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Ziel der Arbeit war die Entwicklung von farbstoffmarkierten Polymeren, die einen temperaturgetriebenen Knäuel-Kollaps-Phasenübergang in wässriger Lösung ("thermo-responsive Polymere") zeigen und diesen in ein optisches Signal übersetzen können. Solche Polymere unterliegen innerhalb eines kleinen Temperaturintervalls einer massiven Änderung ihres Verhaltens, z B. ihrer Konformation und ihres Quellungsgrads. Diese Änderungen sind mit einem Wechsel der Löseeigenschaften von hydrophil zu hydrophob verbunden. Als Matrixpolymere wurden Poly-N-isopropylacrylamid (polyNIPAm), Poly(oligoethylen-glykolacrylat) (polyOEGA) und Poly(oligoethylenglykolmethacrylat) (polyOEGMA) ein-gesetzt, in die geeignete Farbstoffen durch Copolymerisation eingebaut wurden. Als besonders geeignet, um den Phasenübergang in ein optisches Signal zu übersetzen, erwiesen sich hierfür kompakte, solvatochrome Cumarin- und Naphthalimidderivate. Diese beeinträchtigten weder das Polymerisationsverhalten noch den Phasenübergang, reagierten aber sowohl bezüglich Farbe als auch Fluoreszenz stark auf die Polarität des Lösemittels. Weiterhin wurden Systeme entwickelt, die mittels Energietransfer (FRET) ein an den Phasenübergang gekoppeltes optisches Signal erzeugen. Hierbei wurde ein Cumarin als Donor- und ein Polythiophen als Akzeptorfarbstoff eingesetzt. Es zeigte sich, dass trotz scheinbarer Ähnlichkeit bestimmte Polymere ausgeprägt auf einen Temperaturstimulus mit Änderung ihrer spektralen Eigenschaften reagieren, andere aber nicht. Hierfür wurden die molekularen Ursachen untersucht. Als wahrscheinliche Gründe für das Ausbleiben einer spektralen Änderung in Oligo(ethylenglykol)-basierten Polymeren sind zum einen die fehlende Dehydratationseffektivität infolge des Fehlens eines selbstgenügenden Wasserstoffbrückenbindungsmotivs zu nennen und zum anderen die sterische Abschirmung der Farbstoffe durch die Oligo(ethylenglykol)-Seitenketten. Als Prinzipbeweis für die Nützlichkeit solcher Systeme für die Bioanalytik wurde ein System entwickelt, dass die Löslichkeitseigenschaft eines thermoresponsiven Polymers durch Antikörper-Antigen-Reaktion änderte. Die Bindung selbst kleiner Mengen eines Antikörpers ließ sich so direkt optisch auslesen und war bereits mit dem bloßen Auge zu erkennen.
Large-scale floodplain sediment dynamics in the Mekong Delta : present state and future prospects
(2014)
The Mekong Delta (MD) sustains the livelihood and food security of millions of people in Vietnam and Cambodia. It is known as the “rice bowl” of South East Asia and has one of the world’s most productive fisheries. Sediment dynamics play a major role for the high productivity of agriculture and fishery in the delta. However, the MD is threatened by climate change, sea level rise and unsustainable development activities in the Mekong Basin. But despite its importance and the expected threats, the understanding of the present and future sediment dynamics in the MD is very limited. This is a consequence of its large extent, the intricate system of rivers, channels and floodplains and the scarcity of observations. Thus this thesis aimed at (1) the quantification of suspended sediment dynamics and associated sediment-nutrient deposition in floodplains of the MD, and (2) assessed the impacts of likely future boundary changes on the sediment dynamics in the MD. The applied methodology combines field experiments and numerical simulation to quantify and predict the sediment dynamics in the entire delta in a spatially explicit manner. The experimental part consists of a comprehensive procedure to monitor quantity and spatial variability of sediment and associated nutrient deposition for large and complex river floodplains, including an uncertainty analysis. The measurement campaign applied 450 sediment mat traps in 19 floodplains over the MD for a complete flood season. The data also supports quantification of nutrient deposition in floodplains based on laboratory analysis of nutrient fractions of trapped sedimentation.The main findings are that the distribution of grain size and nutrient fractions of suspended sediment are homogeneous over the Vietnamese floodplains. But the sediment deposition within and between ring dike floodplains shows very high spatial variability due to a high level of human inference. The experimental findings provide the essential data for setting up and calibration of a large-scale sediment transport model for the MD. For the simulation studies a large scale hydrodynamic model was developed in order to quantify large-scale floodplain sediment dynamics. The complex river-channel-floodplain system of the MD is described by a quasi-2D model linking a hydrodynamic and a cohesive sediment transport model. The floodplains are described as quasi-2D presentations linked to rivers and channels modeled in 1D by using control structures. The model setup, based on the experimental findings, ignored erosion and re-suspension processes due to a very high degree of human interference during the flood season. A two-stage calibration with six objective functions was developed in order to calibrate both the hydrodynamic and sediment transport modules. The objective functions include hydraulic and sediment transport parameters in main rivers, channels and floodplains. The model results show, for the first time, the tempo-spatial distribution of sediment and associated nutrient deposition rates in the whole MD. The patterns of sediment transport and deposition are quantified for different sub-systems. The main factors influencing spatial sediment dynamics are the network of rivers, channels and dike-rings, sluice gate operations, magnitude of the floods and tidal influences. The superposition of these factors leads to high spatial variability of the sediment transport and deposition, in particular in the Vietnamese floodplains. Depending on the flood magnitude, annual sediment loads reaching the coast vary from 48% to 60% of the sediment load at Kratie, the upper boundary of the MD. Deposited sediment varies from 19% to 23% of the annual load at Kratie in Cambodian floodplains, and from 1% to 6% in the compartmented and diked floodplains in Vietnam. Annual deposited nutrients (N, P, K), which are associated to the sediment deposition, provide on average more than 50% of mineral fertilizers typically applied for rice crops in non-flooded ring dike compartments in Vietnam. This large-scale quantification provides a basis for estimating the benefits of the annual Mekong floods for agriculture and fishery, for assessing the impacts of future changes on the delta system, and further studies on coastal deposition/erosion. For the estimation of future prospects a sensitivity-based approach is applied to assess the response of floodplain hydraulics and sediment dynamics to the changes in the delta boundaries including hydropower development, climate change in the Mekong River Basin and effective sea level rise. The developed sediment model is used to simulate the mean sediment transport and sediment deposition in the whole delta system for the baseline (2000-2010) and future (2050-2060) periods. For each driver we derive a plausible range of future changes and discretize it into five levels, resulting in altogether 216 possible factor combinations. Our results thus cover all plausible future pathways of sediment dynamics in the delta based on current knowledge. The uncertainty of the range of the resulting impacts can be decreased in case more information on these drivers becomes available. Our results indicate that the hydropower development dominates the changes in sediment dynamics of the Mekong Delta, while sea level rise has the smallest effect. The floodplains of Vietnamese Mekong Delta are much more sensitive to the changes compared to the other subsystems of the delta. In terms of median changes of the three combined drivers, the inundation extent is predicted to increase slightly, but the overall floodplain sedimentation would be reduced by approximately 40%, while the sediment load to the Sea would diminish to half of the current rates. These findings provide new and valuable information on the possible impacts of future development on the delta, and indicate the most vulnerable areas. Thus, the presented results are a significant contribution to the ongoing international discussion on the hydropower development in the Mekong basin and its impact on the Mekong delta.
