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This study analyzes the influence of local and regional climatic factors on the stable isotopic composition of rainfall in the Vietnamese Mekong Delta (VMD) as part of the Asian monsoon region. It is based on 1.5 years of weekly rainfall samples. In the first step, the isotopic composition of the samples is analyzed by local meteoric water lines (LMWLs) and single-factor linear correlations. Additionally, the contribution of several regional and local factors is quantified by multiple linear regression (MLR) of all possible factor combinations and by relative importance analysis. This approach is novel for the interpretation of isotopic records and enables an objective quantification of the explained variance in isotopic records for individual factors. In this study, the local factors are extracted from local climate records, while the regional factors are derived from atmospheric backward trajectories of water particles. The regional factors, i.e., precipitation, temperature, relative humidity and the length of backward trajectories, are combined with equivalent local climatic parameters to explain the response variables delta O-18, delta H-2, and d-excess of precipitation at the station of measurement.
The results indicate that (i) MLR can better explain the isotopic variation in precipitation (R-2 = 0.8) compared to single-factor linear regression (R-2 = 0.3); (ii) the isotopic variation in precipitation is controlled dominantly by regional moisture regimes (similar to 70 %) compared to local climatic conditions (similar to 30 %); (iii) the most important climatic parameter during the rainy season is the precipitation amount along the trajectories of air mass movement; (iv) the influence of local precipitation amount and temperature is not sig-nificant during the rainy season, unlike the regional precipitation amount effect; (v) secondary fractionation processes (e.g., sub-cloud evaporation) can be identified through the d-excess and take place mainly in the dry season, either locally for delta O-18 and delta H-2, or along the air mass trajectories for d-excess. The analysis shows that regional and local factors vary in importance over the seasons and that the source regions and transport pathways, and particularly the climatic conditions along the pathways, have a large influence on the isotopic composition of rainfall. Although the general results have been reported qualitatively in previous studies (proving the validity of the approach), the proposed method provides quantitative estimates of the controlling factors, both for the whole data set and for distinct seasons. Therefore, it is argued that the approach constitutes an advancement in the statistical analysis of isotopic records in rainfall that can supplement or precede more complex studies utilizing atmospheric models. Due to its relative simplicity, the method can be easily transferred to other regions, or extended with other factors.
The results illustrate that the interpretation of the isotopic composition of precipitation as a recorder of local climatic conditions, as for example performed for paleorecords of water isotopes, may not be adequate in the southern part of the Indochinese Peninsula, and likely neither in other regions affected by monsoon processes. However, the presented approach could open a pathway towards better and seasonally differentiated reconstruction of paleoclimates based on isotopic records.
Understanding hydrological processes is of fundamental importance for the Vietnamese national food security and the livelihood of the population in the Vietnamese Mekong Delta (VMD). As a consequence of sparse data in this region, however, hydrologic processes, such as the controlling processes of precipitation, the interaction between surface and groundwater, and groundwater dynamics, have not been thoroughly studied. The lack of this knowledge may negatively impact the long-term strategic planning for sustainable groundwater resources management and may result in insufficient groundwater recharge and freshwater scarcity. It is essential to develop useful methods for a better understanding of hydrological processes in such data-sparse regions. The goal of this dissertation is to advance methodologies that can improve the understanding of fundamental hydrological processes in the VMD, based on the analyses of stable water isotopes and monitoring data. The thesis mainly focuses on the controlling processes of precipitation, the mechanism of surface–groundwater interaction, and the groundwater dynamics. These processes have not been fully addressed in the VMD so far. The thesis is based on statistical analyses of the isotopic data of Global Network of Isotopes in Precipitation (GNIP), of meteorological and hydrological data from Vietnamese agencies, and of the stable water isotopes and monitoring data collected as part of this work.
