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Liu–II coal pit is a typical example of China’s deep coal mines which is seriously threatened by groundwater inrush from the underlying carboniferous Taiyuan limestone formation. An exhaustive data set of this confined aquifer exists. The aquifer lies 45 m∼ 60 m below the major coal seam. A traditional artesian aquifer test has been performed in order to assess the hydraulic properties, e.g. transmissivity (T) and storage coefficient (S). This artesian aquifer test is conducted with four simultaneously operating production wells while the discharge of each production well varied with time. The results of this test suggest that the aquifer is heterogeneous. Therefore, the according problems are: (1) how to analyze the artesian aquifer test with linearly declining discharge; (2) how to deal with multiple production wells in an aquifer test; (3) how to adequately consider aquifer heterogeneity. Thus, the objective of this thesis is to solve these problems. 1) As opposed to classical above-ground pumping tests, it is difficult to control the discharge rate of the production well in a deep mine artesian aquifer test since the hydraulic pressure is extraordinary high. Moreover the discharge rate won’t descend rapidly to zero, thus the analytical solution of Jacob and Lohman (1952) type curve for the artesian aquifer test will not be applicable. It is more reasonable to analyze the test as a pumping test with variable discharge. It is considered to rebuild a hydrogeological conceptual model which is similar with Theis (1935) model but with the variable discharge. A general equation for any discharge variability is given. Its application for the linearly declining discharge is presented subsequently, and a type curve of this equation with linearly declining discharge is given as well. After that, a simple numerical model is built by FEFLOW to simulate an artificial pumping test with the linearly declining discharge by assigning different parameter sets for transmissivity and storage coefficient. The type curve method is applied to evaluate transmissivity and storage coefficient for the linearly declining discharge well. The deviation between the given values of transmissivity and storage coefficient in FEFLOW and the values of those calculated by matching point are sufficiently small. Thus, when the discharge of production well declines linearly, a type curve method as an empirical method is reasonable and gives satisfactory values of these hydrogeological parameters. 2) In some cases, it is necessary to conduct a pumping test (or an artesian aquifer test) with several pumping wells (or production wells) which work simultaneously in order to discharge maximum quantity of groundwater. Normally, the superposition method or numerical simulation is applied to analyze the test result. However, a new approach called “Well Generalization Method” is defined and analyzed in this thesis. It is an easy–to–use approach for hydrogeologist to estimate the aquifer parameters while conducting an aquifer test. Since the key point of this approach is using a generalization well to substitute the pumping (or production) wells, it is obvious that this approach will generate the estimated error of parameters. Accordingly, several scenarios are analyzed and discussed based on the artificial type aquifer designed in FEFLOW. A homogeneous aquifer and a heterogeneous aquifer which is generated by geostatistical stochastic simulation technique (see 3)) are discussed separately. As a result, this approach is feasible and applicable under some conditions when the calculated observation well is arranged more than about 2.5 times the scale of the multi–pumping–wells field away from the center of the multi–pumping–wells field, furthermore, the maximum deviation of drawdown resulting from these observation wells will be less than 0.5 m, and the estimated value of transmissivity will be 0.44% smaller than real value. 3) Finally aquifer heterogeneity is addressed, in order to check the introduced method for applicability under realistic conditions. It has been described that aquifer heterogeneity plays a major role in hydrodynamic processes (e.g. de Marsily et al., 1998). Geostatistics which is considered as a useful tool for characterizing the spatial variability of transmissivity is applied to solve this problem. Based on the results of the artesian aquifer test conducted in Liu–II coal pit, a model of spatial variability of transmissivity is developed. Sequentially, the variogram model is applied in ordinary kriging to interpolate the transmissivity distribution, and in sequential Gaussian simulation to simulate a random field of transmissivity data in order to reflect its small scale variability. A comparison of the results of estimation and simulation of transmissivity indicates that the simulated values better reflect the spatial variability, reversely, the estimated values are much smoother.
A slice is an intersection of a hyperplane and a self-similar set. The main purpose of this work is the mathematical description of slices. A suitable tool to describe slices are branching dynamical systems. Such systems are a generalisation of ordinary discrete dynamical systems for multivalued maps. Simple examples are systems arising from Bernoulli convolutions and beta-representations. The connection between orbits of branching dynamical systems and slices is demsonstrated and conditions are derived under which the geometry of a slice can be computed. A number of interesting 2-d and 3-d slices through 3-d and 4-d fractals is discussed.