Reading is a complex cognitive task based on the analyses of visual stimuli. Due to the physiology of the eye, only a small number of letters around the fixation position can be extracted with high visual acuity, while the visibility of words and letters outside this so-called foveal region quickly drops with increasing eccentricity. As a consequence, saccadic eye movements are needed to repeatedly shift the fovea to new words for visual word identification during reading. Moreover, even within a foveated word fixation positions near the word center are superior to other fixation positions for efficient word recognition (O’Regan, 1981; Brysbaert, Vitu, and Schroyens, 1996). Thus, most reading theories assume that readers aim specifically at word centers during reading (for a review see Reichle, Rayner, & Pollatsek, 2003). However, saccades’ landing positions within words during reading are in fact systematically modulated by the distance of the launch site from the word center (McConkie, Kerr, Reddix, & Zola, 1988). In general, it is largely unknown how readers identify the center of upcoming target words and there is no computational model of the sensorimotor translation of the decision for a target word into spatial word center coordinates. Here we present a series of three studies which aim at advancing the current knowledge about the computation of saccade target coordinates during saccade planning in reading. Based on a large corpus analyses, we firstly identified word skipping as a further factor beyond the launch-site distance with a likewise systematic and surprisingly large effect on within-word landing positions. Most importantly, we found that the end points of saccades after skipped word are shifted two and more letters to the left as compared to one-step saccades (i.e., from word N to word N+1) with equal launch-site distances. Then we present evidence from a single saccade experiment suggesting that the word-skipping effect results from highly automatic low-level perceptual processes, which are essentially based on the localization of blank spaces between words. Finally, in the third part, we present a Bayesian model of the computation of the word center from primary sensory measurements of inter-word spaces. We demonstrate that the model simultaneously accounts for launch-site and saccade-type contingent modulations of within-word landing positions in reading. Our results show that the spatial saccade target during reading is the result of complex estimations of the word center based on incomplete sensory information, which also leads to specific systematic deviations of saccades’ landing positions from the word center. Our results have important implications for current reading models and experimental reading research.
Ziel dieser Arbeit war die Entwicklung von Methoden zur Synthese von auf Phenol basierenden Naturstoffen. Insbesondere wurde bei der Methodenentwicklung die Nachhaltigkeit in den Vordergrund gerückt. Dies bedeutet, dass durch die Zusammenfassung mehrerer Syntheseschritte zu einem (Tandem-Reaktion) beispielsweise unnötige Reaktionsschritte vermieden werden sollten. Ferner sollten im Sinne der Nachhaltigkeit möglichst ungiftige Reagenzien und Lösungmittel verwendet werden, ebenso wie mehrfach wiederverwertbare Katalysatoren zum Einsatz kommen. Im Rahmen dieser Arbeit wurden Methoden zum Aufbau von Biphenolen mittels Pd/C-katalysierten Suzuki-Miyaura-Kupplungen entwickelt. Diese Methoden sind insofern äußerst effizient, da der ansonsten gebräuchliche Syntheseweg über drei Reaktionsschritte somit auf lediglich eine Reaktionsstufe reduziert wurde. Weiterhin wurden die Reaktionsbedingungen so gestaltet, dass einfaches Wasser als vollkommen ungiftiges Lösungsmittel verwendet werden konnte. Des Weiteren wurde für diese Reaktionen ein Katalysator gewählt, der einfach durch Filtration vom Reaktionsgemisch abgetrennt und für weitere Reaktionen mehrfach wiederverwendet werden konnte. Darüber hinaus konnte durch die Synthese von mehr als 100 Verbindungen die breite Anwendbarkeit der Methoden aufgezeigt werden. Mit den entwickelten Methoden konnten 14 Naturstoffe - z. T. erstmals - synthetisiert werden. Derartige Stoffe werden u. a. von den ökonomisch bedeutenden Kernobstgewächsen (Äpfeln, Birnen) als Abwehrmittel gegenüber Schädlingen erzeugt. Folglich konnte mit Hilfe dieser Methoden ein Syntheseweg für potentielle Pflanzenschutzmittel entwickelt werden. Im zweiten Teil dieser Arbeit wurde ein Zugang zu den sich ebenfalls vom Phenol ableitenden Chromanonen, Chromonen und Cumarinen untersucht. Bei diesen Untersuchungen konnte durch die Entwicklung zweier neuer Tandem-Reaktionen ein nachhaltiger und stufenökonomischer Syntheseweg zur Darstellung substituierter Benzo(dihydro)pyrone aufgezeigt werden. Durch die erstmalige Kombination der Claisen-Umlagerung mit einer Oxa-Michael-Addition bzw. konjugierten-Addition wurden zwei vollkommen atomökonomische Reaktionen miteinander verknüpft und somit eine überaus effiente Synthese von allyl- bzw. prenylsubstituierten Chromanonen und Chromonen ermöglicht. Ferner konnten durch die Anwendung einer Claisen-Umlagerung-Wittig-Laktonisierungs-Reaktion allyl- bzw. prenylsubstituierte Cumarine erhalten werden. Herausragendes Merkmal dieser Methoden war, dass in nur einem Schritt der jeweilige Naturstoffgrundkörper aufgebaut und eine lipophile Seitenkette generiert werden konnte. Die Entwicklung dieser Methoden ist von hohem pharmazeutischem Stellenwert, da auf diesen Wegen Verbindungen synthetisiert werden können, die zum einem über das notwendige pharmakologische Grundgerüst verfügen und zum anderen über eine Seitenkette, welche die Aufnahmefähigkeit und damit die Wirksamkeit im Organismus beträchtlich erhöht. Insgesamt konnten mittels der entwickelten Methoden 15 Chromanon-, Chromon- und Cumarin-Naturstoffe z. T. erstmals synthetisiert werden.
