regularly. After seven years of follow-up, odds of having higher mean PD levels were halved (Odds Ratio 0.49; 95% confidence interval (CI) 0.35;0.66) comparing dental floss users with non-users. Respective ORs were 0.61 (95%CI 0.45;0.83) for mean CAL, 0.52 (95%CI 0.36;0.77) for BOP and 0.36 (95%CI 0.24;0.54) for plaque. Similarly, ORs for interdental brush users were 0.75 (95%CI 0.55;1.02) for mean PD, 0.64 (95%CI 0.41;0.97) for BOP and 0.55 (95%CI 0.39;0.77) for plaque, compared to non-users. For wooden sticks non-significant associations were found, which does not allow any statement to be made regarding possible effects on oral health. Caries variables (DF-S) and the number of missing teeth were non-significantly associated with interdental aids usage.
In conclusion, results suggest that interdental cleaning aids usage may contribute to healthier gums and reduced inflammation, if combined with daily toothbrushing and regular dental checkups. Specifically, dental flossing and interdental brushing might notably reduce gingival inflammation and therefore prevent chronic periodontitis. These findings contribute to a more distinct picture of how IDA might help to prevent oral diseases and must be properly integrated into our daily oral hygiene program.
The success of pregnancy depends on precisely adjusted, local immune mechanisms. In early pregnancy, fetal trophoblast cells implant into the endometrium to build and anchor the placenta. Simultaneously, they mediate fetal tolerance and defense against infections. To cover these versatile requirements, local immune factors must be in balance. A too tolerogenic milieu can lead to an inadequate placentation; while a too inflammatory milieu can cause rejection of the semi-allogenic fetus. Bacterial infections can provoke these inflammatory pregnancy complications as well. Therefore, the pregnant uterus was long thought to be sterile. Descriptions of a placental microbiome opened a scientific discourse, which is unsolved due to contrary studies. The colonization of the non-pregnant endometrium is, however, confirmed. It is supposed to affect both, uterine pathologies and fertility. Precise data are lacking. Aim of this work was to assess if and under which circumstances a bacterial colonization would be tolerable.
One of the described species in placental and endometrial samples is Fusobacterium nucleatum. It is an opportunistic bacterium, which is known from the human oral cavity and associated with the development of colon carcinomas. F. nucleatum supports tumorigenesis by the induction of epithelial proliferation, survival, migration and invasion as well as angiogenesis and tumor tolerance. Since similar processes are required for implantation and placentation, F. nucleatum might support these as well. In this work, the effects of F. nucleatum on leukocyte-trophoblast-interactions, especially of macrophages and innate lymphoid cells type 3 (ILC3), were assessed.
The monocytic cells (THP-1) were differentiated into inflammatory M1 (IFN-γ) or tissue-repairing and tolerogenic M2a (IL-4) and M2c (TGF-β) macrophages. Inactivated F. nucleatum, LPS or E. coli was added. Only small concentrations of inactivated bacteria were used (bacteria:leukocyte ratio of 0.1 or 1), since it was not the aim to analyze infections. Conditioned medium of treated leukocytes was added to trophoblastic cells (HTR-8/SVneo). Migratory, invasive and tube formation behavior of trophoblastic cells was quantified.
Treated M1 macrophages impaired trophoblast function, whereas M2a macrophages induced trophoblast invasion. M2c macrophages supported trophoblast migration and tube formation if treated with the smaller, but not with the higher concentration of F. nucleatum. This treatment induced the accumulation of HIF-1α and the secretion of VEGF-A in M2c macrophages as well. Moreover, the higher concentration of F. nucleatum caused rather inflammatory responses (NF-κB activation and cytokine expression). The activation of the HIF-1α-VEGF-A axis under the influence of TGF-β might serve as a mild immune stimulation by low abundant commensal bacteria supporting placentation.
In contrast to macrophages, the function of ILC3s during pregnancy is still unknown. In general, ILC3s are located in mucosal tissue, such as the gut. They participate in tolerance mechanisms and form the local micromilieu by the secretion of cytokines and the presentation of antigens. In order to characterize local, uterine ILC3s, murine ILC3s were compared to peripheral, splenic ILC3s. Uterine ILC3s were more activated and produced higher levels of IL-17 compared to splenic ILC3s. However, uterine ILC3s barely expressed MHCII on their surface. A reduced antigen presentation potential was confirmed in human ILC3s differentiated from cord blood stem cells by the addition of TGF-β or hCG. The treatment with bacteria increased MHCII expression, but not to the initial level. The higher bacterial concentration induced IL-8 secretion and led to an increased trophoblast invasion. ILC3s were less sensitive to bacterial stimulation than macrophages.
Recent studies on the uterine or placental presence of bacteria during pregnancy are discrepant. The results of this project indicate that bacteria or bacterial residues might serve as a mild stimulus under certain circumstances to support implantation without negative effects. The current discussion must therefore not only be expanded by additional studies, but especially include differentiated local conditions. In this context, the sheer presence of bacteria or bacterial components must not be equated with an infection representing a known hazard.
Reactive species play an essential role in orchestrating wound healing responses. They act as secondary messengers and drive redox-signaling pathways that are involved in the hemostatic, inflammatory, proliferative and remodeling phases of wound healing. Cold plasma produces a profusion of short- and long-lived redox species that promotes wound healing, however, until today, the knowledge of CAP mediated wound healing remained scarce. In this thesis, CAP mediated wound healing mechanism and their effect on extracellular matrix and adhesion molecules have been investigated. To this end, a keratinocyte cell line (HaCaT), skin fibroblast cell line (GM Fbs) and an in vitro coculture model including both HaCaT and GM Fbs at a 2:1 ratio, were employed to investigate the cross talk between these two skin cell types.
We examined the impact of CAP on extracellular matrix proteins and cell adhesion molecules in GM Fbs and observed a significant impact of cold plasma treatment on the expression level of collagen moieties, cell adhesion molecule like integrin, cadherin, versican, MMPs as well as extracellular matrix proteins.
Moreover, scratch assays with monocultures of HaCaT, GM Fbs and coculture of these two cell types were performed. We detected that, CAP accelerated the migratory capability of HaCaT cells cocultured with fibroblasts. In fact, compared to HaCaT monoculture, a significant acceleration on cell migration was observed in coculture upon CAP treatment. NAC, a potent antioxidant could abrogate this CAP-stimulated cell migration in coculture, further pointing towards the importance of well-orchestrated reactive species in wound healing. To better understand this CAP-mediated effect on cell migration, we examined the signaling pathways involved in tissue homeostasis and regeneration. We checked the HIPPO signaling pathway and observed an upregulation of several signaling molecules at transcriptional level in GM Fbs upon CAP treatment.
YAP is the central nuclear executer of HIPPO signaling pathway. YAP was upregulated in both HaCaT cells and GM Fbs. The major downstream effectors of the HIPPO signaling pathway (CTGF and Cyr61) were also upregulated in dermal fibroblasts at both transcriptional and protein level. However, administration of antioxidant NAC inhibited CAP-mediated wound healing and abrogated the gene expression of the HIPPO downstream effectors. These results confirm that the upregulation of YAP-CTGF-CYR61 axis is due to CAP-generated redox species. In HaCaT cells, both CTGF and Cyr61 was minimally transcribed. Even though CTGF was rarely detected in HaCaT cells on the protein level,Cyr61 remained undetected. This again shows the importance of the cross talk between fibroblasts and keratinocytes.
The coculture with the inclusion of fibroblasts showed an accelerated migration rate, compared to HaCaT monoculture which specifies a cross talk between these two cell types. Thus, monoculture of HaCaT cells were incubated with CAP-treated and untreated fibroblast conditioned medium. Interestingly, we observed that HaCaT cells exhibited an improved cell migration rate when incubated with CAP-treated fibroblast-conditioned media compared to that observed after incubation with untreated media. Upon investigation, an induction of CTGF and Cyr61 secretion was observed upon CAP treatment in the fibroblast-conditioned media. Furthermore, exposure to recombinant CTGF and Cyr61 could also significantly improve HaCaT cell migration which confirms that CAP mediated accelerated cell migration is due to activation of YAP-CTGF-Cyr61 axis.
In conclusion, this study revealed a completely new mechanical insight of CAP mediated wound healing. Along with several other ECM molecules, CAP activates a regenerative signaling pathway i.e., HIPPO signaling pathway in dermal fibroblasts at the onset of wound healing. Dermal fibroblasts drive a paracrine interaction by secreting CTGF and Cyr61 in close vicinity of wound, resulting in accelerated keratinocyte migration and wound healing in coculture.
The discovery of antibiotics around one century ago was a milestone for medicine. However, despite the warning of Alexander Fleming in 1945, antibiotics were used poorly, resulting in many antibiotic-resistant pathogens. Patients infected with resistant pathogens need to get treated with additional antibiotics or, as a last resort, trust completely on their immune system. This causes 700,000 deaths per year. Most clinically used antibiotics have been derived from soil microorganisms, while other niches stayed unexplored. Exploring new niches inhabiting antibiotic-producing microorganisms may result in novel antibiotics. Furthermore, expanding the search from frequently investigated soluble metabolites to volatiles may open up numerous compounds as potential future antibiotics. This thesis is about the search for antimicrobial volatiles produced (among others) by microorganisms from social spider ecosystems, a niche that was little explored until now.
