@phdthesis{Zajnulina2015,
  author    = {Zajnulina, Marina},
  title     = {Optical frequency comb generation in optical fibres},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-88776},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xii, 103},
  year      = {2015},
  abstract  = {Optical frequency combs (OFC) constitute an array of phase-correlated equidistant spectral lines with nearly equal intensities over a broad spectral range. The adaptations of combs generated in mode-locked lasers proved to be highly efficient for the calibration of high-resolution (resolving power > 50000) astronomical spectrographs. The observation of different galaxy structures or the studies of the Milky Way are done using instruments in the low- and medium resolution range. To such instruments belong, for instance, the Multi Unit Spectroscopic Explorer (MUSE) being developed for the Very Large Telescope (VLT) of the European Southern Observatory (ESO) and the 4-metre Multi-Object Spectroscopic Telescope (4MOST) being in development for the ESO VISTA 4.1 m Telescope. The existing adaptations of OFC from mode-locked lasers are not resolvable by these instruments. Within this work, a fibre-based approach for generation of OFC specifically in the low- and medium resolution range is studied numerically. This approach consists of three optical fibres that are fed by two equally intense continuous-wave (CW) lasers. The first fibre is a conventional single-mode fibre, the second one is a suitably pumped amplifying Erbium-doped fibre with anomalous dispersion, and the third one is a low-dispersion highly nonlinear optical fibre. The evolution of a frequency comb in this system is governed by the following processes: as the two initial CW-laser waves with different frequencies propagate through the first fibre, they generate an initial comb via a cascade of four-wave mixing processes. The frequency components of the comb are phase-correlated with the original laser lines and have a frequency spacing that is equal to the initial laser frequency separation (LFS), i.e. the difference in the laser frequencies. In the time domain, a train of pre-compressed pulses with widths of a few pico-seconds arises out of the initial bichromatic deeply-modulated cosine-wave. These pulses undergo strong compression in the subsequent amplifying Erbium-doped fibre: sub-100 fs pulses with broad OFC spectra are formed. In the following low-dispersion highly nonlinear fibre, the OFC experience a further broadening and the intensity of the comb lines are fairly equalised. This approach was mathematically modelled by means of a Generalised Nonlinear Schr{\"o}dinger Equation (GNLS) that contains terms describing the nonlinear optical Kerr effect, the delayed Raman response, the pulse self-steepening, and the linear optical losses as well as the wavelength-dependent Erbium gain profile for the second fibre. The initial condition equation being a deeply-modulated cosine-wave mimics the radiation of the two initial CW lasers. The numerical studies are performed with the help of Matlab scripts that were specifically developed for the integration of the GNLS and the initial condition according to the proposed approach for the OFC generation. The scripts are based on the Fourth-Order Runge-Kutta in the Interaction Picture Method (RK4IP) in combination with the local error method. This work includes the studies and results on the length optimisation of the first and the second fibre depending on different values of the group-velocity dispersion of the first fibre. Such length optimisation studies are necessary because the OFC have the biggest possible broadband and exhibit a low level of noise exactly at the optimum lengths. Further, the optical pulse build-up in the first and the second fibre was studied by means of the numerical technique called Soliton Radiation Beat Analysis (SRBA). It was shown that a common soliton crystal state is formed in the first fibre for low laser input powers. The soliton crystal continuously dissolves into separated optical solitons as the input power increases. The pulse formation in the second fibre is critically dependent on the features of the pulses formed in the first fibre. I showed that, for low input powers, an adiabatic soliton compression delivering low-noise OFC occurs in the second fibre. At high input powers, the pulses in the first fibre have more complicated structures which leads to the pulse break-up in the second fibre with a subsequent degradation of the OFC noise performance. The pulse intensity noise studies that were performed within the framework of this thesis allow making statements about the noise performance of an OFC. They showed that the intensity noise of the whole system decreases with the increasing value of LFS.},
  language  = {en}
}
@phdthesis{Prokhorov2015,
  author    = {Prokhorov, Boris E.},
  title     = {High-latitude coupling processes between thermospheric circulation and solar wind driven magnetospheric currents and plasma convection},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-92353},
  school      = {Universit{\"a}t Potsdam},
  pages     = {117},
  year      = {2015},