The collisionless tearing mode is investigated by means of the delta-f PIC code EUTERPE solving the gyrokinetic equation. In this thesis the first simulations of electromagnetic non-ideal MHD modes in a slab geometry with EUTERPE are presented. Linear simulations are carried out in the cases of vanishing and finite temperature gradients. Both cases are benchmarked using a shooting method showing that EUTERPE simulates the linearly unstable tearing mode to a very high accuracy. In the case of finite diamagnetic effects and values of the linear stability parameter Delta of order unity analytic predictions of the linear dispersion relation are compared with simulation results. The comparison validates the analytic results in this parameter range. Nonlinear single-mode simulations are performed in the small- to medium-Delta range measuring the dependency of the saturated island half width on the equilibrium current width. The results are compared with an analytic prediction obtained with a kinetic electromagnetic model. In this thesis the first simulation results in the regime of fast nonlinear reconnection~(medium- to high-Delta range) are presented using the standard gyrokinetic equation. In this regime a nonlinear critical threshold has been found dividing the saturated mode from the super-exponential phase for medium-Delta values. This critical threshold has been proven to occur in two slab equilibria frequently used for reconnection scenarios. Either changing the width of the equilibrium current or the wave number of the most unstable mode makes the threshold apparent. Extensive parameter studies including the variation of the domain extensions as well as the equilibrium current width are dedicated to a comprehensive overview of the critical threshold in a wide range of parameters. Additionally, a second critical threshold for high-Delta equilibria has been observed. A detailed comparison between a compressible gyrofluid code and EUTERPE is carried out. The two models are compared with each other in the linear regime by measuring growth rates over wave numbers of the most unstable mode for two setups of parameters. Analytical scaling predictions of the dispersion relation relevant to the low-Delta regime are discussed. Employing nonlinear simulations of both codes the saturated island half width and oscillation frequency of the magnetic islands are compared in the small-Delta range. Both models agree very well in the limit of marginal instability and differ slightly with decreasing wave vector. Recently, the full polarisation response in the quasi-neutrality equation was implemented in EUTERPE using the Padé approximation of the full gyrokinetic polarisation term. Linear simulation results including finite ratios of ion to electron temperature are benchmarked with the dispersion relation obtained from a hybrid model. Finite temperature effects influence the saturated island width slightly with increasing ion to electron temperature ratio which has been verified by both models.
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.
Cervical Artery Dissection in Young Adults in the Stroke in Young Fabry Patients (sifap1) Study
(2015)
Background: Patients with carotid artery dissection (CAD) have been reported to have different vascular risk factor profiles and clinical outcomes to those with vertebral artery dissection (VAD). However, there are limited data from recent, large international studies comparing risk factors and clinical features in patients with cervical artery dissection (CeAD) with other TIA or ischemic stroke (IS) patients of similar age and sex. Methods: We analysed demographic, clinical and risk factor profiles in TIA and IS patients ≤55 years of age with and without CeAD in the large European, multi-centre, Stroke In young FAbry Patients 1 (sifap1) study. Patients were further categorised according to age (younger: 18-44 years; middle-aged: 45-55 years), sex, and site of dissection. Results: Data on the presence of dissection were available in 4,208 TIA and IS patients of whom 439 (10.4%) had CeAD: 196 (50.1%) had CAD, 195 (49.9%) had VAD, and 48 had multiple artery dissections or no information regarding the dissected artery. The prevalence of CAD was higher in women than in men (5.9 vs. 3.8%, p < 0.01), whereas the prevalence of VAD was similar in women and men (4.6 vs. 4.7%, n.s.). Patients with VAD were younger than patients with CAD (median = 41 years (IQR = 35-47 years) versus median = 45 years (IQR = 39-49 years); p < 0.01). At stroke onset, about twice as many patients with either CAD (54.0 vs. 23.1%, p < 0.001) or VAD (63.4 vs. 36.6%, p < 0.001) had headache than patients without CeAD and stroke in the anterior or posterior circulation, respectively. Compared to patients without CeAD, hypertension, concomitant cardiovascular diseases and a patent foramen ovale were significantly less prevalent in both CAD and VAD patients, whereas tobacco smoking, physical inactivity, obesity and a family history of cerebrovascular diseases were found less frequently in CAD patients, but not in VAD patients. A history of migraine was observed at a similar frequency in patients with CAD (31%), VAD (27.8%) and in those without CeAD (25.8%). Conclusions: We identified clinical features and risk factor profiles that are specific to young patients with CeAD, and to subgroups with either CAD or VAD compared to patients without CeAD. Therefore, our data support the concept that certain vascular risk factors differentially affect the risk of CAD and VAD.