Despite remarkable progress made in the past century, which has revolutionized our understanding of the universe, there are numerous open questions left in theoretical physics. Particularly important is the fact that the theories describing the fundamental interactions of nature are incompatible. Einstein's theory of general relative describes gravity as a dynamical spacetime, which is curved by matter and whose curvature determines the motion of matter. On the other hand we have quantum field theory, in form of the standard model of particle physics, where particles interact via the remaining interactions - electromagnetic, weak and strong interaction - on a flat, static spacetime without gravity. A theory of quantum gravity is hoped to cure this incompatibility by heuristically replacing classical spacetime by quantum spacetime'. Several approaches exist attempting to define such a theory with differing underlying premises and ideas, where it is not clear which is to be preferred. Yet a minimal requirement is the compatibility with the classical theory, they attempt to generalize. Interestingly many of these models rely on discrete structures in their definition or postulate discreteness of spacetime to be fundamental. Besides the direct advantages discretisations provide, e.g. permitting numerical simulations, they come with serious caveats requiring thorough investigation: In general discretisations break fundamental diffeomorphism symmetry of gravity and are generically not unique. Both complicates establishing the connection to the classical continuum theory. The main focus of this thesis lies in the investigation of this relation for spin foam models. This is done on different levels of the discretisation / triangulation, ranging from few simplices up to the continuum limit. In the regime of very few simplices we confirm and deepen the connection of spin foam models to discrete gravity. Moreover, we discuss dynamical, e.g. diffeomorphism invariance in the discrete, to fix the ambiguities of the models. In order to satisfy these conditions, the discrete models have to be improved in a renormalisation procedure, which also allows us to study their continuum dynamics. Applied to simplified spin foam models, we uncover a rich, non--trivial fixed point structure, which we summarize in a phase diagram. Inspired by these methods, we propose a method to consistently construct the continuum theory, which comes with a unique vacuum state.
Effect of benzylglucosinolate on signaling pathways associated with type 2 diabetes prevention
(2014)
Type 2 diabetes (T2D) is a health problem throughout the world. In 2010, there were nearly 230 million individuals with diabetes worldwide and it is estimated that in the economically advanced countries the cases will increase about 50% in the next twenty years. Insulin resistance is one of major features in T2D, which is also a risk factor for metabolic and cardiovascular complications. Epidemiological and animal studies have shown that the consumption of vegetables and fruits can delay or prevent the development of the disease, although the underlying mechanisms of these effects are still unclear. Brassica species such as broccoli (Brassica oleracea var. italica) and nasturtium (Tropaeolum majus) possess high content of bioactive phytochemicals, e.g. nitrogen sulfur compounds (glucosinolates and isothiocyanates) and polyphenols largely associated with the prevention of cancer. Isothiocyanates (ITCs) display their anti-carcinogenic potential by inducing detoxicating phase II enzymes and increasing glutathione (GSH) levels in tissues. In T2D diabetes an increase in gluconeogenesis and triglyceride synthesis, and a reduction in fatty acid oxidation accompanied by the presence of reactive oxygen species (ROS) are observed; altogether is the result of an inappropriate response to insulin. Forkhead box O (FOXO) transcription factors play a crucial role in the regulation of insulin effects on gene expression and metabolism, and alterations in FOXO function could contribute to metabolic disorders in diabetes. In this study using stably transfected human osteosarcoma cells (U-2 OS) with constitutive expression of FOXO1 protein labeled with GFP (green fluorescent protein) and human hepatoma cells HepG2 cell cultures, the ability of benzylisothiocyanate (BITC) deriving from benzylglucosinolate, extracted from nasturtium to modulate, i) the insulin-signaling pathway, ii) the intracellular localization of FOXO1 and iii) the expression of proteins involved in glucose metabolism, ROS detoxification, cell cycle arrest and DNA repair was evaluated. BITC promoted oxidative stress and in response to that induced FOXO1 translocation from cytoplasm into the nucleus antagonizing the insulin effect. BITC stimulus was able to down-regulate gluconeogenic enzymes, which can be considered as an anti-diabetic effect; to promote antioxidant resistance expressed by the up-regulation in manganese superoxide dismutase (MnSOD) and detoxification enzymes; to modulate autophagy by induction of BECLIN1 and down-regulation of the mammalian target of rapamycin complex 1 (mTORC1) pathway; and to promote cell cycle arrest and DNA damage repair by up-regulation of the cyclin-dependent kinase inhibitor (p21CIP) and Growth Arrest / DNA Damage Repair (GADD45). Except for the nuclear factor (erythroid derived)-like2 (NRF2) and its influence in the detoxification enzymes gene expression, all the observed effects were independent from FOXO1, protein kinase B (AKT/PKB) and NAD-dependent deacetylase sirtuin-1 (SIRT1). The current study provides evidence that besides of the anticarcinogenic potential, isothiocyanates might have a role in T2D prevention. BITC stimulus mimics the fasting state, in which insulin signaling is not triggered and FOXO proteins remain in the nucleus modulating gene expression of their target genes, with the advantage of a down-regulation of gluconeogenesis instead of its increase. These effects suggest that BITC might be considered as a promising substance in the prevention or treatment of T2D, therefore the factors behind of its modulatory effects need further investigation.
Es ist in dieser Arbeit gelungen, starre Oligospiroketal(OSK)-Stäbe als Grundbausteine für komplexe 2D- und 3D-Systeme zu verwenden. Dazu wurde ein difunktionalisierter starrer Stab synthetisiert, der mit seines Gleichen und anderen verzweigten Funktionalisierungseinheiten in Azid-Alkin-Klickreaktionen eingesetzt wurde. An zwei über Klickreaktion verknüpften OSK-Stäben konnten mittels theoretischer Berechnungen Aussagen über die neuartige Bimodalität der Konformation getroffen werden. Es wurde dafür der Begriff Gelenkstab eingeführt, da die Moleküle um ein Gelenk gedreht sowohl gestreckt als auch geknickt vorliegen können. Aufbauend auf diesen Erkenntnissen konnte gezeigt werden, dass nicht nur gezielt große Polymere aus bis zu vier OSK-Stäben synthetisiert werden können, sondern es auch möglich ist, durch gezielte Änderung von Reaktionsbedingungen der Klickreaktion auch Cyclen aus starren OSK-Stäben herzustellen. Die neu entwickelte Substanzklasse der Gelenkstäbe wurde im Hinblick auf die Steuerung des vorliegenden Gleichgewichts zwischen geknicktem und gestrecktem Gelenkstab hin untersucht. Dafür wurde der Gelenkstab mit Pyrenylresten in terminaler Position versehen. Es wurde durch Fluoreszenzmessungen festgestellt, dass das Gleichgewicht z. B. durch die Temperatur oder die Wahl des Lösungsmittels beeinflussbar ist. Für vielfache Anwendungen wurde eine vereinfachte Synthesestrategie gefunden, mit der eine beliebige Funktionalisierung in nur einem Syntheseschritt erreicht werden konnte. Es konnten photoaktive Gelenkstäbe synthetisiert werden, die gezielt zur intramolekularen Dimerisierung geführt werden konnten. Zusätzlich wurde durch Aminosäuren ein Verknüpfungselement am Ende der Gelenkstäbe gefunden, das eine stereoselektive Synthese von Mehrfachfunktionalisierungen zulässt. Die Synthese der komplexen Gelenkstäbe wurde als ein neuartiges Gebiet aufgezeigt und bietet ein breites Forschungspotential für weitere Anwendungen z. B. in der Biologie (als molekulare Schalter für Ionentransporte) und in der Materialchemie (als Ladungs- oder Energietransporteure).