First, the controlling processes of precipitation were quantified by the combination of trajectory analysis, multi-factor linear regression, and relative importance analysis (hereafter, a model‐based statistical approach). The validity of this approach is confirmed by similar, but mainly qualitative results obtained in other studies. The total variation in precipitation isotopes (δ18O and δ2H) can be better explained by multiple linear regression (up to 80%) than single-factor linear regression (30%). The relative importance analysis indicates that atmospheric moisture regimes control precipitation isotopes rather than local climatic conditions. The most crucial factor is the upstream rainfall along the trajectories of air mass movement. However, the influences of regional and local climatic factors vary in importance over the seasons. The developed model‐based statistical approach is a robust tool for the interpretation of precipitation isotopes and could also be applied to understand the controlling processes of precipitation in other regions.
Second, the concept of the two-component lumped-parameter model (LPM) in conjunction with stable water isotopes was applied to examine the surface–groundwater interaction in the VMD. A calibration framework was also set up to evaluate the behaviour, parameter identifiability, and uncertainties of two-component LPMs. The modelling results provided insights on the subsurface flow conditions, the recharge contributions, and the spatial variation of groundwater transit time. The subsurface flow conditions at the study site can be best represented by the linear-piston flow distribution. The contributions of the recharge sources change with distance to the river. The mean transit time (mTT) of riverbank infiltration increases with the length of the horizontal flow path and the decreasing gradient between river and groundwater. River water infiltrates horizontally mainly via the highly permeable aquifer, resulting in short mTTs (<40 weeks) for locations close to the river (<200 m). The vertical infiltration from precipitation takes place primarily via a low‐permeable overlying aquitard, resulting in considerably longer mTTs (>80 weeks). Notably, the transit time of precipitation infiltration is independent of the distance to the river. All these results are hydrologically plausible and could be quantified by the presented method for the first time. This study indicates that the highly complex mechanism of surface–groundwater interaction at riverbank infiltration systems can be conceptualized by exploiting two‐component LPMs. It is illustrated that the model concept can be used as a tool to investigate the hydrological functioning of mixing processes and the flow path of multiple water components in riverbank infiltration systems.
Lastly, a suite of time series analysis approaches was applied to examine the groundwater dynamics in the VMD. The assessment was focused on the time-variant trends of groundwater levels (GWLs), the groundwater memory effect (representing the time that an aquifer holds water), and the hydraulic response between surface water and multi-layer alluvial aquifers. The analysis indicates that the aquifers act as low-pass filters to reduce the high‐frequency signals in the GWL variations, and limit the recharge to the deep groundwater. The groundwater abstraction has exceeded groundwater recharge between 1997 and 2017, leading to the decline of groundwater levels (0.01-0.55 m/year) in all considered aquifers in the VMD. The memory effect varies according to the geographical location, being shorter in shallow aquifers and flood-prone areas and longer in deep aquifers and coastal regions. Groundwater depth, season, and location primarily control the variation of the response time between the river and alluvial aquifers. These findings are important contributions to the hydrogeological literature of a little-known groundwater system in an alluvial setting. It is suggested that time series analysis can be used as an efficient tool to understand groundwater systems where resources are insufficient to develop a physical-based groundwater model.
This doctoral thesis demonstrates that important aspects of hydrological processes can be understood by statistical analysis of stable water isotope and monitoring data. The approaches developed in this thesis can be easily transferred to regions in similar tropical environments, particularly those in alluvial settings. The results of the thesis can be used as a baseline for future isotope-based studies and contribute to the hydrogeological literature of little-known groundwater systems in the VMD.
Building biological models by inferring functional dependencies from experimental data is an important issue in Molecular Biology. To relieve the biologist from this traditionally manual process, various approaches have been proposed to increase the degree of automation. However, available approaches often yield a single model only, rely on specific assumptions, and/or use dedicated, heuristic algorithms that are intolerant to changing circumstances or requirements in the view of the rapid progress made in Biotechnology. Our aim is to provide a declarative solution to the problem by appeal to Answer Set Programming (ASP) overcoming these difficulties. We build upon an existing approach to Automatic Network Reconstruction proposed by part of the authors. This approach has firm mathematical foundations and is well suited for ASP due to its combinatorial flavor providing a characterization of all models explaining a set of experiments. The usage of ASP has several benefits over the existing heuristic algorithms. First, it is declarative and thus transparent for biological experts. Second, it is elaboration tolerant and thus allows for an easy exploration and incorporation of biological constraints. Third, it allows for exploring the entire space of possible models. Finally, our approach offers an excellent performance, matching existing, special-purpose systems.