Background: A telemedicine care concept based on telephone contacts and individualized text messages was developed for patients with mental disorders to continue treatment after therapy in a psychiatric day hospital. The primary objective of this study was to evaluate the effectiveness of the telemedicine interventions. Methods: The study had a 3-armed, randomized design with 2 intervention arms (intervention 1: telephone contacts; intervention 2: telephone contacts and short text messages; both took place over a period of 6 months and in addition to usual care), and a control group with usual care. Primary outcomes were 18-item Brief Symptom Inventory (BSI-18) scores for anxiety, depression and somatization. All participants were recruited from psychiatric day hospitals. The study was registered in the German Clinical Trials Register (DRKS00000662). Results: 113 participants were analyzed 6 months after starting the intervention. The average BSI-18 anxiety score after 6 months was -2.04 points lower in intervention group 2 than in the control group (p value: 0.042). The difference in BSI depression score between these two groups was marginally significant (p value: 0.1), with an average treatment effect of -1.73. In an exploratory sensitivity analysis restricted to the 75% of patients with the highest symptom scores at baseline, intervention group 1 yielded a significant effect for anxiety and depression compared to the control group (p = 0.036 and 0.046, respectively). Conclusions: Telemedicine provides a novel option in psychiatric ambulatory care with statistically significant effects on anxiety. A positive tendency was observed for depression, especially in cases with higher symptom load at baseline.
Clinically Relevant Depressive Symptoms in Young Stroke Patients - Results of the sifap1 Study
(2015)
Background: Although post-stroke depression is widely recognized, less is known about depressive symptoms in the acute stage of stroke and especially in young stroke patients. We thus investigated depressive symptoms and their determinants in such a cohort. Methods: The Stroke in Young Fabry Patients study (sifap1) prospectively recruited a large multinational European cohort (n = 5,023) of patients with a cerebrovascular event aged 18-55. For assessing clinically relevant depressive symptoms (CRDS, defined by a BDI-score ≥18) the self-reporting Beck Depression Inventory (BDI) was obtained on inclusion in the study. Associations with baseline parameters, stroke severity (National Institutes of Health Stroke Scale, NIHSS), and brain MRI findings were analyzed. Results: From the 2007 patients with BDI documentation, 202 (10.1%) had CRDS. CRDS were observed more frequently in women (12.6 vs. 8.2% in men, p < 0.001). Patients with CRDS more often had arterial hypertension, diabetes mellitus, and hyperlipidemia than patients without CRDS (hypertension: 58.0 vs. 47.1%, p = 0.017; diabetes mellitus: 17.9 vs. 8.9%, p < 0.001; hyperlipidemia: 40.5 vs. 32.3%, p = 0.012). In the subgroup of patients with ischemic stroke or TIA (n = 1,832) no significant associations between CRDS and cerebral MRI findings such as the presence of acute infarcts (68.1 vs. 65.8%, p = 0.666), old infarctions (63.4 vs. 62.1%, p = 0.725) or white matter hyper-intensities (51.6 vs. 53.7%, p = 0.520) were found. Conclusion: Depressive symptoms were present in 10.1% of young stroke patients in the acute phase, and were related to risk factors but not to imaging findings.
‘Chameleonic' Serological Findings Leading to Life-Threatening Hemolytic Transfusion Reactions
(2015)
Background: The phenomena of co-incidence of transfusion-induced allo- and autoantibodies, blockage and/or loss of red blood cell (RBC) antigens are conspicuous and may result in confusion and misdiagnosis. Case Report: A 67-year-old female was transferred to the intensive care unit due to hemolysis which developed 2 days following transfusion of three Rh(D)-negative RBC units in the presence of strongly reactive autoantibodies. Standard serological testing and genotyping were performed. Upon arrival, the patient was typed as Ccddee. Her hemolysis was decompensated, and an immediate blood transfusion was required. In addition, direct and indirect antiglobulin tests (DAT and IAT) as well as the eluate were strongly positive. Emergency transfusion of Rh(D)-negative RBCs resulted in increased hemolysis and renal failure. An exhaustive testing revealed anti-D, anti-c, CCddee phenotype and CCD.ee genotype. Three units of cryopreserved CCddee RBCs were transfused, and the patient's condition immediately improved. The discrepancy between Rh-D phenotyping and genotyping was likely caused by masking of the D-epitopes by the autoantibodies. In fact, further enquiry revealed that the patient had been phenotyped as Rh(D)-positive 6 months ago and had been transfused at that time following hip surgery. Conclusion: The phenomena of transfusion-induced autoantibodies, masked alloantibodies, antigen blockage and/or loss are rare but important features which should be considered in patients presenting with autoimmune hemolytic anemia and/or hemolytic transfusion reactions.