The economic impact analysis contained in this book shows how irrigation farming is particularly susceptible when applying certain water management policies in the Australian Murray-Darling Basin, one of the world largest river basins and Australia’s most fertile region. By comparing different pricing and non-pricing water management policies with the help of the Water Integrated Market Model, it is found that the impact of water demand reducing policies is most severe on crops that need to be intensively irrigated and are at the same time less water productive. A combination of increasingly frequent and severe droughts and the application of policies that decrease agricultural water demand, in the same region, will create a situation in which the highly water dependent crops rice and cotton cannot be cultivated at all.
Geometric electroelasticity
(2014)
In this work a diffential geometric formulation of the theory of electroelasticity is developed which also includes thermal and magnetic influences. We study the motion of bodies consisting of an elastic material that are deformed by the influence of mechanical forces, heat and an external electromagnetic field. To this end physical balance laws (conservation of mass, balance of momentum, angular momentum and energy) are established. These provide an equation that describes the motion of the body during the deformation. Here the body and the surrounding space are modeled as Riemannian manifolds, and we allow that the body has a lower dimension than the surrounding space. In this way one is not (as usual) restricted to the description of the deformation of three-dimensional bodies in a three-dimensional space, but one can also describe the deformation of membranes and the deformation in a curved space. Moreover, we formulate so-called constitutive relations that encode the properties of the used material. Balance of energy as a scalar law can easily be formulated on a Riemannian manifold. The remaining balance laws are then obtained by demanding that balance of energy is invariant under the action of arbitrary diffeomorphisms on the surrounding space. This generalizes a result by Marsden and Hughes that pertains to bodies that have the same dimension as the surrounding space and does not allow the presence of electromagnetic fields. Usually, in works on electroelasticity the entropy inequality is used to decide which otherwise allowed deformations are physically admissible and which are not. It is alsoemployed to derive restrictions to the possible forms of constitutive relations describing the material. Unfortunately, the opinions on the physically correct statement of the entropy inequality diverge when electromagnetic fields are present. Moreover, it is unclear how to formulate the entropy inequality in the case of a membrane that is subjected to an electromagnetic field. Thus, we show that one can replace the use of the entropy inequality by the demand that for a given process balance of energy is invariant under the action of arbitrary diffeomorphisms on the surrounding space and under linear rescalings of the temperature. On the one hand, this demand also yields the desired restrictions to the form of the constitutive relations. On the other hand, it needs much weaker assumptions than the arguments in physics literature that are employing the entropy inequality. Again, our result generalizes a theorem of Marsden and Hughes. This time, our result is, like theirs, only valid for bodies that have the same dimension as the surrounding space.
The H.E.S.S. array is a third generation Imaging Atmospheric Cherenkov Telescope (IACT) array. It is located in the Khomas Highland in Namibia, and measures very high energy (VHE) gamma-rays. In Phase I, the array started data taking in 2004 with its four identical 13 m telescopes. Since then, H.E.S.S. has emerged as the most successful IACT experiment to date. Among the almost 150 sources of VHE gamma-ray radiation found so far, even the oldest detection, the Crab Nebula, keeps surprising the scientific community with unexplained phenomena such as the recently discovered very energetic flares of high energy gamma-ray radiation. During its most recent flare, which was detected by the Fermi satellite in March 2013, the Crab Nebula was simultaneously observed with the H.E.S.S. array for six nights. The results of the observations will be discussed in detail during the course of this work. During the nights of the flare, the new 24 m × 32 m H.E.S.S. II telescope was still being commissioned, but participated in the data taking for one night. To be able to reconstruct and analyze the data of the H.E.S.S. Phase II array, the algorithms and software used by the H.E.S.S. Phase I array had to be adapted. The most prominent advanced shower reconstruction technique developed by de Naurois and Rolland, the template-based model analysis, compares real shower images taken by the Cherenkov telescope cameras with shower templates obtained using a semi-analytical model. To find the best fitting image, and, therefore, the relevant parameters that describe the air shower best, a pixel-wise log-likelihood fit is done. The adaptation of this advanced shower reconstruction technique to the heterogeneous H.E.S.S. Phase II array for stereo events (i.e. air showers seen by at least two telescopes of any kind), its performance using MonteCarlo simulations as well as its application to real data will be described.
Planetary research is often user-based and requires considerable skill, time, and effort. Unfortunately, self-defined boundary conditions, definitions, and rules are often not documented or not easy to comprehend due to the complexity of research. This makes a comparison to other studies, or an extension of the already existing research, complicated. Comparisons are often distorted, because results rely on different, not well defined, or even unknown boundary conditions. The purpose of this research is to develop a standardized analysis method for planetary surfaces, which is adaptable to several research topics. The method provides a consistent quality of results. This also includes achieving reliable and comparable results and reducing the time and effort of conducting such studies. A standardized analysis method is provided by automated analysis tools that focus on statistical parameters. Specific key parameters and boundary conditions are defined for the tool application. The analysis relies on a database in which all key parameters are stored. These databases can be easily updated and adapted to various research questions. This increases the flexibility, reproducibility, and comparability of the research. However, the quality of the database and reliability of definitions directly influence the results. To ensure a high quality of results, the rules and definitions need to be well defined and based on previously conducted case studies. The tools then produce parameters, which are obtained by defined geostatistical techniques (measurements, calculations, classifications). The idea of an automated statistical analysis is tested to proof benefits but also potential problems of this method. In this study, I adapt automated tools for floor-fractured craters (FFCs) on Mars. These impact craters show a variety of surface features, occurring in different Martian environments, and having different fracturing origins. They provide a complex morphological and geological field of application. 433 FFCs are classified by the analysis tools due to their fracturing process. Spatial data, environmental context, and crater interior data are analyzed to distinguish between the processes involved in floor fracturing. Related geologic processes, such as glacial and fluvial activity, are too similar to be separately classified by the automated tools. Glacial and fluvial fracturing processes are merged together for the classification. The automated tools provide probability values for each origin model. To guarantee the quality and reliability of the results, classification tools need to achieve an origin probability above 50 %. This analysis method shows that 15 % of the FFCs are fractured by intrusive volcanism, 20 % by tectonic activity, and 43 % by water & ice related processes. In total, 75 % of the FFCs are classified to an origin type. This can be explained by a combination of origin models, superposition or erosion of key parameters, or an unknown fracturing model. Those features have to be manually analyzed in detail. Another possibility would be the improvement of key parameters and rules for the classification. This research shows that it is possible to conduct an automated statistical analysis of morphologic and geologic features based on analysis tools. Analysis tools provide additional information to the user and are therefore considered assistance systems.