„Es, sin duda, un ecuatoriano ilustre, no obstante su origen alemán y su naturaleza universal.“ So lautet die Aussage eines ecuadorianischen Akademikers über Alexander von Humboldt. Eine Aussage, die sich freilich nur erklären lässt, wenn die Rezeption des deutschen Universalgelehrten im Zusammenhang mit dem ecuadorianischen Nationsbildungsprozess kritisch betrachtet wird. Der Artikel greift diesen Ansatz auf und untersucht den direkten und indirekten Einfluss des Naturforschers auf den diskursiven Prozess, in dem der nationale Raum wissenschaftlich, visuell und literarisch bearbeitet wurde. Illustriert wird dies anhand des geographischen Werkes von Manuel Villavicencio (1804-1871) und des Werks des Malers Juan Augustín Guerrero (1818-1886). Gegenstand der Analyse wird schliesslich auch, wie durch das Humboldt-Bild einige zentrale Aspekte der „offiziellen“ nationalen Identität gestützt werden konnten. Aufzeigen lässt sich dies im Humboldt-Bild, das im Zeitraum zwischen den Gedenkfeierlichkeiten 1959 und 1969 entworfen worden war.
The desiccation-tolerant plant Haberlea rhodopensis can withstand months of darkness without any visible senescence. Here, we investigated the molecular mechanisms of this adaptation to prolonged (30 d) darkness and subsequent return to light. H. rhodopensis plants remained green and viable throughout the dark treatment. Transcriptomic analysis revealed that darkness regulated several transcription factor (TF) genes. Stress-and autophagy-related TFs such as ERF8, HSFA2b, RD26, TGA1, and WRKY33 were up-regulated, while chloroplast-and flowering-related TFs such as ATH1, COL2, COL4, RL1, and PTAC7 were repressed. PHYTOCHROME INTERACTING FACTOR4, a negative regulator of photomorphogenesis and promoter of senescence, also was down-regulated. In response to darkness, most of the photosynthesis-and photorespiratory-related genes were strongly down-regulated, while genes related to autophagy were up-regulated. This occurred concomitant with the induction of SUCROSE NON-FERMENTING1-RELATED PROTEIN KINASES (SnRK1) signaling pathway genes, which regulate responses to stress-induced starvation and autophagy. Most of the genes associated with chlorophyll catabolism, which are induced by darkness in dark-senescing species, were either unregulated (PHEOPHORBIDE A OXYGENASE, PAO; RED CHLOROPHYLL CATABOLITE REDUCTASE, RCCR) or repressed (STAY GREEN-LIKE, PHEOPHYTINASE, and NON-YELLOW COLORING1). Metabolite profiling revealed increases in the levels of many amino acids in darkness, suggesting increased protein degradation. In darkness, levels of the chloroplastic lipids digalactosyldiacylglycerol, monogalactosyldiacylglycerol, phosphatidylglycerol, and sulfoquinovosyldiacylglycerol decreased, while those of storage triacylglycerols increased, suggesting degradation of chloroplast membrane lipids and their conversion to triacylglycerols for use as energy and carbon sources. Collectively, these data show a coordinated response to darkness, including repression of photosynthetic, photorespiratory, flowering, and chlorophyll catabolic genes, induction of autophagy and SnRK1 pathways, and metabolic reconfigurations that enable survival under prolonged darkness.