Structure– and sequence–function relationships in (S)-amine transaminases and related enzymes
(2015)
Chiral primary amines are valuable building blocks for many biologically active compounds. Environmentally friendlier alternatives to the classical methods for α-chiral primary amine synthesis are highly desired. A biocatalytic alternative that recently proved beneficial for industrial applications is asymmetric synthesis utilising (S)-selective amine transaminases (S-ATAs). These enzymes can be utilized to transaminate a prochiral ketone with an amino donor (e.g. isopropylamine), to achieve a chiral amine and a carbonyl product (e.g. acetone). However, for several potential applications protein engineering is required to fit (S)-ATAS to the demands of an industrial process. Since no (S)-ATA crystal structure required for understanding the substrate recognition and thus protein engineering was available, we first aimed at obtaining structural data. Instead of solving crystal structures ourselves, we took advantage of structural genomics projects and discovered, that the protein data bank (PDB) already contained crystal structures of four enzymes with unknown function that we hypothesised to possess (S)-ATA activity. After developing a screening method, the four enzymes could be characterized as ω-amino acid:pyruvate transaminases (ωAA:pyr TAs). (S)-amine conversion was suggested to be a ‘substrate-promiscuous’ activity of these enzymes, as it is pronounced differently in the four investigated ones. By comparing the active sites of the highly and poorly active (S)-ATAs, the residues that determine the ability of amine conversion in these enzymes were discovered. Furthermore, the mechanism for dual substrate recognition, the binding of both, carboxyl and bulky hydrophobic substrates in the same active site, could be elucidated with the crystal structures. A flexible arginine side chain is able to adopt various positions thus enabling carboxylate binding and by ‘flipping’ out of the active site, to create space for amine binding. Then, a limitation of these enzymes, the restricted substrate scope caused by a small binding pocket was addressed. First, a rational protein engineering approach was set up to create more space. The tested mutations, however, destroyed most of the activity for both regular and more bulky substrates. We thus learned that the structural requirements for (S)-ATA activity are more complex than initially anticipated and a semi-rational approach was applied to broaden the substrate scope. By systematic saturation of active site positions, substantially improved mutants for bulkier amine synthesis could be obtained. As this study highlighted a lack of understanding of (S)-ATA, the functional important residues in the enzymes belonging to the class III TA family were surveyed. This family is defined by common sequence and structure features and besides (S)-ATAs mainly comprises TAs of various substrate scopes but also a few phospholyases, racemases and decarboxylases. To enable the comparison of active site residues among them, a commercial bioinformatics tool was used to create a family wide structure-based alignment of around 13,000 sequences. Based on statistical analyses of this alignment, structural inspections and literature evaluation, active site residues crucial for certain specificities within this family have been identified. By investigating the ingenious active site designs that enable such a plethora of reactions, and by identifying sets of functional important residues termed ‘active site fingerprints’, the understanding of catalysis in this enzyme family could be broadened. Furthermore, these functional important residues can on the one hand be applied to predict the specificity of uncharacterised enzymes, if a fingerprint is matched. On the other hand, if no fingerprint is matched, they can help to discover yet unknown activities or mechanisms to achieve a known specificity. We exemplified the latter case by functionally characterising a Bacillus anthracis enzyme with the crystal structure 3N5M, whose substrate specificity was unknown and could not be predicted. The 3N5M enzyme was found to possess ωAA:pyr TA and (S)-ATA activity even though it lacks the above-mentioned ‘flipping’ arginine. Based on molecular dynamics simulations we were able to propose an alternative mechanism for dual substrate recognition in the B. anthracis ωAA:pyr TA. By these findings the understanding of the requirements for (S)-ATA activity could be further broadened and a functional knowledge gap within the class III TA family was closed. The active site residue composition in 3N5M is now connected to enzymatic function and may be applied for future specificity predictions.
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 Institute of German Dentists [Institut der Deutschen Zahnärzte (IDZ)] conducted four national cross-sectional surveys of oral health in the German resident population [German Oral Health Studies, "Deutsche Mundgesundheitsstudien", (DMS)]: in 1989 (DMS I, only West Germany), 1992 (DMS II, only East Germany), 1997 (DMS III), and 2005 (DMS IV). In this study, the first two surveys (1989/92) were merged to achieve comparability with the last two studies. The Studies of Health in Pomerania (SHIP) are two independent regional cross-sectional population-based studies conducted during 1997-2001 (SHIP-0) and 2008-2012 (SHIP-Trend) in northeast Germany. In this thesis, we addressed three main questions: First, we aimed to explore the relative contributions of clinical oral health variables assessing caries, periodontal status, and prosthetic status to self-perceived oral health by means of an age-specific approach in DMS IV. Second, we aimed to assess the changes of dental health in West and East Germany between 1989 and 2005 in DMS I-IV. Third, we aimed to evaluate the changes of periodontal status and number of teeth within the last decade based on data from the DMS and the SHIP studies. To explore the associations of self-perceived oral health with clinical oral health variables, we developed separate multinomial logistic regression models for adults and seniors in DMS IV by using stepwise methods. To assess the changes of dental health in West and East Germany between 1989 and 2005, we applied regression models and assessed associations between region, survey year, their interactions and variables assessing dental disease status (number of missing, filled, decayed and sound teeth, the DMFT-index and the probability of having ≤20 teeth), adjusting for potential risk factors for caries. To assess changes of periodontal status in Germany, prevalences, percentages and numbers of teeth affected were defined. In summary, the number of unreplaced teeth showed the strongest association with self-perceived oral health in adults and was the second variable to enter the model for seniors during the stepwise selection process. Between 1997 and 2005, the number of missing teeth considerably decreased in DMS but East Germans had consistently more missing teeth than West Germans in each survey year. Further, during the last decade, the periodontal status significantly improved in SHIP and in West German adults, which might translate into a even higher tooth retention in the future.