Virtualized cloud data centers provide on-demand resources, enable agile resource provisioning, and host heterogeneous applications with different resource requirements. These data centers consume enormous amounts of energy, increasing operational expenses, inducing high thermal inside data centers, and raising carbon dioxide emissions. The increase in energy consumption can result from ineffective resource management that causes inefficient resource utilization. This dissertation presents detailed models and novel techniques and algorithms for virtual resource management in cloud data centers. The proposed techniques take into account Service Level Agreements (SLAs) and workload heterogeneity in terms of memory access demand and communication patterns of web applications and High Performance Computing (HPC) applications. To evaluate our proposed techniques, we use simulation and real workload traces of web applications and HPC applications and compare our techniques against the other recently proposed techniques using several performance metrics. The major contributions of this dissertation are the following: proactive resource provisioning technique based on robust optimization to increase the hosts' availability for hosting new VMs while minimizing the idle energy consumption. Additionally, this technique mitigates undesirable changes in the power state of the hosts by which the hosts' reliability can be enhanced in avoiding failure during a power state change. The proposed technique exploits the range-based prediction algorithm for implementing robust optimization, taking into consideration the uncertainty of demand. An adaptive range-based prediction for predicting workload with high fluctuations in the short-term. The range prediction is implemented in two ways: standard deviation and median absolute deviation. The range is changed based on an adaptive confidence window to cope with the workload fluctuations. A robust VM consolidation for efficient energy and performance management to achieve equilibrium between energy and performance trade-offs. Our technique reduces the number of VM migrations compared to recently proposed techniques. This also contributes to a reduction in energy consumption by the network infrastructure. Additionally, our technique reduces SLA violations and the number of power state changes. A generic model for the network of a data center to simulate the communication delay and its impact on VM performance, as well as network energy consumption. In addition, a generic model for a memory-bus of a server, including latency and energy consumption models for different memory frequencies. This allows simulating the memory delay and its influence on VM performance, as well as memory energy consumption. Communication-aware and energy-efficient consolidation for parallel applications to enable the dynamic discovery of communication patterns and reschedule VMs using migration based on the determined communication patterns. A novel dynamic pattern discovery technique is implemented, based on signal processing of network utilization of VMs instead of using the information from the hosts' virtual switches or initiation from VMs. The result shows that our proposed approach reduces the network's average utilization, achieves energy savings due to reducing the number of active switches, and provides better VM performance compared to CPU-based placement. Memory-aware VM consolidation for independent VMs, which exploits the diversity of VMs' memory access to balance memory-bus utilization of hosts. The proposed technique, Memory-bus Load Balancing (MLB), reactively redistributes VMs according to their utilization of a memory-bus using VM migration to improve the performance of the overall system. Furthermore, Dynamic Voltage and Frequency Scaling (DVFS) of the memory and the proposed MLB technique are combined to achieve better energy savings.
Das Influenzavirus infiziert Säugetiere und Vögel. Der erste Schritt im Infektionszyklus ist die Anbindung des Viruses über sein Oberflächenprotein Hämagglutinin (HA) an Zuckerstrukturen auf Epithelzellen des respiratorischen Traktes im Wirtsorganismus. Aus den drei komplementaritätsbestimmenden Regionen (complementarity determining regions, CDRs) der schweren Kette eines monoklonalen Hämagglutinin-bindenden Antikörpers wurden drei lineare Peptide abgeleitet. Die Bindungseigenschaften der drei Peptide wurden experimentell mittels Oberflächenplasmonenresonanzspektroskopie untersucht. Es zeigte sich, dass in Übereinstimmung mit begleitenden Molekulardynamik-Simulationen zwei der drei Peptide (PeB und PeC) analog zur Bindefähigkeit des Antikörpers in der Lage sind, Influenzaviren vom Stamm X31 (H3N2 A/Aichi/2/1968) zu binden. Die Interaktion des Peptids PeB, welches potentiell mit der konservierten Rezeptorbindestelle im HA interagiert, wurde anschließend näher charakterisiert. Die Detektion der Influenzaviren war unter geeigneten Immobilisationsbedingungen im diagnostisch relevanten Bereich möglich. Die Spezifität der PeB-Virus-Bindung wurde mittels geeigneter Kontrollen auf der Seite des Analyten und des Liganden nachgewiesen. Des Weiteren war das Peptid PeB in der Lage die Bindung von X31-Viren an Mimetika seines natürlichen Rezeptors zu inhibieren, was die spezifische Interaktion mit der Rezeptorbindungsstelle im Hämagglutinin belegt. Anschließend wurde die Primärsequenz von PeB durch eine vollständige Substitutionsanalyse im Microarray-Format hinsichtlich der Struktur-Aktivitäts-Beziehungen charakterisiert. Dies führte außerdem zu verbesserten Peptidvarianten mit erhöhter Affinität und breiterer Spezifität gegen aktuelle Influenzastämme verschiedener Serotypen (z.B. H1N1/2009, H5N1/2004, H7N1/2013). Schließlich konnte durch Verwendung einer in der Primärsequenz angepassten höher affinen Peptidvariante die Influenzainfektion in vitro inhibiert werden. Damit stellen die vom ursprünglichen Peptid PeB abgeleiteten Varianten Rezeptormoleküle in biosensorischen Testsystemen sowie potentielle Wirkstoffe dar.