Volatiles are characterized by their high vapor pressure at ambient temperatures, allowing them to distribute fast in both the gas and water phase. They can spread quickly even in complex ecosystems using the air and potentially fulfill functions like communication and antimicrobial defense. Especially, volatiles with antimicrobial activities caught the attention of many scientists because of their potential role in pathogen defense, as we have reviewed (Article I). Volatiles are usually produced in the primary metabolism and belong to diverse chemical classes, like hydrocarbons, aromates, alcohols, aldehydes, acids, esters, amides, and thiols. Their antimicrobial spectrum ranges from antifungal, to antibacterial, anti-oomycete, and even broad-spectrum activity. Volatiles are ubiquitously produced. Especially Bacillus and Streptomyces species are often reported to produce antimicrobial volatiles. Knowledge about antimicrobial volatiles – for example, details about their modes of action – is lacking yet, but these compounds may help to overcome the antimicrobial resistance crisis in the future. Volatiles could be used in medicine and agriculture, either alone or in combination with traditional antibiotics, opening new strategies against antimicrobial resistance.
A promising source of (volatile) antimicrobials is the ecosystem of social arthropods. Due to their lifestyle in dense colonies, they likely spread pathogens between individuals, making antimicrobial defense crucial. Since the presence of antimicrobial volatiles was reported in social insect ecosystems, we investigated the unexplored volatilome of the Namibian social spider Stegodyphus dumicola (Articles II and III). In the first study, we analyzed the in situ volatilomes of the spiders’ nest, web, and bodies using GC/Q-TOF and revealed that more than 40 % of the tentatively identified volatiles were already known for their antimicrobial activities (Article II). We proved the antimicrobial activity of five pure compounds found in the samples, among others against the suggested spider pathogen Bacillus thuringiensis. These results indicate the potential role of antimicrobial volatiles for pathogen defense and could ultimately help explain the spiders’ ecological success.
Volatiles from the spider volatilome can originate from various sources, including microorganisms, surrounding plants, the spiders themselves, the spiders’ prey, so we analyzed the volatilomes of microbial nest members in a second study. The microbial nest members we selected for this were the bacteria Massilia sp. IC2-278, Massilia sp. IC2-477, Sphingomonas sp. IC-11, and Streptomyces sp. IC-207, and the fungus Aureobasidium sp. CE_32 (Article III). Several volatilomes showed antibacterial and/or antifungal activities against two suggested spider pathogens. The subsequent volatilome analyses using GC/Q-TOF revealed the presence of many volatiles that have already been described as antimicrobials. Five pure volatiles were tested against two suggested spider pathogens, revealing all volatiles as antibacterial, antifungal, or both. These results support the potential role of antimicrobial volatiles in social spider pathogen defense and indicate microbial nest members as the origin of (novel) antimicrobial volatiles.
Together, the articles that constitute this thesis highlight the antimicrobial power of volatiles (Article I), indicates the volatilome of the ecosystem of S. dumicola as a potential pathogen defense (Article II), and finally reveal the spider nest microbiome as a source for antimicrobial volatiles (Article III). This knowledge not only adds to the understanding of social spider ecosystems (and likely other social arthropod ecosystems) but also has the potential to open a novel source for antimicrobial compounds that may help to counter the antimicrobial resistance crisis.
Drainage has commonly been a pre-requisite for the productive use of peatlands. The biased focus on agriculture, forestry and peat extraction has long ignored the destructive effects of drainage and the successive degradation of ecosystem functions of wet peatlands. Accelerated by the climate crisis, the finite nature of drainage-based peatland use is increasingly recognised. Consequently, productive land use options for wet or rewetted peatlands (paludiculture) are required as sustainable alternatives. A wide range of paludiculture plants and options of biomass utilisation are identified as suitable and promising. Despite the growing interest, experiences with and research on the economic viability of paludiculture are still rare.
This thesis addresses the lack of knowledge on paludiculture in terms of practical feasibility, costs and benefits at the farm level, market prospects and framework conditions. I selected the two currently most advanced paludicultural practices in Europe: a) Harvesting natural reed beds as a traditional ‘low-input’ paludiculture, i. e. the utilisation of existing ‘wild’ vegetation stands; b) ‘Sphagnum farming’ as a novel ‘high-input’ paludiculture including stand establishment and water management required for the active transformation from drainage-based peatland use to paludiculture. In both cases, I investigate three different biomass utilisation avenues. This thesis adds to the fields of problem-driven sustainability and land-use science. Procedures and costs of paludiculture were studied in transdisciplinary research projects in close cooperation with practitioners. Due to the novelty of the topic, I put special emphasis on the triangulation of methods and data sources: pilot trials, field measurements, semi-structured expert interviews, structured questionnaires, secondary data from trade statistics and literature. To account for uncertainty related to costs and revenues, I conduct stochastic scenario analysis (Monte Carlo simulation) for the extended contribution margin accounting of harvesting reeds and sensitivity analysis for the investment appraisal of Sphagnum farming.
Paludiculture on fens: harvesting reeds
Paper I investigates harvesting procedures for reed-dominated (Phragmites australis) vegetation stands. In many European countries special-purpose tracked machinery is applied for large-scale conservation management and the commercial harvest of thatching reed. Stochastic scenario analysis reveals a wide range of possible economic outcomes (ca. € -1000 to € 1500 ha-1 a-1) and identifies material use of reed superior to its use as a source of energy. Winter harvest of high-quality thatching reed in bundles is the most profitable option. Winter harvest of bales for direct combustion is suitable for low-quality stands and has a limited risk of loss. In the case of summer harvest, revenues for green chaff for biogas production cannot cover harvesting costs but non-market income via subsidies and agri-environmental payments may ensure profitability. While biomass for energy generation is limited to a local market, thatching reed is traded as an international commodity. The market situation for thatching reed is investigated for Europe (Paper II) and Germany (Paper III). The major reed consuming countries in Western Europe (Netherlands, Germany, UK, Denmark) rely on imports of up to 85 % of the national consumption, with reed being imported from Eastern and Southern Europe and since 2005 also from China. The total market volume for reed for thatching in Northern Germany is estimated with 3 ± 0.8 million bundles of reed with a monetary value at sales prices of € 11.6 ± 2.8 million. Most of the thatchers (70 %) did not promote reed of regional origin to their customers due to insufficient availability in the first place and a lack in quality as second reason. The cultivation of reed in paludiculture may improve quantity and quality of domestic thatching reed. An area of 6000 ± 1600 ha with an average yield of 500 bundles per hectare would allow covering the current total demand of 3 million bundles of the German thatching reed market (Paper III).
Paludiculture on bogs: Sphagnum farming
Sphagnum farming provides an alternative to peatland degradation in two ways: Firstly, Sphagnum mosses can be cultivated as new agricultural crops on rewetted peatlands. Secondly, the produced Sphagnum biomass is a high-quality raw material suitable to replace peat in horticultural growing media (Paper V). Pilot trials have demonstrated the practical feasibility of establishing Sphagnum cultures on former bog grassland, cut-over bogs and mats floating on acidic waters bodies; Paper IV compares for the three types of production sites the specific procedures, costs and area potential in Germany. Water-based Sphagnum farming is not recommended for large-scale implementation due to highest establishment costs, major cultivation risks and limited area potential. For soil-based Sphagnum farming, the most important cost positions were Sphagnum shoots to set up pilots, investment for water management and regular weed management. Bog grassland has the highest area potential, i. e. 90,000 ha in NW Germany. Paper V assesses the profitability of Sphagnum farming on former bog grassland based on extrapolating five years of field experience data (establishment ņ management ņ harvest) to a total cultivation time of twenty years. Cultivating Sphagnum biomass as founder material for Sphagnum farming or restoration was profitable even in pessimistic scenarios with high costs, high bulk density and low yields. Selling Sphagnum for orchid production was economically viable in the case of medium to high yields with a low bulk density. Cost-covering prices for Sphagnum biomass substituting peat seem achievable if end consumers pay a surcharge of 10 % on the peat-free cultivated horticultural end-product. An area of 35,000 ha of Sphagnum farming suffices to meet the annual demand of the German growing media industry for slightly decomposed Sphagnum peat.
Framework conditions affecting feasibility of paludiculture
The relation of revenues from selling biomass to its production costs is an important piece of the paludiculture feasibility puzzle. Further aspects effecting the economic viability and competitiveness of paludiculture encompass the market demand, the availability of mature technology, legal restrictions, the eligibility for agricultural subsidies, a remuneration of external benefits and the opportunity costs of present farming activities (Paper I, V). Legal and policy regulations are of major importance for land use decisions on peatlands – both for keeping up drainage and for shifting to paludiculture.
Conclusion and Outlook
This thesis provides a first assessment of the costs and profitability of large-scale harvesting of reeds and Sphagnum farming based on real-life data. The paludicultural practices investigated may be a solution for a minor share of the more than 1 million ha of peatlands drained for agriculture in Germany. Future research should also address other biomass utilisation options and other crops. Large-scale pilots are required to improve technical maturity of procedures and machinery, gather reliable data to replace assumptions on costs and revenues and study long-term effects on economics and ecosystem services. The micro-economic perspective needs to be complemented by the societal perspective quantifying and monetising external effects of peatland restoration, paludiculture and drainage-based peatland use. There is a high need for intensified research, large-scale implementation and accelerated adaption of the policy and legal framework to develop paludiculture as an economically viable option for degraded peatlands.