Today the process of improving technology and software allows to create, save and explore massive data sets in little time. "Big Data" are everywhere such as in social networks, meteorology, customers’ behaviour – and in biology. The Omics research field, standing for the organism-wide data exploration and analysis, is an example of biological research that has to deal with "Big Data" challenges. Possible challenges are for instance effcient storage and cataloguing of the data sets and finally the qualitative analysis and exploration of the information. In the last decade largescale genome-wide association studies and high-throughput techniques became more effcient, more profitable and less expensive. As a consequence of this rapid development, it is easier to gather massive amounts of genomic and proteomic data. However, these data need to get evaluated, analysed and explored. Typical questions that arise in this context include: which genes are active under sever al physical states, which proteins and metabolites are available, which organisms or cell types are similar or different in their enzymes’or genes’ behaviour. For this reason and because a scientist of any "Big Data" research field wants to see the data, there is an increasing need of clear, intuitively understandable and recognizable visualization to explore the data and confirm thesis. One way to get an overview of the data sets is to cluster it. Taxonomic trees and functional classification schemes are hierarchical structures used by biologists to organize the available biological knowledge in a systematic and computer readable way (such as KEGG, GO and FUNCAT). For example, proteins and genes could be clustered according to their function in an organism. These hierarchies tend to be rather complex, and many comprise thousands of biological entities. One approach for a space-filling visualization of these hierarchical structured data sets is a treemap. Existing algorithms for producing treemaps struggle with large data sets and have several other problems. This thesis addresses some of these problems and is structured as follows. After a short review of the basic concepts from graph theory some commonly used types of treemaps and a classification of treemaps according to information visualization aspects is presented in the first chapter of this thesis. The second chapter of this thesis provides several methods to improve treemap constructions. In certain applications the researcher wants to know, how the entities in a hierarchical structure are related to each other (such as enzymes in a metabolic pathway). Therefore in the 3 third chapter of this thesis, the focus is on the construction of a suitable layout overlaying an existing treemap. This gives rise to optimization problems on geometric graphs. In addition, from a practical point of view, options for enhancing the display of the computed layout are explored to help the user perform typical tasks in this context more effciently. One important aspect of the problems on geometric graphs considered in the third chapter of the thesis is that crossings of edges in a network structure are to be minimized while certain other properties such as connectedness are maintained. Motivated by this, in the fourth chapter of this thesis, related combinatorial and computational problems are explored from a more theoretical point of view. In particular some light is shed on properties of crossing-free spanning trees in geometric graphs.
Mutualisms are ubiquitous in nature and shape whole ecosystems. Although species benefit by interacting with each other, they permanently act selfishly. As a consequence, the involved partners must balance gaining the maximal benefit while accepting a certain amount of costs. Changes in the environment, however, may alter selection pressures and lead to a shift in the relative costs and benefits for both involved species. Due to this complexity, many mutualisms and their underlying processes, such as the dependence of the involved species on each other, are only poorly understood. Moreover, in several so-called mutualistic interactions it is unclear if they are in fact beneficial for all partners because detailed cost-benefit analyses are missing. The aim of my thesis was to contribute to a better understanding of the basic principles of mammal-plant mutualisms with special emphasis on the interdependence of the involved species. Using the interaction between an insectivorous bat species (Kerivoula hardwickii) and carnivorous pitcher plants (genus Nepenthes) as a model system, I conducted a detailed cost-benefit analysis to test if the partners interact mutualistically and are strongly dependent on one another. I hypothesised that pitchers of these plants serve as high quality roosts for the bats while the bats in turn fertilise the plants via their nutritious faeces. For the involved species the costs of the interaction should be lower than the gained benefits, but general costs should increase in the absence of the partner. Over the course of my field research, I found the bats roosting in three Nepenthes species, but the bats occupied intact pitchers of only one species, Nepenthes hemsleyana. In Nepenthes bicalcarata and Nepenthes ampullaria, the bats used senescing or damaged pitchers whose high amount of digestive fluid had drained off. Thus, only N. hemsleyana was potentially able to digest bat faecal matter, and thereby benefit from the bats. My cost-benefit analysis showed that N. hemsleyana plants strongly benefited from their bat interaction partner: In feeding experiments the plants gained between 34% and 95% of their nitrogen from bat faeces, which significantly improved their growth, photosynthesis and survival. In contrast, plants without access to faeces could not fully compensate the induced lack of nutrients by using arthropod prey. Field observations revealed no obvious