Synchronisationsphänomene myotendinöser Oszillationen interagierender neuromuskulärer Systeme
(2014)
Muskeln oszillieren nachgewiesener Weise mit einer Frequenz um 10 Hz. Doch was geschieht mit myofaszialen Oszillationen, wenn zwei neuromuskuläre Systeme interagieren? Die Dissertation widmet sich dieser Fragestellung bei isometrischer Interaktion. Während der Testmessungen ergaben sich Hinweise für das Vorhandensein von möglicherweise zwei verschiedenen Formen der Isometrie. Arbeiten zwei Personen isometrisch gegeneinander, können subjektiv zwei Modi eingenommen werden: man kann entweder isometrisch halten – der Kraft des Partners widerstehen – oder isometrisch drücken – gegen den isometrischen Widerstand des Partners arbeiten. Daher wurde zusätzlich zu den Messungen zur Interaktion zweier Personen an einzelnen Individuen geprüft, ob möglicherweise zwei Formen der Isometrie existieren. Die Promotion besteht demnach aus zwei inhaltlich und methodisch getrennten Teilen: I „Single-Isometrie“ und II „Paar-Isometrie“. Für Teil I wurden mithilfe eines pneumatisch betriebenen Systems die hypothetischen Messmodi Halten und Drücken während isometrischer Aktion untersucht. Bei n = 10 Probanden erfolgte parallel zur Aufzeichnung des Drucksignals während der Messungen die Erfassung der Kraft (DMS) und der Beschleunigung sowie die Aufnahme der mechanischen Muskeloszillationen folgender myotendinöser Strukturen via Mechanomyo- (MMG) bzw. Mechanotendografie (MTG): M. triceps brachii (MMGtri), Trizepssehne (MTGtri), M. obliquus externus abdominis (MMGobl). Pro Proband wurden bei 80 % der MVC sowohl sechs 15-Sekunden-Messungen (jeweils drei im haltenden bzw. drückenden Modus; Pause: 1 Minute) als auch vier Ermüdungsmessungen (jeweils zwei im haltenden bzw. drückenden Modus; Pause: 2 Minuten) durchgeführt. Zum Vergleich der Messmodi Halten und Drücken wurden die Amplituden der myofaszialen Oszillationen sowie die Kraftausdauer herangezogen. Signifikante Unterschiede zwischen dem haltenden und dem drückenden Modus zeigten sich insbesondere im Bereich der Ermüdungscharakteristik. So lassen Probanden im haltenden Modus signifikant früher nach als im drückenden Modus (t(9) = 3,716; p = .005). Im drückenden Modus macht das längste isometrische Plateau durchschnittlich 59,4 % der Gesamtdauer aus, im haltenden sind es 31,6 % (t(19) = 5,265, p = .000). Die Amplituden der Single-Isometrie-Messungen unterscheiden sich nicht signifikant. Allerdings variieren die Amplituden des MMGobl zwischen den Messungen im drückenden Modus signifikant stärker als im haltenden Modus. Aufgrund dieser teils signifikanten Unterschiede zwischen den beiden Messmodi wurde dieses Setting auch im zweiten Teil „Paar-Isometrie“ berücksichtigt. Dort wurden n = 20 Probanden – eingeteilt in zehn gleichgeschlechtliche Paare – während isometrischer Interaktion untersucht. Die Sensorplatzierung erfolgte analog zu Teil I. Die Oszillationen der erfassten MTG- sowie MMG-Signale wurden u.a. mit Algorithmen der Nichtlinearen Dynamik auf ihre Kohärenz hin untersucht. Durch die Paar-Isometrie-Messungen zeigte sich, dass die Muskeln und die Sehnen beider neuromuskulärer Systeme bei Interaktion im bekannten Frequenzbereich von 10 Hz oszillieren. Außerdem waren sie in der Lage, sich bei Interaktion so aufeinander abzustimmen, dass sich eine signifikante Kohärenz entwickelte, die sich von Zufallspaarungen signifikant unterscheidet (Patchanzahl: t(29) = 3,477; p = .002; Summe der 4 längsten Patches: t(29) = 7,505; p = .000). Es wird der Schluss gezogen, dass neuromuskuläre Komplementärpartner in der Lage sind, sich im Sinne kohärenten Verhaltens zu synchronisieren. Bezüglich der Parameter zur Untersuchung der möglicherweise vorhandenen zwei Formen der Isometrie zeigte sich bei den Paar-Isometrie-Messungen zwischen Halten und Drücken ein signifikanter Unterschied bei der Ermüdungscharakteristik sowie bezüglich der Amplitude der MMGobl. Die Ergebnisse beider Teilstudien bestärken die Hypothese, dass zwei Formen der Isometrie existieren. Fraglich ist, ob man überhaupt von Isometrie sprechen kann, da jede isometrische Muskelaktion aus feinen Oszillationen besteht, die eine per Definition postulierte Isometrie ausschließen. Es wird der Vorschlag unterbreitet, die Isometrie durch den Begriff der Homöometrie auszutauschen. Die Ergebnisse der Paar-Isometrie-Messungen zeigen u.a., dass neuromuskuläre Systeme in der Lage sind, ihre myotendinösen Oszillationen so aufeinander abzustimmen, dass kohärentes Verhalten entsteht. Es wird angenommen, dass hierzu beide neuromuskulären Systeme funktionell intakt sein müssen. Das Verfahren könnte für die Diagnostik funktioneller Störungen relevant werden.
The International Project for the Evaluation of Educational Achievement (IEA) was formed in the 1950s (Postlethwaite, 1967). Since that time, the IEA has conducted many studies in the area of mathematics, such as the First International Mathematics Study (FIMS) in 1964, the Second International Mathematics Study (SIMS) in 1980-1982, and a series of studies beginning with the Third International Mathematics and Science Study (TIMSS) which has been conducted every 4 years since 1995. According to Stigler et al. (1999), in the FIMS and the SIMS, U.S. students achieved low scores in comparison with students in other countries (p. 1). The TIMSS 1995 “Videotape Classroom Study” was therefore a complement to the earlier studies conducted to learn “more about the instructional and cultural processes that are associated with achievement” (Stigler et al., 1999, p. 1). The TIMSS Videotape Classroom Study is known today as the TIMSS Video Study. From the findings of the TIMSS 1995 Video Study, Stigler and Hiebert (1999) likened teaching to “mountain ranges poking above the surface of the water,” whereby they implied that we might see the mountaintops, but we do not see the hidden parts underneath these mountain ranges (pp. 73-78). By watching the videotaped lessons from Germany, Japan, and the United States again and again, they discovered that “the systems of teaching within each country look similar from lesson to lesson. At least, there are certain recurring features [or patterns] that typify many of the lessons within a country and distinguish the lessons among countries” (pp. 77-78). They also discovered that “teaching is a cultural activity,” so the systems of teaching “must be understood in relation to the cultural beliefs and assumptions that surround them” (pp. 85, 88). From this viewpoint, one of the purposes of this dissertation was to study some cultural aspects of mathematics teaching and relate the results to mathematics teaching and learning in Vietnam. Another research purpose was to carry out a video study in Vietnam to find out the characteristics of Vietnamese mathematics teaching and compare these characteristics with those of other countries. In particular, this dissertation carried out the following research tasks: - Studying the characteristics of teaching and learning in different cultures and relating the results to mathematics teaching and learning in Vietnam - Introducing the TIMSS, the TIMSS Video Study and the advantages of using video study in investigating mathematics teaching and learning - Carrying out the video study in Vietnam to identify the image, scripts and patterns, and the lesson signature of eighth-grade mathematics teaching in Vietnam - Comparing some aspects of mathematics teaching in Vietnam and other countries and identifying the similarities and differences across countries - Studying the demands and challenges of innovating mathematics teaching methods in Vietnam – lessons from the video studies Hopefully, this dissertation will be a useful reference material for pre-service teachers at education universities to understand the nature of teaching and develop their teaching career.