Background: Phosphorylation of proteins plays a crucial role in the regulation and activation of metabolic and signaling pathways and constitutes an important target for pharmaceutical intervention. Central to the phosphorylation process is the recognition of specific target sites by protein kinases followed by the covalent attachment of phosphate groups to the amino acids serine, threonine, or tyrosine. The experimental identification as well as computational prediction of phosphorylation sites (P-sites) has proved to be a challenging problem. Computational methods have focused primarily on extracting predictive features from the local, one-dimensional sequence information surrounding phosphorylation sites. Results: We characterized the spatial context of phosphorylation sites and assessed its usability for improved phosphorylation site predictions. We identified 750 non-redundant, experimentally verified sites with three-dimensional (3D) structural information available in the protein data bank (PDB) and grouped them according to their respective kinase family. We studied the spatial distribution of amino acids around phosphorserines, phosphothreonines, and phosphotyrosines to extract signature 3D-profiles. Characteristic spatial distributions of amino acid residue types around phosphorylation sites were indeed discernable, especially when kinase-family-specific target sites were analyzed. To test the added value of using spatial information for the computational prediction of phosphorylation sites, Support Vector Machines were applied using both sequence as well as structural information. When compared to sequence-only based prediction methods, a small but consistent performance improvement was obtained when the prediction was informed by 3D-context information. Conclusion: While local one-dimensional amino acid sequence information was observed to harbor most of the discriminatory power, spatial context information was identified as relevant for the recognition of kinases and their cognate target sites and can be used for an improved prediction of phosphorylation sites. A web-based service (Phos3D) implementing the developed structurebased P-site prediction method has been made available at http://phos3d.mpimp-golm.mpg.de.
The study of biological interaction networks is a central theme in systems biology. Here, we investigate common as well as differentiating principles of molecular interaction networks associated with different levels of molecular organization. They include metabolic pathway maps, protein-protein interaction networks as well as kinase interaction networks. First, we present an integrated analysis of metabolic pathway maps and protein-protein interaction networks (PIN). It has long been established that successive enzymatic steps are often catalyzed by physically interacting proteins forming permanent or transient multi-enzyme complexes. Inspecting high-throughput PIN data, it has been shown recently that, indeed, enzymes involved in successive reactions are generally more likely to interact than other protein pairs. In this study, we expanded this line of research to include comparisons of the respective underlying network topologies as well as to investigate whether the spatial organization of enzyme interactions correlates with metabolic efficiency. Analyzing yeast data, we detected long-range correlations between shortest paths between proteins in both network types suggesting a mutual correspondence of both network architectures. We discovered that the organizing principles of physical interactions between metabolic enzymes differ from the general PIN of all proteins. While physical interactions between proteins are generally dissortative, enzyme interactions were observed to be assortative. Thus, enzymes frequently interact with other enzymes of similar rather than different degree. Enzymes carrying high flux loads are more likely to physically interact than enzymes with lower metabolic throughput. In particular, enzymes associated with catabolic pathways as well as enzymes involved in the biosynthesis of complex molecules were found to exhibit high degrees of physical clustering. Single proteins were identified that connect major components of the cellular metabolism and hence might be essential for the structural integrity of several biosynthetic systems. Besides metabolic aspects of PINs, we investigated the characteristic topological properties of protein interactions involved in signaling and regulatory functions mediated by kinase interactions. Characteristic topological differences between PINs associated with metabolism, and those describing phosphorylation networks were revealed and shown to reflect the different modes of biological operation of both network types. The construction of phosphorylation networks is based on the identification of specific kinase-target relations including the determination of the actual phosphorylation sites (P-sites). The computational prediction of P-sites as well as the identification of involved kinases still suffers from insufficient accuracies and specificities of the underlying prediction algorithms, and the experimental identification in a genome-scale manner is not (yet) doable. Computational prediction methods have focused primarily on extracting predictive features from the local, one-dimensional sequence information surrounding P-sites. However the recognition of such motifs by the respective kinases is a spatial event. Therefore, we characterized the spatial distributions of amino acid residue types around P-sites and extracted signature 3D-profiles. We then tested the added value of spatial information on the prediction performance. When compared to sequence-only based predictors, a consistent performance gain was obtained. The availability of reliable training data of experimentally determined P-sites is critical for the development of computational prediction methods. As part of this thesis, we provide an assessment of false-positive rates of phosphoproteomic data.
Living cells rely on transport and interaction of biomolecules to perform their diverse functions. A powerful toolbox to study these highly dynamic processes in the native environment is provided by fluorescence fluctuation spectroscopy (FFS) techniques. In more detail, FFS takes advantage of the inherent dynamics present in biological systems, such as diffusion, to infer molecular parameters from fluctuations of the signal emitted by an ensemble of fluorescently tagged molecules. In particular, two parameters are accessible: the concentration of molecules and their transit times through the observation volume. In addition, molecular interactions can be measured by analyzing the average signal emitted per molecule - the molecular brightness - and the cross-correlation of signals detected from differently tagged species.