Although End Stage Renal Disease (ESRD) is a disease of increasing epidemiological relevance very little is known about the cost of providing the respective dialysis services in Tanzania. This study analyses the cost of outpatient dialysis at Muhimbili National Hospital (MNH) in Tanzania in the year 2014 in order to address the question weather or not dialysis treatment should be a priority intervention in a poor resource country like Tanzania. Cost analyses were performed based on the provider’s perspective including only direct costs of dialysis treatment. Cost of drugs and consumables were obtained from the price list of Medical Stores Department in Tanzania. Overhead were collected from the respective departments and allocated to the final cost centres through step down approach. The results indicates that MNH performs on average 442 hemodialyses per month (34 patients, with three sessions per week) with a personnel placement of 20 nurses, four nephrologists, eight registrars, one nutritionist, two biomedical engineers, four health attendants and nine dialysis machines. The respective average unit cost per haemodialysis is 175.91 US$. Consequently, an average patient requiring three dialyses per week (i.e. 156 dialyses per year) will cause annual costs of 27,441.95 US$. The annual cost of dialysis is enormous for a least developed country like Tanzania where resources and technology are rather limited. Infectious diseases (such as malaria and tuberculosis) are the major health problems. Therefore, from the economic point of view, it seems rational to allocate health care budgets towards diseases that are curable, have higher cost- effectiveness and cater for the majority of the population. However, before a final decision on allocation of budget towards dialysis is made, all efforts that could improve technical efficiency and reduce the costs of materials in Tanzania must be invested. For instance, reducing the nursing time per dialysis.
Having been regarded as wastelands until quite recently, wetlands are increasingly acknowledged as ecosystems of high biodiversity. Wetland restoration projects are often accompanied by the implementation of specific species management programs. Naturally, for effective management measures, profound knowledge of the target speciesʼ ecological requirements is obligatory, including habitat selection, feeding ecology as well as spatial behaviour such as movements within and between patches of suitable habitat. Yet, big knowledge gaps exist for many marshland birds which is particularly true for highly secretive species such as rails and crakes. Considered as the least known among the Palaearctic breeding birds, most information about the Baillon's Crake Zapornia pusilla is only anecdotic, resulting in strong uncertainties with regard to the species' distribution, population sizes, status, migratory behaviour as well as ecological requirements. This can be mainly attributed to the species' skulking behaviour and its seemingly highly erratic occurrence. Baillon's Crakes in the Western Palaearctic and Palaeotropics are referred to as the subspecies Z. p. intermedia. While European breeding birds are assumed to winter in sub-Saharan wetlands, African populations are considered rather to be itinerant with local movements induced by seasonal or anthropogenic habitat changes. However, for both migratory movements, major directions or routes are unknown. The discovery of a large number of Baillon's Crakes presumably wintering in the floodplains of the Parc National des Oiseaux du Djoudj (PNOD), situated in the Senegal River Delta, WAfrica, initiated this thesis. The main aim of the study was, firstly, to clarify the status and size of this population and assess its connectivity to European breeding population(s). Secondly, in order to improve the knowledge about the species' ecological requirements as a basis for the National Parks conservation management, habitat selection, spatial behaviour as well as dietary selectivity were investigated. The major part of the fieldwork was performed in PNOD in the course of the dry season during periods of 1.5 - 2.5 months from December - March 2009, 2010 and 2013. Baillon's Crakes were mainly caught with cage traps, ringed and common measurements were taken, including moult status. Skin tissue as well as one rectrice was sampled for DNA and stable isotope analyses. This was also done for Baillon's Crakes caught in European breeding grounds in Germany, Montenegro and Southern Spain. For dietary analyses, faecal samples were collected in PNOD in winter 2009/2010. Furthermore, some individuals were equipped with radio-transmitters to determine home range size and habitat selection. For the identification of the most relevant habitat parameters both on a population as well as on the individuals' level, we used a vegetation map based on satellite imagery covering the entire Djoudj area as well as maps generated on the basis of aerial photographs taken at two study sites.
The overarching goal of this work was to develop a biosensor based on functional nucleic acids. The biosensor should be modular, such that by exchange of the recognition unit, tailored biosensors could be created, allowing detecting a variety of analytes on demand. In the context of the cooperation with a company, initially, TNFalpha was chosen as an analyte. In a previous work, it was tried to build a modular aptazyme for TNFalpha that was based on four aptamers that were developed by SELEX. Here, these aptamers were investigated more closely by different methods (SPR, QCM). In the present work, it was proven beyond doubt that this attempt was not feasible. The aptamers were not able to bind the biologically active form of TNFalpha. An even more interesting finding was that a common tool to immobilize molecules to investigate their interactions with a binding partner, namely the streptavidin-biotin interaction, can strongly influence the result of the assay and causing false-positive results. Afterwards, it was decided to continue the work with a DNAzyme and modular approach was strictly refrained. It was tried to build aptazymes for TNFa or creatinine by in vitro selection, which failed. Most likely, the crucial factors were the ligands itself and the high demand on in vitro selection to select two functionalities (aptamer and catalytic activity) in parallel. This was the reason, to develop a new and a different method with streptavidin as a model analyte. The new strategy was to combine in vitro selection and rational design. The 17E-DNAzyme was chosen as catalytically active module. In preparation of the in vitro selection work, its properties were analyzed. An oligo-based inhibitor of the 17E-DNAzyme was rationally designed and its functionality was experimentally evaluated. Then, a library was designed which contained the 17E-DNAzyme, a randomized domain, and the inhibitor and its functionality was experimentally proven. The in vitro selection for the aptamer and the catalytic function were separated in two steps where the substrate strand was introduced in the second step. The knowledge about in vitro selection procedures, which was gained in the first trials with TNFalpha and creatinine was applied and could be substantially broadened. The crucial factors for the success of this process were identified. Most important steps are the amplification steps between the rounds and the in vitro selection pressure. The template concentration in the PCR has to be very low; the selection pressure has to be high. However, in fact, the exact quantity of "low" and "high" is difficult to determine exactly, it has to be individually evaluated for every amplification step, and this makes in vitro selection a method that requires a lot of experimental skills, optimization procedures, and experience. An EMSA was established and performed to qualitatively prove the affinity of the library for streptavidin in the first step of the in vitro selection method. For the second step, the in vitro selection of the catalytic function, considerable effort was done, but the in vitro selection did not succeed. Using the Biacore, the dissociation constant of the pool, which was applied in the second step of in vitro selection, was determined to be KD = 38 nM. This is very low, and by sequencing the pool it was found that the sequence variability was too low. The sequences share a cramp-like stem-loop structure, which hold the DNAzyme in an inactive conformation. This work presents valuable results for the development of biosensors based on nucleic acids, applying in vitro selection and rational design. Aptamers for streptavidin were selected. The library, which was used for this in vitro selection was structurally constrained. This obviously, represented an exceptionally good starting point for the in vitro selection. In this work, a lot of information about the development of in vitro selection systems was gained. Important work was done on establishing a click chemistry-based immobilization strategy. This work is going to fundamentally facilitate a new in vitro selection approach based on this immobilization strategy.
Participating in an election is by far the most prevalent form of political participation in modern democracies. Turnout rates, however, not only vary considerably between countries but also over time: By trend, in many Western democracies turnout levels have declined over the last decades. Electoral systems depict a prominent factor that has always been discussed with respect to its impact on turnout. In this respect, a high number of empirical studies found aggregate turnout predominantly to be higher in countries using proportional representation compared to countries using a less proportional electoral system. Based on these findings, one should expect turnout to increase when the electoral system changes towards higher proportionality. However, empirical evidence of the actual lasting impact of changes in electoral institutions on voter turnout is all but conclusive. In this dissertation, I aim at answering the following question: What are the consequences of electoral system change for voter turnout? I argue that it is necessary to examine the relationship between electoral systems and turnout more detailed as most studies did to date by taking the level of electoral constituencies and the temporal dimension of electoral system change into account.
To assess the impact of electoral systems and further proposed causal factors associated with electoral systems, party system size for instance, on turnout empirically, I make use of a comparative research design, analyzing longitudinal data with time-series cross-sectional regression models. These data, being the basis for my empirical analyses, represent a unique data set covering 9.639 electoral districts from 146 national legislative elections in eleven European countries. The dissertation generally finds an increasing district magnitude to boost turnout, while a decreasing magnitude has negative consequences for electoral participation. The positive effect of district magnitude on turnout seems to depend on the size of the population in the respective district, however. In addition, the analyses show that a higher number of parties in a district, respectively an increase in the number of parties in a district, has a negative impact on turnout.
Rabies virus (RABV) is an ancient, highly neurotropic rhabdovirus that causes lethal encephalitis. Most RABV pathogenesis determinants have been identified with laboratory-adapted or attenuated RABVs, but details of natural RABV pathogenesis and attenuation mechanisms are still poorly understood. To provide a deeper insight in the cellular mechanism of pathogenies of field RABV, this work was performed to assess virus strain specific differences in intra-neuronal virus transport, to identify cell culture adaptive mutations in recombinant field viruses and to explore shRNA-expressing RABVs as research tools for targeted host manipulation in infected cells.