Transcription factors (TFs) are ubiquitous gene expression regulators and play essential roles in almost all biological processes. This Ph.D. project is primarily focused on the functional characterisation of MYB112 - a member of the R2R3-MYB TF family from the model plant Arabidopsis thaliana. This gene was selected due to its increased expression during senescence based on previous qRT-PCR expression profiling experiments of 1880 TFs in Arabidopsis leaves at three developmental stages (15 mm leaf, 30 mm leaf and 20% yellowing leaf). MYB112 promoter GUS fusion lines were generated to further investigate the expression pattern of MYB112. Employing transgenic approaches in combination with metabolomics and transcriptomics we demonstrate that MYB112 exerts a major role in regulation of plant flavonoid metabolism. We report enhanced and impaired anthocyanin accumulation in MYB112 overexpressors and MYB112-deficient mutants, respectively. Expression profiling reveals that MYB112 acts as a positive regulator of the transcription factor PAP1 leading to increased anthocyanin biosynthesis, and as a negative regulator of MYB12 and MYB111, which both control flavonol biosynthesis. We also identify MYB112 early responsive genes using a combination of several approaches. These include gene expression profiling (Affymetrix ATH1 micro-arrays and qRT-PCR) and transactivation assays in leaf mesophyll cell protoplasts. We show that MYB112 binds to an 8-bp DNA fragment containing the core sequence (A/T/G)(A/C)CC(A/T)(A/G/T)(A/C)(T/C). By electrophoretic mobility shift assay (EMSA) and chromatin immunoprecipitation coupled to qPCR (ChIP-qPCR) we demonstrate that MYB112 binds in vitro and in vivo to MYB7 and MYB32 promoters revealing them as direct downstream target genes. MYB TFs were previously reported to play an important role in controlling flavonoid biosynthesis in plants. Many factors acting upstream of the anthocyanin biosynthesis pathway show enhanced expression levels during nitrogen limitation, or elevated sucrose content. In addition to the mentioned conditions, other environmental parameters including salinity or high light stress may trigger anthocyanin accumulation. In contrast to several other MYB TFs affecting anthocyanin biosynthesis pathway genes, MYB112 expression is not controlled by nitrogen limitation, or carbon excess, but rather is stimulated by salinity and high light stress. Thus, MYB112 constitutes a previously uncharacterised regulatory factor that modifies anthocyanin accumulation under conditions of abiotic stress.
Anorexia nervosa und unipolare Affektive Störungen stellen häufige und schwerwiegende kinder- und jugendpsychiatrische Störungsbilder dar, deren Pathogenese bislang nicht vollständig entschlüsselt ist. Verschiedene Studien zeigen bei erwachsenen Patienten gravierende Auffälligkeiten in den kognitiven Funktionen. Dahingegen scheinen bei adoleszenten Patienten lediglich leichtere Einschränkungen in den kognitiven Funktionen vorzuliegen. Die Prävalenz der Anorexia nervosa und unipolaren Affektiven Störung ist mit Beginn der Adoleszenz deutlich erhöht. Es ist anzunehmen, dass kognitive Dysfunktionen, die sich bereits in diesem Alter abzeichnen, den weiteren Krankheitsverlauf bis in das Erwachsenenalter, die Behandlungsergebnisse und die Prognose maßgeblich beeinträchtigen könnten. Zudem ist von einem höheren Chronifizierungsrisiko auszugehen. In der vorliegenden Arbeit wurden daher kognitive Funktionen bei adoleszenten Patientinnen mit Anorexia nervosa sowie Patienten mit unipolaren Affektiven Störungen untersucht. Die Überprüfung der kognitiven Funktionen bei Patientinnen mit Anorexia nervosa erfolgte vor und nach Gewichtszunahme. Weiterhin wurden zugrundeliegende biologische Mechanismen überprüft. Zudem wurde die Spezifität kognitiver Dysfunktionen für beide Störungsbilder untersucht und bei Patienten mit unipolaren Affektiven Störungen geschlechtsbezogene Unterschiede exploriert. Insgesamt gingen 47 Patientinnen mit Anorexia nervosa (mittleres Alter 16,3 + 1,6 Jahre), 39 Patienten mit unipolaren Affektiven Störungen (mittleres Alter 15,5 + 1,3 Jahre) sowie 78 Kontrollprobanden (mittleres Alter 16,5 + 1,3 Jahre) in die Untersuchung ein. Sämtliche Studienteilnehmer durchliefen eine neuropsychologische Testbatterie, bestehend aus Verfahren zur Überprüfung der kognitiven Flexibilität sowie visuellen und psychomotorischen Verarbeitungsgeschwindigkeit. Neben einem Intelligenzscreening wurden zudem das Ausmaß der depressiven Symptomatik sowie die allgemeine psychische Belastung erfasst. Die Ergebnisse legen nahe, dass bei adoleszenten Patientinnen mit Anorexia nervosa, sowohl im akut untergewichtigen Zustand als auch nach Gewichtszunahme, lediglich milde Beeinträchtigungen in den kognitiven Funktionen vorliegen. Im akut untergewichtigen Zustand offenbarten sich deutliche Zusammenhänge zwischen dem appetitregulierenden Peptid Agouti-related Protein und kognitiver Flexibilität, nicht jedoch zwischen Agouti-related Protein und visueller oder psychomotorischer Verarbeitungsgeschwindigkeit. Bei dem Vergleich von Anorexia nervosa und unipolaren Affektiven Störungen prädizierte die Zugehörigkeit zu der Patientengruppe Anorexia nervosa ein Risiko für das Vorliegen kognitiver Dysfunktionen. Es zeigte sich zudem, dass adoleszente Patienten mit unipolaren Affektiven Störungen lediglich in der psychomotorischen Verarbeitungsgeschwindigkeit tendenziell schwächere Leistungen offenbarten als gesunde Kontrollprobanden. Es ergab sich jedoch ein genereller geschlechtsbezogener Vorteil für weibliche Probanden in der visuellen und psychomotorischen Verarbeitungsgeschwindigkeit. Die vorliegenden Befunde unterstreichen die Notwendigkeit der Überprüfung kognitiver Funktionen bei adoleszenten Patienten mit Anorexia nervosa sowie unipolaren Affektiven Störungen in der klinischen Routinediagnostik. Die Patienten könnten von spezifischen Therapieprogrammen profitieren, die Beeinträchtigungen in den kognitiven Funktionen mildern bzw. präventiv behandeln.