costs for the pitcher plant. N. hemsleyana pitchers occupied by bats did not differ in their lifespan from unoccupied ones as bats did not injure the plants’ tissue. The interaction was also advantageous for K. hardwickii because N. hemsleyana offered high quality roosts with a favourable microclimate and low parasite infestation risk. Consequently, bats roosting in N. hemsleyana pitchers were in better condition than those roosting in dead N. bicalcarata pitchers. Although N. hemsleyana pitchers are rare in the natural habitat, bats could easily find and identify them due to an echo reflector, which reduces time and energy costs for roost detection. Most N. hemsleyana plants continuously provided at least one intact pitcher meaning bats could return to the same plants over a period of several months or even years. The interaction between K. hardwickii and N. hemsleyana can be classified as an asymmetric facultative mutualism with stronger dependence of the plant partner. N. hemsleyana has outsourced arthropod capture and digestion to its mutualistic bat partner while arthropod attraction is strongly reduced. Contrastingly, several populations of K. hardwickii frequently use alternative roosts. Strong selective pressure on the plants could be the consequence to attract bats with a potential stabilising effect on the interaction: N. hemsleyana has to outcompete the involuntarily offered roosts of the other Nepenthes species in terms of quality and accessibility. My thesis revealed complex interdependencies in an animal-plant mutualism. This study exemplifies that rigorous cost-benefit analyses are crucial for the classification of interspecific interactions and the characterisation of how the involved species affect and depend on each other.
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.
Background: Pancreatic ductal adenocarcinoma (PDAC) is characterised by an extremely poor overall survival (OS) compared to other solid tumours. As the incidence of the disease is rising and the treatment options are limited, PDAC is projected to be the 2nd leading cause of cancer-related deaths in the United States by 2030. A majority of patients are not eligible for curative resection at the time of diagnosis, and those that are resected will often relapse within the first few years after surgery. Summary: Until recently, the nucleoside analogue gemcitabine has been the standard of care for patients with non-resectable PDAC with only marginal effects on OS. In 2011, the gemcitabine-free FOLFIRINOX regimen (folinic acid, fluorouracil, irinotecan and oxaliplatin) showed a significant survival advantage for patients with metastatic PDAC in a phase III trial. In 2013, the Metastatic Pancreatic Adenocarcinoma Trial phase III trial with nano-formulated albumin-bound paclitaxel (nab-paclitaxel) in combination with gemcitabine also resulted in a significant survival extension compared to gemcitabine monotherapy. However, both intensified therapy regimens show a broad spectrum of side effects and patients need to be carefully selected for the most appropriate protocol. Key Message: In this study, recent advances in the chemotherapeutic options available to treat metastatic PDAC and their implications for today's treatment choices are reviewed.
In this thesis an artificial enzyme cascade consisting of an ADH from Lactobacillus kefir, a CHMO from Acinetobacter sp. NCIMB 9871 and lipase A from Candida antarctica has been investigated for the biocatalytic synthesis of the bulk chemical ε-caprolactone as well as several derivatives for their direct utilization as polymer building blocks. Due to major limitations, which hamper such a biocatalytic route, the first addressed demand in this work was the improvement of the stability of the CHMO. By structure-guided engineering, distinctively improved variants concerning the resistance against oxidation as well as temperature stability without compromising the catalytic activity were successfully created. Due to the incomplete knowledge of the mechanisms that lead to thermal and/or oxidative inactivation of enzymes, this study illustrates that the selection of mutations for increased protein stability is still hard to predict. Thus, these results can serve as a basis for further stability studies on this enzyme class to give better insights into the underlying mechanisms, which determine the stability of an enzyme. Such a highly stabilized biocatalyst will pave the way for the successful use of flavin-dependent enzymes for industrial applications. A further aim of this thesis was dedicated to the second major hurdle en route to polyester precursors represented by the product inhibition and enzyme deactivation caused by ε-caprolactone, particularly at higher concentrations. To overcome this limitation, we developed an elegant solution in which the ε-caprolactone produced by the one-pot two-step enzymatic method is directly subjected to ring-opening polymerization using the unique lipase A from Candida antarctica. Applying this enzyme cascade in a whole cell biocatalysis in combination with an improved cofactor regeneration approach, the problem of product inhibition problem was efficiently solved leading to the formation of oligo-ε-caprolactone at more than 20 g/L when starting from 200 mM cyclohexanol. By a process development approach through solvent engineering it was found that biotransformations proceed much faster in an isooctane-containing biphasic solvent system when using free enzymes. Finally, the improved enzyme cascade was applied for the synthesis of chiral substrates and provided access to functionalized chiral compounds in high yields (up to >99%) and optical purities (up to >99%ee). By subsequent enzymatic enantioselective ring-opening of the enantiopure monomers, oligomeric lactones were successfully synthesized, which can be directly serve as building blocks for the polymer industry.