Comparison of chimeric RABVs with glycoprotein (G) ecto-domains of different lyssaviruses, together with field RABVs from dog and fox in dorsal root ganglion (DRG) neurons revealed no detectable differences in the axonal accumulation of the viruses. This indicates that previously described G-dependent transport of newly formed RABV in axons can occur both in laboratory-adapted and field RABV. Moreover, partial overlap of nucleoprotein (N) and G protein particles in field virus infected DRG axons supported the hypothesis of the “separate model” for anterograde RABV transport.
Serial passages of recombinant dog and fox field clones in different cell lines led to the identification of general (D266N) and cell line specific (K444N) adaptive mutations in the G ecto-domain of both viruses. In BHK cells, synergistic effects of D226N, K444N and A417T on field dog virus G protein surface localization led to the loss of endoplasmic reticulum (ER) retention of G and increased virus titers in the supernatant, indicating that limited virus release by ER retention is a major bottleneck in cell culture adaptation. In addition, selection of mutations within the C-terminus of the RABV phosphoprotein (P) (R293H and R293C in fox and dog viruses, respectively) led to the hypothesis of altered binding affinities to nucleoprotein and RNP complexes. Identification of the above mentioned amino acid substitutions together with alterations in a suboptimal transcription stop signal in the P/M gene border indicated that adaptation to cell culture replication occurs on both levels, RNA transcription/replication and virus release.
To evaluate the possibility of an expression of a functional microRNA-adapted short-hairpin RNAs (miR-shRNA) expressing RABV, recombinant RABVs encoding miR-shRNAs against cellular Dynein Light Chain 1 (DYNLL1) and Acidic Nuclear Phosphoprotein 32 family member B (ANP32B) were generated. In spite of cytoplasmic transcription of the respective mRNAs, downregulation of DYNLL1 and ANP32B mRNA and respective protein levels in infected cells revealed correct processing to functional shRNAs. Specific downregulation of the cellular genes at 2, 3 and 4 days post infection further demonstrated feasibility of the approach in standard cell lines. However, it remained open whether miR-shRNA expressing RABV can be used to study neuro-infection in vivo. Since first attempts in primary rat neuron cultures failed, it has to be clarified in further experiments whether this strategy can be used in mature, non-dividing neurons or whether breakdown of the nucleus in the course of cell division is a requirement for the processing of cytoplasmically expressed miR-RNA by nuclear RNases.
By providing novel insights in axonal RABV transport and cell culture adaptive mutations this work extends the current understanding of RABV pathogenesis in natural and non-natural cell environments. Moreover, it provides a basis for further pathogenicity studies in which the impact of cell culture adaptation through increased virus release on RABV virulence can be investigated. With successful expression of functional miR-shRNAs from RABV vectors, this work also provides a tool for RABV gene targeting in infected cell lines and thus may contribute to the further investigation of RABV-host-cell-interactions.
Objective
Alexithymia is associated with various mental and physical disorders. Some rare evidence also suggested high alexithymia to affect the HPA axis based on small and selective samples. It was aimed to investigate the impact of alexithymia on basal cortisol levels in a large population-based cohort.
Methods
In a sample of N = 3444 individuals from the Study of Health in Pomerania (SHIP-TREND-0), the effect of alexithymia on basal serum cortisol levels was investigated in a cross-sectional design.
Multiple linear regressions utilizing cortisol levels as the response variable and alexithymia as the predictor of interest were calculated, while adjusting for conven-tional confounding covariates including depression. Multiple stratified, moderation and mediation analyses were performed to validate the results.
Results
Alexithymia was not significantly associated with basal cortisol levels (b = 0.23, 95 percent confidence interval (CI) of [-0.24, 0.69]; sr2 = 0.00, CI: [-0.00, 0.00]).
Sex- and age-stratified regression analyses as well as dichotomized models of non-alexithymic and alexithymic individuals substantiated the non-significance.
Additional mediation analyses with (1) depression and (2) physical health (R2 > 1 in both cases) and moderation analysis regarding the interaction of physical health and alexithymia (b = -1.45, 95 percent confidence interval (CI) of [-6.13, 3.32]; sr2 = 0.00, CI: [-0.00, 0.00]) corroborated the results.
Conclusion
This study does not support previous findings as it shows no association between alexithymia and basal cortisol; however, a consideration of the circadian rhythm, stress exposure or specific sample compositions heeding the methodological design should be the subject of further research.
The globally threatened Aquatic Warbler (Acrocephalus paludicola) is the rarest migratory songbird in Europe. Before the population declined dramatically after 1960, the Aquatic Warbler was a common species in European mires and river flood¬plains. Today, the global population is estimated to count 27 600 individuals, of which approx. 90 % are concentrated in only three countries during the breeding season: Belarus, Poland and Ukraine. Despite numerous conservation efforts mainly under¬taken in European countries, the population decline has not been stopped. Although the Aquatic Warbler is considered a “European” bird species because of the location of its breeding grounds, it spends up to six months on migration and on the wintering grounds on the African continent. A comprehensive species conservation strategy must therefore include the preservation of African resting and wintering grounds. This study analyses the ecol¬ogy of Aquatic Warbler in its wintering grounds using the example of the Djoudj National Park area in north-western Senegal. The study aims, first, to close knowledge gaps regarding the behaviour and the habitat requirements of Aquatic Warblers during their stay on the wintering grounds to provide a scientific base for long-term species conservation management; second, to assess the importance of the wintering site in the Djoudj area is in a global perspec¬tive; and third, to identify threats to the Djoudj area as a suitable Aquatic Warbler habitat. In a fourth step, science-based management recommendations are formu¬lated to support the ongoing practical conservation work of the Djoudj National Park administration with regard to the Aquatic Warbler. The main outcomes of the study are the following: (I) We confirmed the presence of Aquatic Warblers in the Djoudj area between mid-December and the end of March. (II) The connection between the wintering ground “Djoudj National Park area” and the breeding ground “Biebrza valley” (eastern Poland) was confirmed by the resighting of a ringed Aquatic Warbler individual. (III) The remiges moult of the species was observed under natural conditions for the first time. We confirmed that the Aquatic Warbler undergoes a complete moult on its wintering grounds, following the typical sequence of passerine moult. (IV) Aquatic Warblers occur in shallowly inundated vegetation with dominant stands of Oryza longistaminata, Eleocharis mutata, Scirpus maritimus, Scirpus litto¬ralis and Sporobulus robustus interspersed with small (1–2 m²) areas of open water. The afore mentioned herbaceous species form a homogenous wetland vegetation of approximately 0.6–1.5 m height, with a coverage of 80 % to 100 %. Wild rice (Oryza longistaminata) may provide the most suitable habitat conditions as suggested by the very high density of Aquatic Warblers at sites dominated by this species. Preferential habitat may include a few solitary trees, but open woodland or scrublands are unsuit-able for Aquatic Warbler. Pure stands of cattail (Typha australis) are avoided. The water level in the habitat areas varies between 0 (humid soil) and 40 cm above the ground. Constant inundation seems to be essential, as Aquatic Warblers were never encountered in dry parts of the study area. All known Aquatic Warbler habitats in the study area are influenced by brackish or salty water. (V) During winter Aquatic Warblers use a home range of 3.9 ha (± 1.9) in aver¬age, which is shared with other individuals and species. No territorial behaviour was observed in the winter quarters. (VI) The vegetation and land cover map prepared distinguishes six classes of her¬baceous vegetation and five general land cover classes. (VII) There are 4 729 ha of potential Aquatic Warbler habitat within the study area. (VIII) We estimate the density of the Aquatic Warbler population in the study area to range between 0 and 2.26 individuals per hectare with a total population size of 776 individuals, or 260–4 057 individuals in a 95 % credibility interval. Hence we conclude that 1.1–3.8 % (0.37–19.8 % within the 95 % credibility interval) of the global Aquatic Warbler wintering population are found in the Djoudj area. (VIII) The Aquatic Warbler habitats in the Djoudj area are affected by the inun¬dation regime, water circulation, changes in salinity, grazing, the spread of cattail (Typha australis), the encrustation of vegetation, the protection status of passerine migrator habitats and the expansion of rice cultivation a. Our management proposals for the preservation of existing and the development of new Aquatic Warbler habitats were formulated and incorporated into the Management Plan of the Djoudj National Park 2014–2018.