Poly(A) Polymerase 1 (PAPS1) influences organ size and pathogen response in Arabidopsis thaliana
(2014)
Polyadenylation of pre-mRNAs is critical for efficient nuclear export, stability, and translation of the mature mRNAs, and thus for gene expression. The bulk of pre-mRNAs are processed by canonical nuclear poly(A) polymerase (PAPS). Both vertebrate and higher-plant genomes encode more than one isoform of this enzyme, and these are coexpressed in different tissues. However, in neither case is it known whether the isoforms fulfill different functions or polyadenylate distinct subsets of pre-mRNAs. This thesis shows that the three canonical nuclear PAPS isoforms in Arabidopsis are functionally specialized owing to their evolutionarily divergent C-terminal domains. A moderate loss-of-function mutant in PAPS1 leads to increase in floral organ size, whereas leaf size is reduced. A strong loss-of-function mutation causes a male gametophytic defect, whereas a weak allele leads to reduced leaf growth. By contrast, plants lacking both PAPS2 and PAPS4 function are viable with wild-type leaf growth. Polyadenylation of SMALL AUXIN UP RNA (SAUR) mRNAs depends specifically on PAPS1 function. The resulting reduction in SAUR activity in paps1 mutants contributes to their reduced leaf growth, providing a causal link between polyadenylation of specific pre-mRNAs by a particular PAPS isoform and plant growth. Additionally, opposite effects of PAPS1 on leaf and flower growth reflect the different identities of these organs. The overgrowth of paps1 mutant petals is due to increased recruitment of founder cells into early organ primordia whereas the reduced leaf size is due to an ectopic pathogen response. This constitutive immune response leads to increased resistance to the biotrophic oomycete Hyaloperonospora arabidopsidis and reflects activation of the salicylic acid-independent signalling pathway downstream of ENHANCED DISEASE SUSCEPTIBILITY1 (EDS1)/PHYTOALEXIN DEFICIENT4 (PAD4). Immune responses are accompanied by intracellular redox changes. Consistent with this, the redox-status of the chloroplast is altered in paps1-1 mutants. The molecular effects of the paps1-1 mutation were analysed using an RNA sequencing approach that distinguishes between long- and short tailed mRNA. The results shown here suggest the existence of an additional layer of regulation in plants and possibly vertebrate gene expression, whereby the relative activities of canonical nuclear PAPS isoforms control de novo synthesized poly(A) tail length and hence expression of specific subsets of mRNAs.
Mathematical modeling of biological systems is a powerful tool to systematically investigate the functions of biological processes and their relationship with the environment. To obtain accurate and biologically interpretable predictions, a modeling framework has to be devised whose assumptions best approximate the examined scenario and which copes with the trade-off of complexity of the underlying mathematical description: with attention to detail or high coverage. Correspondingly, the system can be examined in detail on a smaller scale or in a simplified manner on a larger scale. In this thesis, the role of photosynthesis and its related biochemical processes in the context of plant metabolism was dissected by employing modeling approaches ranging from kinetic to stoichiometric models. The Calvin-Benson cycle, as primary pathway of carbon fixation in C3 plants, is the initial step for producing starch and sucrose, necessary for plant growth. Based on an integrative analysis for model ranking applied on the largest compendium of (kinetic) models for the Calvin-Benson cycle, those suitable for development of metabolic engineering strategies were identified. Driven by the question why starch rather than sucrose is the predominant transitory carbon storage in higher plants, the metabolic costs for their synthesis were examined. The incorporation of the maintenance costs for the involved enzymes provided a model-based support for the preference of starch as transitory carbon storage, by only exploiting the stoichiometry of synthesis pathways. Many photosynthetic organisms have to cope with processes which compete with carbon fixation, such as photorespiration whose impact on plant metabolism is still controversial. A systematic model-oriented review provided a detailed assessment for the role of this pathway in inhibiting the rate of carbon fixation, bridging carbon and nitrogen metabolism, shaping the C1 metabolism, and influencing redox signal transduction. The demand of understanding photosynthesis in its metabolic context calls for the examination of the related processes of the primary carbon metabolism. To this end, the Arabidopsis core model was assembled via a bottom-up approach. This large-scale model can be used to simulate photoautotrophic biomass production, as an indicator for plant growth, under so-called optimal, carbon-limiting and nitrogen-limiting growth conditions. Finally, the introduced model was employed to investigate the effects of the environment, in particular, nitrogen, carbon and energy sources, on the metabolic behavior. This resulted in a purely stoichiometry-based explanation for the experimental evidence for preferred simultaneous acquisition of nitrogen in both forms, as nitrate and ammonium, for optimal growth in various plant species. The findings presented in this thesis provide new insights into plant system's behavior, further support existing opinions for which mounting experimental evidences arise, and posit novel hypotheses for further directed large-scale experiments.
Mars is one of the best candidates among planetary bodies for supporting life. The presence of water in the form of ice and atmospheric vapour together with the availability of biogenic elements and energy are indicators of the possibility of hosting life as we know it. The occurrence of permanently frozen ground – permafrost, is a common phenomenon on Mars and it shows multiple morphological analogies with terrestrial permafrost. Despite the extreme inhospitable conditions, highly diverse microbial communities inhabit terrestrial permafrost in large numbers. Among these are methanogenic archaea, which are anaerobic chemotrophic microorganisms that meet many of the metabolic and physiological requirements for survival on the martian subsurface. Moreover, methanogens from Siberian permafrost are extremely resistant against different types of physiological stresses as well as simulated martian thermo-physical and subsurface conditions, making them promising model organisms for potential life on Mars. The main aims of this investigation are to assess the survival of methanogenic archaea under Mars conditions, focusing on methanogens from Siberian permafrost, and to characterize their biosignatures by means of Raman spectroscopy, a powerful technology for microbial identification that will be used in the ExoMars mission. For this purpose, methanogens from Siberian permafrost and non-permafrost habitats were subjected to simulated martian desiccation by exposure to an ultra-low subfreezing temperature (-80ºC) and to Mars regolith (S-MRS and P-MRS) and atmospheric analogues. They were also exposed to different concentrations of perchlorate, a strong oxidant found in martian soils. Moreover, the biosignatures of methanogens were characterized at the single-cell level using confocal Raman microspectroscopy (CRM). The results showed survival and methane production in all methanogenic strains under simulated martian desiccation. After exposure to subfreezing temperatures, Siberian permafrost strains had a faster metabolic recovery, whereas the membranes of non-permafrost methanogens remained intact to a greater extent. The strain Methanosarcina soligelidi SMA-21 from Siberian permafrost showed significantly higher methane production rates than all other strains after the exposure to martian soil and atmospheric analogues, and all strains survived the presence of perchlorate at the concentration on Mars. Furthermore, CRM analyses revealed remarkable differences in the overall chemical composition of permafrost and non-permafrost strains of methanogens, regardless of their phylogenetic relationship. The convergence of the chemical composition in non-sister permafrost strains may be the consequence of adaptations to the environment, and could explain their greater resistance compared to the non-permafrost strains. As part of this study, Raman spectroscopy was evaluated as an analytical technique for remote detection of methanogens embedded in a mineral matrix. This thesis contributes to the understanding of the survival limits of methanogenic archaea under simulated martian conditions to further assess the hypothetical existence of life similar to methanogens on the martian subsurface. In addition, the overall chemical composition of methanogens was characterized for the first time by means of confocal Raman microspectroscopy, with potential implications for astrobiological research.