Global change, amongst others characterized by increasing temperatures, altered precipitation patterns, an increase of extreme climatic events and continued atmospheric depositions of pollutants, is expected to severely impact forest ecosystems worldwide. The complex interplay between different factors acting upon tree growth, combined with regional patterns in climatic change calls for a region specific evaluation of the possible consequences on forest ecosystems. For northeastern Germany regional climate models identify a rise in temperatures and a change in precipitation patterns. Drier summers and wetter winters together with an increase in extreme weather events are seen as the most pronounced changes that will occur during the 21st century. In this thesis I analysed past growth rates and climate-growth relationships in different stands of beech (Fagus sylvatica L.) and oak (Quercus robur L.) along a gradient of decreasing precipitation in a space for time approach. Special attention was paid to the influence of summer drought, soil waterlogging and the importance of site conditions in modulating the reactions to these climatic stressors. Departing from these retrospective analyses, future growth trends are modelled for beech, oak and Scots pine (Pinus sylvestris L.), based on projections of a regional climate model until the year 2100. Furthermore, I studied the influence of sudden and extreme shifts in hydrological conditions on the growth of oaks in a drained peatland that was subject to catastrophic rewetting. All analyses of this thesis are based on ring-width and wood anatomical features applying a variety of dendrochronological methods. The gradient approach revealed similar climate-growth relationships for beech and oak on drought exposed, sandy sites, where water availability during early summer was the main growth-limiting factor for both species. Decreasing precipitation rates towards the East are associated with higher drought susceptibility, especially for beech. As a result, competitive superiority of beech over oak decreases. In a drier future the competitive balance between the two species may shift (rank reversal). During the past decades beech has shown larger interannual growth variability and a higher number of growth depressions. These changes might indicate that increasing temperatures and climatic variability are already affecting its growth patterns and climate sensitivity. This is in line with the prospective modelling approach. According to our models, growth trends will turn negative for beech and oak towards the end of the 21st century, with beech showing the highest growth reduction (23% compared to the reference period 1971-2000). For pine, modelled growth rates show only minor changes. Whereas beech and oak shared a high common signal on the dry sites, the two species differed in high frequency ring patterns on the wet sites. On poorly drained, loamy soils beech, with its superficial root system, suffered from summer droughts. In contrast, on these sites ring-width of pedunculate oak was not correlated to summer moisture conditions resulting in differing interannual ring patterns between dry and wet sites. Wet periods with high soil water saturation did not have a negative influence on the growth of either species. Such a lack of response is not surprising for oak, which is generally known as rather tolerant to soil waterlogging, but it indicates an unexpectedly high tolerance of beech to stagnating wetness. Using the natural laboratory of an oak forest that suffered a catastrophic flooding I could show that slower grown trees that had likely been suppressed displayed a higher adaptive capacity compared with bigger, dominant trees. Many of the previously dominant individuals died within 18 years after the event. Trees that survived the groundwater rise displayed a typical ring pattern: growth was suppressed for a few years, but afterwards recovered and even surpassed previous growth rates, most likely as a result of competition release. The sudden hydrological change left a clear imprint in ring patterns and wood anatomical features in both the dying and the surviving trees. This differentiated imprint may be helpful for a better interpretation of growth patterns found in subfossil bog oaks, an important climate proxy of the Holocene. The insights gained from this thesis support existing concerns about drought induced growth decline for oak, but especially for beech. Changes in precipitation patterns might lead to wetter conditions during winter, but these will likely have only little effect on growth. Both s show rather high resilience to stagnating wetness. More likely, it are extreme events like prolonged droughts or heavy rainfalls that might breach thresholds in the ability of the two species to cope with too much or too little water. Such extreme events thus pose a strong risk to the future growth performance of both oak and beech.