Interoceptive sensations, that means, perceptions of the physiological body state, play an important role in the generation and expression of emotion. The focus of the research presented here is on respiratory sensations as specific interoceptive signals. Such respiratory sensations (like the feeling of dyspnea) play an important role in symptom perception in somatic (e.g., asthma) as well as in mental disorders (e.g., anxiety disorders). There are several different ways to manipulate respiratory sensations in an experimental environment, but many of them did not equal sensations in daily life. Here, stimuli (inspiratory resistive loads, caffeine) were used that trigger nearly naturally occurring interoceptive sensations. Taking into account that the elicited interoceptive experience also induces an unpleasant feeling state it is most likely that individuals show defensive physiological responding to such cues and try to avoid them. According to a bidirectional motivational system defensive behaviors are regulated by a defensive motivational system that is activated by threatening cues. From research with exteroceptive stimuli it is known that defensive responding is typically characterized by heightened autonomic arousal, increased respiration, and a potentiated startle eyeblink response. In contrast, only a few studies using interoceptive stimuli have incorporated the measurement of physiological data in their experimental designs. If included, studies show also heightened autonomic responding, whilst a heterogeneous respiratory as well as startle eyeblink responding is observed. Thus, the studies presented here were designed to clarify the factors that mediate defensive responding to interoceptive sensations. Study 1 investigated the influence of anxiety on the subjective, respiratory, and autonomic response to an individually determined inspiratory resistive load, while study 2 focuses on the effect of attentional modulation of the startle eyeblink response to a mild respiratory threat. In study 3 the modulation of subjective, respiratory and autonomic reactions by arousal expectations was examined. Therefore, caffeine, a respiratory stimulant, or a placebo were administered without the participants’ knowledge. The fourth study examined the influence of the process of worrying, a strategy to deal with unpleasant body symptoms, on defensive responding. Depending on the study design subjective, respiratory and autonomic (skin conductance level, heart rate) parameters were assessed as marker for defensive mobilization. In study 2 and 4 the startle eyeblink response was measured as further index of defensive activation. Besides that in study 2 also the P3 component of the event-related potential, as an index for attentional allocation, was recorded. The main findings of the presented dissertation are the following: Study 1 revealed that 1) only high anxiety sensitive individuals reporting also high suffocation fear respond to lower stimulus intensities with stronger defensive responding, and 2) that this group demonstrated a maladaptive compensatory breathing pattern. Additionally, study 2 exhibited that 1) the startle eyeblink response is relatively inhibited during a mild interoceptive threat, and 2) this inhibition corresponds to an attention allocation towards breathing as indicated by a reduced P3 amplitude to the startle noise as well as subjective report. Furthermore, highly anxiety sensitive individuals showed a more pronounced defensive responding if the interoceptive sensations were unexpected (study 3). Recently, study 4 demonstrated that worry led to an increased defensive response mobilization. All studies are discussed in the context of the theoretical background of the defensive response modulation to exteroceptive and interoceptive sensations with respect to mediating factors. Showing exaggerated defensive responding and maladaptive adaptation processes in high anxious individuals the results point towards the important role of interoceptive sensations in the etiology, maintenance and therapy of mental disorders, especially the anxiety disorders.
Purpose:
To examine the prevalence of the so-called bovine aortic arch variation (common origin of the brachiocephalic trunk and the left common carotid artery) in embolic stroke patients, compared with a control group.
Methods:
Aortic arch branching patterns were retrospectively evaluated in 474 individuals with (n = 152) and without (n = 322) acute embolic stroke of the anterior circulation. Contrast-enhanced CT scans of the chest and neck (arterial contrast phase, 1–2- mm slice thickness) were used to evaluate aortic arch anatomy. The stroke cohort included 152 patients who were treated for embolic strokes of the anterior circulation between 2008 and 2018. A total of 322 randomly selected patients who had received thoracic CT angiographies within the same time frame were included as a control group.
Results:
With a prevalence of 25.7%, the bovine aortic arch variant was significantly more common among patients suffering from embolic strokes, compared with 17.1% of control patients (p = 0.039, OR = 1.67, 95%CI = 1.05–1.97). Stroke patients were more likely to show the bovine arch subtype B (left common carotid artery originating from the brachiocephalic trunk instead of the aortic arch) (10.5% vs. 5.0%, p = 0.039, OR = 2.25, 95%CI = 1.09–4.63), while subtype A (V-shaped common aortic origin of the brachiocephalic trunk and the left carotid) was similarly common in both groups. There was no significant difference regarding the frequency of other commonly observed variant branching patterns of the aortic arch.
Conclusion:
The bovine aortic arch, particularly the bovine arch subtype B, was significantly more common among embolic stroke patients. This might be due to altered hemodynamic properties within the bovine arch.
Background: Common to most theory-based intervention approaches is the idea of supporting intentions to increase the probability of behavior change. This principle works only if (a) intentions can be explained by the hypothesized socio-cognitive constructs, and (b) people actually do what they intend to do. The overall aim of this thesis was to test these premises using two health behavior theories applied to reducing at-risk alcohol use. Method: The three papers underlying this thesis were based on data of the randomized controlled “Trial Of Proactive Alcohol interventions among job-Seekers” (TOPAS). A total of 1243 job-seekers with at-risk alcohol use were randomized to stage tailored intervention (ST), non-stage tailored intervention (NST), or control group. The ST participants (n = 426) were analyzed in paper 1. Paper 2 was based on the baseline and 3-month data provided by the NST participants (n = 433). Paper 3 was based on baseline, 3-, 6-, and 15-month data provided by the control and ST group not intending to change alcohol use (n = 629). Latent variable modeling was used to investigate the associations of social-cognitive constructs and intentional stages (paper 1), the extent to which intentions were translated into alcohol use (paper 2), and the different trajectories of alcohol use among people not intending to change as well as the ST effect on the trajectories (paper 3). Results: Persons in different intentional stages differed in the processes of change in which they engaged, in the importance placed by them on the pros and cons of alcohol use, and in the perceived ability to quit (ps < 0.01). The association between intentions and alcohol use was weak. The magnitude of this intention-behavior gap depended on the extent to which normative expectations have changed over time (p < 0.01) and was reduced when controlling for the mediating effect of temporal stability of intentions. The gap was also present among people not intending to change: Even without intervention, 35% of the persons reduced the amount of alcohol use after 15 months (p < 0.05) and 2% achieved abstinence. Persons with heavier drinking (33%) and persons with low but frequent use (30%) did not change. Persons with frequent alcohol use seem to benefit less from ST than those with occasional use, although differences were not statistically significant. Conclusions: Intentions can be quite well explained by the hypothesized socio-cognitive constructs. In a sample of persons who were, as a whole, little motivated to change, the precision of how well intentions predict subsequent alcohol use was modest though. Time and socio-contextual influences should be considered.
Studies of stroke in experimental animals have demonstrated the neuroprotective efficacy of a variety of interventions; however, most such strategies have failed to show clinical benefits in aged humans. One possible explanation for this discrepancy between animal and clinical studies may be the role that age plays in the recovery of the brain following insult. For example, the poor functional recovery of aged rats after stroke may be caused by a decline in brain plasticity. Although the incidence of ischemic stroke increases dramatically with advancing age, relatively few studies have been conducted on aged animals, which would mimic most closely the context in which stroke occurs in humans. We have shown that, at one week following stroke, there was vigorous expression of MAP1B and its mRNA, as well as MAP2 protein, in the border zone adjacent to the infarct of 3 month- and 20 month-old male Sprague Dawley rats. Hypothesis: The decline in brain plasticity is caused by an age-related decline in the upregulation of factors promoting brain plasticity (MAP1B, ßAPP) and an age-related increase in astroglial scaring and in the expression of neurotoxins such as beta amyloid. Methods: Focal cerebral ischemia was produced by reversible occlusion of the right middle cerebral artery in 3- and 20-month-old male Sprague Dawley rats. The functional outcome was assessed in neurobehavioral tests at 3, 7, 14, and 28 days post-stroke. At these time points, brains were removed and analyzed for markers of (i) brain plasticity (microtubule-associated protein 1B, MAP1B, secreted forms of fi-amyloid precursor protein); (ii) neurogenesis (BrdU-positive cells, doublecortin, nestin); (iii) neurotoxicity (B-amyloid aggregates); (iv) inflammation (microglia, astrocytes, oligodendrocytes, endothelial cells). Results: (1) There was a non-significant tendency for blood pressure to be higher in old than in young rats. By post-stroke day 3 the infarct volume covered about 15% of the cortical neurons in young and 28% in aged rats. By day 7, infarct volumes were roughly equal in the two age groups. (2) Cell counting showed increases in the number of BrdU-positive cells in the infarcted area of old rats at day 3 post-stroke. This increase became even more dramatic at day 7 post-stroke in aged rats. There was no significant contribution of apoptosis to cell death. (3) Behaviorally, young rats recovered gradually and reached a maximum of 90% of baseline performance at day 14, post-stroke while the aged rats recovered only to a maximum of 70% of pre-surgery performance by week 2 post-stroke, and remained at that level. (4) The temporal pattern of recovery correlated well with the expression of growth-associated phenotype of ßAPP as well as with MAP1B accumulation in varicosities along axons (an indicator of growth) in cortical areas affected by stroke and was at maximum between days 14 to 28 in young rats. In contrast, aged rats showed delayed (day 28) and reduced axonal remodelling as well as a delayed (day 28) expression of growth-associated ßAPP. Instead, the neurotoxic carboxy-terminal form of ßAPP steadily accumulated over time and reached a maximum at day 14 in aged rats as compared to 28d for the young rats. Nestin, a marker for immature neurons, overlapped with BrdU-labelled cells at day 7 post-stroke in corpus callosum and at the infarct border in both young and aged rats, suggesting increased stroke-induced neurogenesis. (5) In young rats there was a gradual activation of both microglia and astrocytes that peaked by days 14 to 28 with the formation of a glial scar. In contrast, aged rats showed an accelerated astrocytic and microglial reaction that peaked in week 1 post-stroke. We also noted a strong activation of oligodendrocytes at early stages of infarct development in all rats that persisted in aged rats. Evolution of astrocytic and microglial reactivity closely paralled the time course of scar formation in both young and aged rats and coincided with the stagnation in the recovery rate of aged rats. Conclusions: The time course of functional recovery in young rats correlated well with the expression of plasticity proteins such as MAP1B and ßAPP while an early and persistent expression of the neuro toxic fragment AB in conjunction with a delayed expression of MAP1B and ßAPP may impede functional recovery in aged rats. The results also suggest that a temporally anomalous glial reaction to cerebral ischemia in aged rats leads to the premature formation of scar tissue that impedes functional recovery to stroke.