In the present work, several FFS techniques were implemented and applied in different biological contexts. In particular, scanning fluorescence correlation spectroscopy (sFCS) was performed to measure protein dynamics and interactions at the plasma membrane (PM) of cells, and number and brightness (N&B) analysis to spatially map molecular aggregation. To account for technical limitations and sample related artifacts, e.g. detector noise, photobleaching, or background signal, several correction schemes were explored. In addition, sFCS was combined with spectral detection and higher moment analysis of the photon count distribution to resolve multiple species at the PM.
Using scanning fluorescence cross-correlation spectroscopy and cross-correlation N&B, the interactions of amyloid precursor-like protein 1 (APLP1), a synaptic membrane protein, were investigated. It is shown for the first time directly in living cells, that APLP1 undergoes specific interactions at cell-cell contacts. It is further demonstrated that zinc ions induce formation of large APLP1 clusters that enrich at contact sites and bind to clusters on the opposing cell. Altogether, these results provide direct evidence that APLP1 is a zinc ion dependent neuronal adhesion protein.
In the context of APLP1, discrepancies of oligomeric state estimates were observed, which were attributed to non-fluorescent states of the chosen red fluorescent protein (FP) tag mCardinal (mCard). Therefore, multiple FPs and their performance in FFS based measurements of protein interactions were systematically evaluated. The study revealed superior properties of monomeric enhanced green fluorescent protein (mEGFP) and mCherry2. Furthermore, a simple correction scheme allowed unbiased in situ measurements of protein oligomerization by quantifying non-fluorescent state fractions of FP tags. The procedure was experimentally confirmed for biologically relevant protein complexes consisting of up to 12 monomers.
In the last part of this work, fluorescence correlation spectroscopy (FCS) and single particle tracking (SPT) were used to characterize diffusive transport dynamics in a bacterial biofilm model. Biofilms are surface adherent bacterial communities, whose structural organization is provided by extracellular polymeric substances (EPS) that form a viscous polymer hydrogel. The presented study revealed a probe size and polymer concentration dependent (anomalous) diffusion hindrance in a reconstituted EPS matrix system caused by polymer chain entanglement at physiological concentrations. This result indicates a meshwork-like organization of the biofilm matrix that allows free diffusion of small particles, but strongly hinders diffusion of larger particles such as bacteriophages. Finally, it is shown that depolymerization of the matrix by phage derived enzymes rapidly facilitated free diffusion. In the context of phage infections, such enzymes may provide a key to evade trapping in the biofilm matrix and promote efficient infection of bacteria. In combination with phage application, matrix depolymerizing enzymes may open up novel antimicrobial strategies against multiresistant bacterial strains, as a promising, more specific alternative to conventional antibiotics.
This book deals with the inner life of the capitalist firm. There we find numerous conflicts, the most important of which concerns the individual employment relationship which is understood as a principal-agent problem between the manager, the principal, who issues orders that are to be followed by the employee, the agent. Whereas economic theory traditionally analyses this relationship from a (normative) perspective of the firm in order to support the manager in finding ways to influence the behavior of the employees, such that the latter – ideally – act on behalf of their superior, this book takes a neutral stance. It focusses on explaining individual behavioral patterns and the resulting interactions between the actors in the firm by taking sociological, institutional, and above all, psychological research into consideration. In doing so, insights are gained which challenge many assertions economists take for granted.