Abstract
We have demonstrated efficient injection and trapping of a cold positron beam in a dipole magnetic field configuration. The intense 5 eV positron beam was provided by the NEutron induced POsitron source MUniCh facility at the Heinz Maier-Leibnitz Zentrum, and transported into the confinement region of the dipole field trap generated by a supported, permanent magnet with 0.6 T strength at the pole faces. We achieved transport into the region of field lines that do not intersect the outer wall using the
drift of the positron beam between a pair of tailored plates that created the electric field. We present evidence that up to 38% of the beam particles are able to reach the intended confinement region and make at least a 180° rotation around the magnet where they annihilate on an insertable target. When the target is removed and the
plate voltages are switched off, confinement of a small population persists for on the order of 1 ms. These results lend optimism to our larger aims to apply a magnetic dipole field configuration for trapping of both positrons and electrons in order to test predictions of the unique properties of a pair plasma.
With the growing importance of advanced lighting technologies, customers expect additional functionality and higher comfort from fluorescent lamps. However, the ability to regulate light intensity (dimmed operation), in particular, exerts enormous stress on fluorescent lamps’ electrodes, leading to increased electrode erosion and significantly reduced lifetimes. During the operation of a fluorescent lamp, free barium (the main compound of the electrode emitter) is produced at the electrode responsible for lowering the work function in order to enable energy-efficient and durable electrodes with lifetimes of up to 20,000 hours. Despite their relatively long lifetimes, electrodes remain the lifetime-limiting factor of a fluorescent lamp. Therefore, for practical applications (e.g., maintaining quality control, adjusting operational parameters, and evaluating new electrode designs), electrode erosion is of special interest. The actual erosion-measurement methods determine a time-averaged erosion level over several hundred operation hours. Thus, a quasi-instantaneous measuring method (short measurement) is still necessary to determine erosion during operation. Such a method would allow us to compare erosion under different discharge conditions (currents, frequencies, or heating currents) from the same electrode in the same lamp. This work focuses on the determination of absolute electrode erosion during the stationary operation of commonly used fluorescent lamps. Commercial T8 lamps (fluorescent lamps with a diameter of 8/8 inch) are investigated at the operating mode of commonly used electronic ballasts with frequencies of several kHz. Operations under standard and dimmed conditions with an additional heating current to reduce electrode erosion are investigated. Electrode erosion is characterized by the erosion of barium, the main compound of the electrode. Therefore, laser-induced fluorescence (LIF), which is the most sensitive method for this application, is applied to determine the absolute densities of the eroded barium in the electrode region. These densities are affected by the plasma in the electrode region and do not directly represent the absolute barium erosion. To overcome this limitation, a new method based on a special measurement technique in combination with a barium-diffusion-model is developed to determine the absolute barium erosion based on the measured densities. It has been found that the barium densities in the electrode region are lower than the equilibrium pressures produced by the reduction of the barium oxide. This could be caused either by a reduced reaction rate, the reduced diffusion of the reactant (primarily barium oxide) or by reduced barium transport through the porous emitter. However, these results suggest that barium erosion depends on temperature and emitter structure, which vary over an electrode’s lifetime. For currents significantly higher than the nominal lamp current, a drastic increase in emitter evaporation is found. Such, an increase in the lamp current from 300 mA to 500 mA leads to an increase in emitter evaporation by a factor of five. Using the lamp for a long period of time under these conditions therefore reduces the lifetime by a factor of five. Notably, at this dramatically increased erosion level, the hot spot temperature only increases from 1120 K to 1170 K. Investigation of various frequencies from 50 Hz to 5 kHz revealed no significant dependence of emitter evaporation on frequency.
The main issue of this thesis was the investigation of dusty plasmas in magnetic fields. We made use of spherical paramagnetic as well as non-magnetic plastic particles in the micrometer range, so-called dust particles. The particles were then trapped in the sheath region of the driven lower electrode of an rf discharge. The plasma chamber was surrounded by coils to apply a horizontal magnetic field with field strengths of up to B=50mT at the particles’ position. In this configuration the sheath electric field and the external magnetic field were perpendicular to each other. Only the electrons could be magnetized but this leads to several forces acting on the dust particles. In some aspects the dust clusters with the magnetic particles show a behavior that is in complete contrast to those consisting of the standard non-magnetic plastic particles. Both types of particles have in common that the dust clusters were found to move either towards the positive or negative ExB-direction as a reaction to the magnetic field. Whether the positive or negative direction was preferred depended on the experimental conditions. The forces that lead to this transport are plasma-based forces induced by the magnetic field. These investigations were performed on two-dimensional horizontal particle systems. Vertically aligned dust particles due to the ion focus interaction have also been studied to determine the influence of horizontal magnetic fields on the stability of such dust pairs. Under certain conditions the vertical alignment can be broken up by the magnetic field. Some additional experiments on the interaction of non-magnetic dust particles in a plasma with UV irradiation were performed, but a significant decrease of dust charge due to a photoelectric effect was not detected. In summary, even relatively weak horizontal magnetic fields have a strong influence on dust particle systems.