The absolute density of the metastable N2(A,v=0) molecule was extensively studied in nitrogen barrier discharges at 500 mbar. For the detection of the metastables laser-induced fluorescence spectroscopy (LIF) was used, at which for the calibration of the absoute metastables density a comparison with Rayleigh scattering was performed. To get the ratio of the LIF signal to the Rayleigh signal it is shown that the LIF signal is the convolution of the Rayleigh signal with an exponential decay. Besides, the different cross sections are calculated and the ratio of the detection sensitivities at the laser and fluorescence wavelength is determined. As a first step on the way to atmospheric pressure barrier discharges, the laser-induced fluorescence spectroscopy was implemented in low pressure capacitively coupled radio-frequency discharges. The determined metastables density in the capacitively coupled radio-frequency discharge is somewhat below 10^12 cm^(-3) at 40 Pa and somewhat below 10^13 cm^(-3) at 1000 Pa. The axial density profiles show a nearly symmetric shape due to the long lifetime of the metastable state. At a pressure of 500 mbar the two discharge modes of the barrier discharge, the filamentary and the diffuse mode, were analysed. The filamentary mode was mainly investigated in an asymmetric discharge configuration. Typical densities in the detection volume are in the range of 10^13 cm^(-3), resulting in maximal densities of up to 10^15 cm^(-3) in the microdischarge channel. Such large densities are in agreement with the fast decay by the pooling reaction after the maximum of the metastables density in the afterglow of the discharge pulse. The time dependent measurements in the afterglow of single microdischarges offer a delay of the metastables production with respect to the discharge current. This delay indicates that the metastables production takes place mostly by cascades from higher triplet states, which are in turn excited by electron impact. The axial density profiles show a maximum in metastables density in front of the anode in agreement with optical emission spectroscopy, but which cannot be clearly identified because of the asymmetric discharge configuration. The measurements for the diffuse discharge mode were performed in a symmetric discharge configuration. The metastables density is in the range of 10^13 cm^(-3). It increases during the current pulse of the discharge and decays afterwards. The maximum of the metastables density is delayed with respect to the maximum of the discharge current. The depletion of metastables in the early discharge afterglow is dominated by the pooling reaction, afterwards quenching by nitrogen atoms becomes important assuming a nitrogen atom density in the order of 10^14 cm^(-3). As for the filamentary mode, the losses by diffusion are negligible for the measurement positions. The measured axial density profiles show an accumulation of metastables in front of the anode, whereas the density in front of the cathode is below the detection limit. To calculate the metastables current density to the dielectrics after the discharge pulse a simulation is developed including the dominant volume processes for the depletion of metastables and the axial diffusion. Starting point for the simulation is the axial metastables density distribution at the end of the discharge pulse. The calculated metastables current density at the dielectrics is in the range of 10^14 cm^(-2)s^(-1). With the use of recently calculated secondary electron emission coefficients a comparison of the secondary electron emission by metastables with the discharge current is done. It is figured out that the secondary electron emission current is large enough to be important during the discharge ignition. To expand the simulation to the whole voltage cycle, the excitation of metastables is assumed to be proportional to the discharge current and electron density. Using this model, the measured time dependences of the metastables density are well reproduced for the investigated parameter variations. This is not the case for the axial profiles, where a metastables loss process is missed to explain the formation of a density plateau in front of the anode during the discharge pulse. The intended calculation of the metastables current density shows that the delay of the metastables production with respect to the discharge current might be responsible for the ignition of microdischarges at the beginning of the discharge pulse.
The rapid anthropogenic climate change that is projected for the 21st century is predicted to have severe impacts on ecosystems and on the provision of ecosystem services. With respect to the longevity of trees, forestry in particular has to adapt now to future climate change. This requires profound multidisciplinary knowledge on the direct and indirect climate sensitivity of forest ecosystems on various spatial scales. Predictions on growth declines due to increasing drought exposition during climate change are widely recognized for European beech (Fagus sylvatica L.), which is the major forest tree in European temperate deciduous forests. However, research from other continents or other biomes has shown that winter climate change may also affect forest growth dynamics due to declining snow cover and increased soil cooling. So far, this winter cold sensitivity is largely unexplored in Europe. Thus, particularly focussing on forest growth dynamics and winter cold sensitivity, the goal of this PhD-project was to explore how climate sensitivity of forest ecosystems differs regionally. By doing so, the project aimed to deliver insights about possibilities and limits of upscaling regional knowledge to a global understanding of climate sensitivity. To achieve these goals, this PhD-project integrated five studies (Manuscripts 1–5) that investigated the climate sensitivity of biogeochemical cycles, plant species composition in forests, and forest growth dynamics across spatial scales. In particular, a large-scale gradient-design field experiment simulated the influence of winter climate change on forest ecosystems by snow cover and soil temperature manipulations (Manuscript 1). This study indicated that soil cooling and decreased root nutrient uptake may indirectly reduce growth of adult forest trees. Moreover, this study indicated uniform ecological sensitivity to soil temperature changes across sites along a large winter temperature gradient (ΔT = 4 K across 500 km), irrespective of the site-specific history of snow cover conditions, which motivates upscaling from local winter climate change studies to the regional scale. Although regional climate drives growth of adult forest trees, local factors, such as site-specific edaphic conditions, might control plants in the forest understory. This assumption was tested by mapping the forest understory composition along the same winter temperature gradient as introduced above (Manuscript 2). Across sites, this study found that edaphic conditions explained the spatial turnover in the forest understory composition more than climate, which might moderate direct climate change impacts on the forest understory composition. However, edaphic conditions, forest structure, and climate are linked by triangular interactions. Thus, climate change might still indirectly affect the forest vegetation dynamics. Moreover, a dendroecological study focussed on the same winter temperature gradient from central to cold-marginal beech populations as above in order to identify gradual changes in summer drought and winter cold sensitivity in tree growth (Manuscript 3). Towards the cold distribution margin, the influence of drought on tree growth gradually decreased, while growth reductions were increasingly related to winter cold due to harsher winter climate. By a large-scale dendroecological network study assessed the relationship of growth dynamics to climate and reproductive effort in beech forests across Europe (Manuscript 4). Indeed, this study found the general pattern across the distribution range of beech that high temperature controlled growth indirectly via resource allocation to reproduction. However, the strong, direct drought signal that could be generally detected from dry-marginal to central populations vanished towards the cold-marginal populations, where the more focussed study of Manuscript 3 identified a stronger relationship of tree growth to winter cold. Further extending the scope of this PhD-thesis to global scales, litter decomposition rates were assessed across biomes (Manuscript 5). This study found a robust relationship between climate and decomposition rates, but it also demonstrated large within-biome variability on a local scale. These local scale differences might depend on habitat conditions that, in turn, could be modulated by climate change, which calls for a better exploration of indirect climate sensitivity. In conclusion, this PhD-thesis highlighted that multidisciplinary research can advance the understanding of ecological interactions in forest ecosystems under changing climate scenarios. In this PhD-project, a winter climate change experiment, where site-representative target trees were selected by means of dendroecology, contributed to a mechanistic understanding of winter cold sensitivity in forest growth dynamics. Dendroecological investigations then put the findings in a broader temporal and spatial context by describing local climate sensitivity of tree growth on different spatial scales. This thesis further shows that global generalizations about the relationship of climate and ecological processes in ecosystem models have to be critically reviewed for the need of local and regional adjustment because these processes might experience considerable regional- or local-scale variation. However, this thesis reports uniform sensitivity of ecological processes to altered winter soil temperature regimes across a large winter temperature gradient. Thus, upscaling from insights of previous winter climate change experiments to regional scales is encouraged.