Biological materials, in addition to having remarkable physical properties, can also change shape and volume. These shape and volume changes allow organisms to form new tissue during growth and morphogenesis, as well as to repair and remodel old tissues. In addition shape or volume changes in an existing tissue can lead to useful motion or force generation (actuation) that may even still function in the dead organism, such as in the well known example of the hygroscopic opening or closing behaviour of the pine cone. Both growth and actuation of tissues are mediated, in addition to biochemical factors, by the physical constraints of the surrounding environment and the architecture of the underlying tissue. This habilitation thesis describes biophysical studies carried out over the past years on growth and swelling mediated shape changes in biological systems. These studies use a combination of theoretical and experimental tools to attempt to elucidate the physical mechanisms governing geometry controlled tissue growth and geometry constrained tissue swelling. It is hoped that in addition to helping understand fundamental processes of growth and morphogenesis, ideas stemming from such studies can also be used to design new materials for medicine and robotics.
Präventiver Kinderschutz
(2014)
A Conjunction of Mysteries
(2016)
The nutrient exchange between plant and fungus is the key element of the arbuscular mycorrhizal (AM) symbiosis. The fungus improves the plant’s uptake of mineral nutrients, mainly phosphate, and water, while the plant provides the fungus with photosynthetically assimilated carbohydrates. Still, the knowledge about the mechanisms of the nutrient exchange between the symbiotic partners is very limited. Therefore, transport processes of both, the plant and the fungal partner, are investigated in this study. In order to enhance the understanding of the molecular basis underlying this tight interaction between the roots of Medicago truncatula and the AM fungus Rhizophagus irregularis, genes involved in transport processes of both symbiotic partners are analysed here. The AM-specific regulation and cell-specific expression of potential transporter genes of M. truncatula that were found to be specifically regulated in arbuscule-containing cells and in non-arbusculated cells of mycorrhizal roots was confirmed. A model for the carbon allocation in mycorrhizal roots is suggested, in which carbohydrates are mobilized in non-arbusculated cells and symplastically provided to the arbuscule-containing cells. New insights into the mechanisms of the carbohydrate allocation were gained by the analysis of hexose/H+ symporter MtHxt1 which is regulated in distinct cells of mycorrhizal roots. Metabolite profiling of leaves and roots of a knock-out mutant, hxt1, showed that it indeed does have an impact on the carbohydrate balance in the course of the symbiosis throughout the whole plant, and on the interaction with the fungal partner. The primary metabolite profile of M. truncatula was shown to be altered significantly in response to mycorrhizal colonization. Additionally, molecular mechanisms determining the progress of the interaction in the fungal partner of the AM symbiosis were investigated. The R. irregularis transcriptome in planta and in extraradical tissues gave new insight into genes that are differentially expressed in these two fungal tissues. Over 3200 fungal transcripts with a significantly altered expression level in laser capture microdissection-collected arbuscules compared to extraradical tissues were identified. Among them, six previously unknown specifically regulated potential transporter genes were found. These are likely to play a role in the nutrient exchange between plant and fungus. While the substrates of three potential MFS transporters are as yet unknown, two potential sugar transporters are might play a role in the carbohydrate flow towards the fungal partner. In summary, this study provides new insights into transport processes between plant and fungus in the course of the AM symbiosis, analysing M. truncatula on the transcript and metabolite level, and provides a dataset of the R. irregularis transcriptome in planta, providing a high amount of new information for future works.
The Green formula is proved for boundary value problems (BVPs), when "basic" operator is arbitrary partial differential operator with variable matrix coefficients and "boundary" operators are quasi-normal with vector-coeficients. If the system possesses the fundamental solution, representation formula for a solution is derived and boundedness properties of participating layer potentials from function spaces on the boundary (Besov, Zygmund spaces) into appropriate weighted function spaces on the inner and the outer domains are established. Some related problems are discussed in conclusion: traces of functions from weighted spaces, traces of potential-type functions, Plemelji formulae,Calderón projections, restricted smoothness of the underlying surface and coefficients. The results have essential applications in investigations of BVPs by the potential method, in apriori estimates and in asymptotics of solutions.
Rezensiertes Werk: The literature of the sages : second part; Midrash and Targum; Liturgy, poetry, mysticism, contracts, inscriptions, ancient science and the languages of rabbinic literature / Shmuel Safrai ... [Hg.]. - Assen : Royal Van Gorcum/Fortress Press, 2006. - XVII, 722 S. - (= Compendia rerum Iudaicarum ad Novum Testamentum, Section 2: 3/2)