Telemedicine at the Emergency Site – Evaluated by emergency team members in simulated scenarios
(2015)
The hypothesis of this study states that emergency medicine can benefit from telemedicine, whenever paramedics at a remote emergency site request consultation or mentoring by a distant emergency doctor. The hypothesis was semi-qualitatively evaluated in accordance with the protocol of the EU project in the setting of a medical simulation centre. Paramedics encountered simulated standardized emergency case scenarios, connected for teleconsultation and telementoring with emergency doctors by video and audio link through a newly developed real-time HD-video system called LiveCity camera. Paramedics and emergency doctors regarded the simulated scenarios as realistic and relevant and took the simulation seriously. Thus,the following conclusions can be drawn: 1.) Emergency team members encounter situations at the emergency site, in which they would like to get help by a more experienced colleague, especially help with diagnostics and treatment. 2.) The telemedical contact to an emergency doctor makes paramedics feel confirmed in their work, more secure, even in legal aspects. Paramedics do not feel controlled by telemedicine or like a puppet on a string. Their relationship to the patient is not mainly deranged or interfered by the doctor and their course of action is not mainly disrupted. The tele-emergency doctors do not feel like puppet masters and continue feeling as doctors and do not perceive themselves as interferer within the emergency team. 3.) Emergency team members call for a telemedical system providing transmission of vital signs as well as audio- and video-connection. 4.) The LiveCity camera is an effective telemedical tool. The audio quality is good and the orientation on the screen is easy. Paramedics state, that filming the emergency site is easy, does not restrict the field of vision and paramedics can communicate the emergency doctors everything they want to show and tell. Thus the emergency doctors get additional information. While the LiveCity camera is mostly perceived as not too heavy, the LiveCity camera is not easy to operate, very failure-prone and can derange the communication among team members at the emergency site. Nevertheless, the LiveCity camera is not perceived as an additional burden. 5.) Telemedicine is predominantly and largely appreciated by the members of the emergency team. Connecting the tele-emergency doctor to the remote paramedics leads to a perceived faster start of the therapy and is considered as helpful, improving the situation and the quality of patient care. The adherence to medical guidelines and therefore the quality increased, when the paramedics were connected to an emergency doctor through the telemedicine connection. In general, the quality of diagnostics, the correctness of diagnosis and the quality of therapy were rated higher. The majority of paramedics would call a tele-emergency doctor in cases, they wouldn´t normally activate medical support. The emergency team members largely agree in perceiving the tele-emergency doctor system as useful, and they can imagine, working in a tele-emergency system. As a conclusion, the general hypothesis of this study is mainly and in many items supported: Emergency medicine benefits from telemedical support via video- and audio link as studied here with a newly developed real-time HD-video system called LiveCity camera, whenever paramedics at a remote emergency site request consultation or mentoring by a distant emergency doctor.
Since its introduction in 2006, the NOD/scid mouse model has greatly contributed to the understanding of the pathomechanisms of antibody-mediated thrombocytopenia. This progress has however been hampered by inter-laboratory differences. With this work, we make several suggestions to minimise these differences:
We suggest that human platelets (blood group 0) be injected into the mice (age- and sex-matched, 8-16 weeks) via the tail vein. For antibody injection, scientists may choose between intraperitoneal and tail vein injection, each of which has strengths and drawbacks. In case of low antibody titer or low avidity antibodies, preincubation of the platelets with the patient serum prior to injection promotes platelet elimination where standard protocols fail. For subsequent sample preparation, we found that newly-launched ready-to-use kits present a good alternative to classical density gradient centrifugation by reducing man-hours and turnover time without affecting the quality of flow cytometry analysis.
In a second part, we used the revised mouse model to study anti-CD36 mediated thrombocytopenia in vivo. Anti-CD36 antibodies have been suggested as frequent case for FNAIT in Asia. The mechanisms behind this remain partly unclear. After injecting anti-CD36 monoclonal antibody or anti-CD36 patient immunoglobulin into the system, circulating human platelets were rapidly cleared. Interestingly, the polyclonal patient immunoglobulins used were not uniform in their anti-platelet reactivity. On further examination, we found that the anti-CD36 antibodies induce platelet activation and aggregation, which we were able to inhibit by the addition of an Fcγ-receptor blocking agent. This suggests a possible role for Fcγ-receptor in the activation and elimination process.
As our results from the experiments on the role of complement in the elimination process are however ambiguous, further studies are needed. The clinical relevance of anti-CD36 antibody-mediated platelet activation and aggregation for the high abortion rates in affected women has yet to be evaluated.
Many ethicists consider the rule of nonmaleficence – Do no harm! – to be the most fundamental ethical rule and key to ethics. This rule is taken as the foundation of the present work. I argue that any entity, that can be harmed, ought to be morally considered. Only those entities can be harmed that are inherently goal-directed or striving – in other words, that possess a telos. The reason is that by constantly acting in ways to preserve their being and to prevent their own not-being, goal-directed entities express that they value their own good. To harm such a goal-directed entity therefore means to act against the values and the good of it. The argument so far supports ethical biocentrism, that is, the view that all living, goal-directed beings are harmable, possess interests, and are, thus, morally considerable, while non-living beings are not. Yet, I digress from classical biocentrism since I conclude, based on analysis of evolutionary and biological findings, that the locus of goal-directedness and potential harm is also, if not foremost, situated in genes. Within many species, individual organisms sacrifice themselves for the betterment of their descendants like in praying mantises where males sacrifice themselves and are eaten by the female during copulation. This shows that it is not necessarily the organism as an individual which follows its own interests and goals. Individual organisms are – to a high degree – “directed” by their genes. Even in highly developed animals, genes play a significant role in the goal-directedness of the individuals. An adult human organism, for example, consists of trillions of individual cells. However, all these cells are derived from a single cell – the fertilized egg. Each of our lives begins with a single cell that contains almost all information to finally form our functioning body. Where do all the instructions, the goal-directedness come from to finally form an adult organism if not from the genes contained in this first cell, the zygote? It is the genes of each zygote that contain a set of information for making the appropriate adult. Organisms are largely programmed to do everything necessary to stay in existence, to survive, and finally to pass on their genes successfully – either by reproducing or by helping close relatives that carry a similar set of genes. The main interests of genes lie in their continued existence. This necessitates reproduction since the gene-carrying organisms will inevitably die. Single genes, though, are difficult to morally consider directly since they perform entirely in and through individual organisms. Without the individual organisms, genes cannot survive. The good news for ethics is that the interests of genes and organism usually converge: individual organisms try to survive – as do their genes. In practice, it thus makes much more sense to give moral attention to entire organisms instead of single genes. An advantage of the gene-centric ethical theory proposed here is that the moral relevance of future generations and species can be “directly” justified: Since genes have an interest in their continued existence (in the form of identical copies), they would be harmed if future generations were doomed to inexistence. Within a species with many individuals, each gene is likely to be represented in many organisms. The smaller the gene pool of a species gets, the less likely is the existence of the same gene and, therefore, the less likely is the fulfillment of its fundamental interests. Hence, saving one of the last individuals of an endangered species would be ethically preferable to saving an individual of a populous species. Unfortunately, moral conflicts are abundant – not only concerning biodiversity conservation. We often have to choose between harming either entity A or entity B – for example in the daily questions of food and eating. In such cases, a strictly egalitarian theory (especially an egalitarian biocentric one) would be no real help and without any guiding power. Therefore, on a second level of morality, we have to include additional criteria that help to minimize the overall harm. For these criteria to be objective, universalizable, and thus moral ones, I apply a number of widely accepted ethical principles like the principle of proportionality, impartiality, self-defense, and universalizability. By recurring to these principles, I identify a set of morally relevant criteria for a fair resolution of moral conflict situations which help to minimize the overall harm done. The identified criteria are: (phylogenetic) nearness, endangerment, r- or K-selected species, evolutionary distinctiveness, ability to regrow and to regenerate, pain-susceptibility, and ecosystematic role. In sum, my gene-centric environmental ethical theory provides numerous reasons and arguments for biodiversity conservation – for protecting genes, organisms, species, and ecosystems alike – without neglecting the needs of humans.
Surface and electrode modifications allow the alteration of surface and electrode properties required for certain applications. In the first part of this thesis, a pH sensitive graphite/quinhydrone composite electrode for Flow-Injection-Analysis (FIA) systems was optimized by using polysiloxane as binder material. This allows an easier handling of the electrode. Furthermore, new applications of the FIA system in conjunction with the pH sensitive detection system were developed. The electrode used here in conjunction with a common reference electrode proved to be a very useful potentiometric detector for FIA acid-base titrations of aqueous solutions. Even acid-base titrations in buffered solutions were performed successfully with the FIA system allowing the determination of activities of enzymes, which catalyse reactions with increasing or decreasing proton concentrations. A FIA system was applied to measure calcium and magnesium ions in different water samples by measuring the hydronium ion release during the complexometric reaction between EDTA and calcium or magnesium ions. A method was established to determine sequentially the titratable acidity and the pH of different wine samples. The new FIA method fulfils the official requirements of the "Organisation Internationale de la Vigne et du Vin" with respect to reproducibility and repeatability and can be easily adjusted to the legal requirements in USA and Europe. In summary, the first part of this thesis shows that the FIA system in conjunction with the graphite/quinhydrone/polysiloxane composite electrode is very well suited for simple, rapid and automatic determinations of small sample volumes in the areas of water analysis, food analysis or even biochemical analysis, provided that hydronium ions are involved. For all applications, one and the same measuring device without changing the detection system is used. Only different carrier solutions are necessary, which can be provided by a proper stream selector. The second part of this thesis is focused on the modification of gold surfaces of medical devices by treatment with OH radicals. These investigations are based on previous studies of the impact of OH radicals on mechanically polished gold surfaces resulting in a smoothing of the surface by dissolution of highly reactive gold atoms. In this thesis, the effect of OH radicals, generated either ex vivo by Fenton solutions or in vivo by immune reactions, on gold implants was analysed using atomic force microscopy. It was found that there is an analogy between the exposure of gold to Fenton solutions and the exposure of gold to immune reactions. The pre-treatment of gold implants with OH radicals of Fenton solution prevents surface alterations of the gold implants in vivo. This indicates that the in vivo release of gold from implants can be reduced by exposing the gold implants to Fenton solution before implantation. Finally, the modification of gold surfaces by OH radicals was applied to a medical nanodetector, which is coated with a gold layer and functionalized with antibodies, for isolating circulating tumour cells (CTCs) from the blood stream of cancer patients. By treating the gold layer of the nanodetector with OH radicals generated by Fenton solution or by UV-photolysis of hydrogen peroxide, the cytotoxicity of the gold layer after gamma irradiation was reduced to almost zero. This modification of the gold surface with OH radicals allows applying the nanodetector for in vivo applications.
Streptococcus pneumoniae is a commensal of the human upper respiratory tract and
the etiological agent of several life-threatening diseases. This pathogen is the model bacterium
for natural competence. Furthermore, the pneumococci played an important role in the
identification of DNA as the main molecule involved in bacterial transformation. As a result,
studies on the pneumococcal genome provided an initial overview of the genetic potential of
this pathogen. The pneumococcus is a highly versatile bacterium possessing a high rate of
uptake and recombination of exogenous DNA from neighboring bacteria. As such, a significant
diversity in the genome content among the different pneumococcal strains has been reported.
The capsular polysaccharide, an important pneumococcal virulence factor, is the best example
on the pneumococcal diversity. There are over 98 serotypes characterized to date presenting
differences in their capsule (cps) locus. Additional to the cps locus, the pneumococcus also
presents 13 genomic islets annotated as regions of diversity (RD) encoded in the auxiliary
genome. Remarkably, 8 of the pneumococcal RD studied so far have been associated with
virulence. Furthermore, the ongoing sequencing of over 4000 pneumococcal genomes have
shed light on the conservation level of well-known pneumococcal virulence factors.
Interestingly, important pneumococcal virulence determinants show variations in the gene and
protein sequence among the different strains. Prototypes are for example the pneumococcal
surface protein C (PspC) and pneumococcal adherence and virulence factor B (PavB).
Conversely, gene regulation in S. pneumoniae is carried out by highly conserved and genome-
wide distributed transcriptional factors. Overall, the pneumococci interplays with its
environment with 4 major regulatory systems: quorum sensing (QS), stand-alone
transcriptional regulators, small RNAs (sRNAs) and two-component regulatory systems (TCS).
Some of these systems are multifaceted and share more than one feature. Furthermore, there
is crosstalk among the different systems, requiring the activation of a signaling cascade to
function properly.
A comprehensive analysis of the distribution and conservation of pneumococcal
virulence factors and TCS was obtained in this study. The results are summarized as a
simplified variome in which 25 pneumococcal strains with a complete sequenced genome were
analyzed. Interestingly, the genes encoding the glycolytic protein enolase and the toxin
pneumolysin were the most conserved virulence determinants. Additionally, the high level of
conservation was confirmed for the pneumococcal TCS regulators, especially for WalKR,
CiaRH and TCS08.
The main focus of this study was on the regulatory functions of pneumococcal TCS.
With this in mind, an extensive and detailed systematic review of the 13 pneumococcal TCS
and its orphan RR was undertaken. For this purpose, every pneumococcal TCS was analyzed
for its reported functional and structural information along with its contribution to the main
pathophysiology of the pneumococci. In brief, S. pneumoniae can utilize its TCS for the
regulation of important cellular processes and the sensing of detectable signals in the
environment. Additionally, the role of TCS in pneumococcal processes and signal sensing can
be divided further. In the first place, pneumococcal TCS regulate competence and fratricide,
the production of bacteriocins and host-pathogen interaction processes, while the detectable
signals include cell-wall perturbations, environmental stress, and nutrients. As a conclusion
from this section, it is possible to analyze the pneumococcal TCS in a comprehensive manner.
There is a complex network among the different pneumococcal regulators and the TCS play
an important role. Moreover, these systems are highly conserved and essential for the proper
functioning of the pneumococcus as a pathogen.
Following up on pneumococcal TCS, this study focused especially on the TCS08.
Interestingly, the pneumococcal TCS08 has been previously associated with the regulation of the cellobiose metabolism. Furthermore, this system has also been reported to regulate the
expression of genes encoded in the RD4 (Pilus-1). Remarkably, the pneumococcal TCS08
was shown to be highly homologous to the SaeRS system of Staphylococcus aureus. Initially,
mutant strains lacking a single (Δrr08 or Δhk08) or both components (Δtcs08) of the TCS08
were generated in pneumococcal D39 and TIGR4 strains. Transcriptomics and functional
assays showed a downregulation of the PI-1 in the absence of the complete tcs08, while PavB
presented an upregulation in the Δhk08 knockout. Moreover, an important number of genes
coding for intermediary metabolism proteins were also found to be differentially expressed by
microarray analysis. As such, the TIGR4Δhk08 strain presented a downregulation for the
cellobiose operon (cel). In contrast, an upregulation was reported for the fatty acid biosynthesis
(fab) and arginine catabolism (arc) operons. Conversely, a decrease in gene expression was
seen in the TIGR4Δrr08 strain for the arc operon. Finally, in vivo murine pneumonia and sepsis
models highlighted an involvement of TCS08 in pneumococcal virulence. Remarkably, the
different TCS08 mutants presented a strain dependent effect on their virulence severity. The
TIGR4Δrr08, and all TCS08 mutants in D39 showed a decrease in virulence in the pneumonia
model, with no changes in sepsis. Conversely, the absence of HK08 in TIGR4 presented a
highly virulent phenotype in both pneumonia and sepsis models. To sum up, the pneumococcal
TCS08 influenced the expression of genes involved in fitness and colonization. Specifically,
those coding for the adhesins PavB and PI-1 and fitness proteins from the cel, arc and fab
operons. Remarkably, the highest changes in expression were observed in the strains lacking
the HK08. Additionally, TCS08 has a strain dependent impact on pneumococcal virulence as
showed by murine pneumonia and sepsis models when comparing the effects in D39 and
TIGR4.
An interesting subclass of the SLs are Cers, the simplest SLs. Cers are assigned a special role within SLs because of their involvement in many cellular and biophysical processes.In literature Cers are describe to modulate many events in signaling including apoptosis. Besides its role as second messenger and therefore the involvement in many signal cascades, Cers are also known to be essential in physical modifications and structural alternations of membranes. Such regulatory functions on membrane formation are e.g. domain formation with other lipids (i.g. SM and Chol), phase separation with sterols (Chol), vesicular trafficking, fusion, membrane curvature fluidity and thickness and the induction of membrane leakiness. In contrast to phospholipids, Cers can move from one side of the membrane leaflet to the other, due to their strong hydrophobicity. This movement is called flip-flop or as transbilayer movement and is controversially discussed. Consequently, no exact value has been reported about the flip-flop property of Cers, which probably plays an important role during the transmission of an extra cellular signal through the membrane.In order to probe the biophysical properties of ceramides, a synthetic access to 1-thioceramides (1-SHCer) analogues with different N-acyl chain length has been developed in this study. With 1SHCer the flip-flop was investigated on pre-formed liposomes and the data indicated a very rapid flip-flop of Cers with a half time t1/2 <10s in raft- and non-raft like membrane models. Furthermore, the acyl chain length exhibited no measurable impact on the speed of the flip-flop. Utilizing the same probes the importance of hydrogen bond donor and acceptor properties of Cers upon interaction with sphingomyelin in the presence or absence of cholesterol (Chol) has been probed. Performed fluorescent quenching experiments (P.Slotte) proposed the following relative preference in interaction with pSM:pSM:DAGs > pSM:Cer > pSM:Chol > pSM: 1-pCerSH.Most strikingly, the importance of the 1-OH H-bond acceptor functionality to replace Chol around and above the melting temperature of pSM has been demonstrated. Recently, an unusual subclass of SLs, named 1-deoxysphingoids have come to the foreground, as biomarker for metabolic disorders. 1-doxSA is physiologically generated (10-40nM) due to substrate promiscuity of SPT and shown to be elevated in patients with metabolic disorders. In this study an organic synthetic access to fluorescent DSB derivatives was established, featuring a fluorescent moiety at the lipid tail, such as FITC 26. Comprehensive fluorescent studies of 26 revealed an unusual subcellular distribution. Exogenous 1-doxSA analogues, such as FB1 and 1-doxSA-FITC, enter via specific entry points. During the next few hours these lipids accumulate within the cytosol prior to N-acylation by CerS. Upon N-acylation, the newly formed 1-doxdhCer and its analogues insert into the ER membrane.The fluorescent probe and most likely FB1 analogues accumulate within the late endosomal and lysosomal system, probably via a direct connection with the ER. Analysis of the lipid metabolism of unlabeled 1-doxSA and FB1 revealed a strikingly similar behavior, pointing towards a common pharmacological effect. Complete consumption of TG within 24h in epithelia cells combined with GO analysis of 1-doxSA interacting lipids indicates significant modulation of fatty acid degradation, pointing towards regulation of the energy metabolism. This is in good agreement with the observed induction of autophagy. Together, this rapid and similar metabolic change of both 1-doxSA and FB1, points toward direct 1-doxSA head-group related lipid-protein interaction and less toward the influence of FB1 on CerS activity. This work suggests the biological significance of 1-doxSA as a primary nutrient sensor to maintain nutrient homeostasis and its role in the pathophysiology of metabolic diseases.