  abstract  = {The high-latitudinal thermospheric processes driven by the solar wind and Interplanetary Magnetic Field (IMF) interaction with the Earth magnetosphere are highly variable parts of the complex dynamic plasma environment, which represent the coupled Magnetosphere - Ionosphere - Thermosphere (MIT) system. The solar wind and IMF interactions transfer energy to the MIT system via reconnection processes at the magnetopause. The Field Aligned Currents (FACs) constitute the energetic links between the magnetosphere and the Earth ionosphere. The MIT system depends on the highly variable solar wind conditions, in particular on changes of the strength and orientation of the IMF. In my thesis, I perform an investigation on the physical background of the complex MIT system using the global physical - numerical, three-dimensional, time-dependent and self-consistent Upper Atmosphere Model (UAM). This model describes the thermosphere, ionosphere, plasmasphere and inner magnetosphere as well as the electrodynamics of the coupled MIT system for the altitudinal range from 80 (60) km up to the 15 Earth radii. In the present study, I developed and investigated several variants of the high-latitudinal electrodynamic coupling by including the IMF dependence of FACs into the UAM model. For testing, the various variants were applied to simulations of the coupled MIT system for different seasons, geomagnetic activities, various solar wind and IMF conditions. Additionally, these variants of the theoretical model with the IMF dependence were compared with global empirical models. The modelling results for the most important thermospheric parameters like neutral wind and mass density were compared with satellite measurements. The variants of the UAM model with IMF dependence show a good agreement with the satellite observations. In comparison with the empirical models, the improved variants of the UAM model reproduce a more realistic meso-scale structures and dynamics of the coupled MIT system than the empirical models, in particular at high latitudes. The new configurations of the UAM model with IMF dependence contribute to the improvement of space weather prediction.},
  language  = {en}
}
@phdthesis{Papendiek2015,
  author    = {Papendiek, Franka},
  title     = {Fodder legumes for Green Biorefineries},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-87198},
  school      = {Universit{\"a}t Potsdam},
  pages     = {XI, 111},
  year      = {2015},
  abstract  = {Peak oil is forcing our society to shift from fossil to renewable resources. However, such renewable resources are also scarce, and they too must be used in the most efficient and sustainable way possible. Biorefining is a concept that represents both resource efficiency and sustainability. This approach initiates a cascade use, which means food and feed production before material use, and an energy-related use at the end of the value-added chain. However, sustainability should already start in the fields, on the agricultural side, where the industrially-used biomass is produced. Therefore, the aim of my doctoral thesis is to analyse the sustainable feedstock supply for biorefineries. In contrast to most studies on biorefineries, I focus on the sustainable provision of feedstock and not on the bioengineering processing of whatever feedstock is available. Grasslands provide a high biomass potential. They are often inefficiently used, so a new utilisation concept based on the biorefining approach can increase the added value from grasslands. Fodder legumes from temporary and permanent grasslands were chosen for this study. Previous research shows that they are a promising feedstock for industrial uses, and their positive environmental impact is an important byproduct to promote sustainable agricultural production systems. Green Biorefineries are a class of biorefineries that use fresh green biomass, such as grasses or fodder legumes, as feedstock. After fractionation, an organic solution (press juice) forms; this is used for the production of organic acids, chemicals and extracts, as well as fertilisers. A fibre component (press cake) is also created to produce feed, biomaterials and biogas. This thesis examines a specific value chain, using alfalfa and clover/grass as feedstock and generating lactic acid and one type of cattle feed from it. The research question is if biomass production needs to be adapted for the utilisation of fodder legumes in the Green Biorefinery approach. I have attempted to give a holistic analysis of cultivation, processing and utilisation of two specific grassland crops. Field trials with alfalfa and clover/grass at different study sites were carried out to obtain information on biomass quality and quantity depending on the crop, study site and harvest time. The fresh biomass was fractionated with a screw press and the composition of press juices and cakes was analysed. Fermentation experiments took place to determine the usability of press juices for lactic acid production. The harvest time is not of high importance for the quality of press juices as a fermentation medium. For permanent grasslands, late cuts, often needed for reasons of nature conservation, are possible without a major influence on feedstock quality. The press cakes were silaged for feed-value determination. Following evidence that both intermediate products are suitable feedstocks in the Green Biorefinery approach, I developed a cost-benefit analysis, comparing different production scenarios on a farm. Two standard crop rotations for Brandenburg, producing either only market crops or market crops and fodder legumes for ruminant feed production, were compared to a system that uses the cultivated fodder legumes for the Green Biorefinery value chain instead of only feed production. Timely processing of the raw material is important to maintain quality for industrial uses, so on-site processing at the farm is assumed in Green Biorefinery scenario. As a result, more added value stays in the rural area. Two farm sizes, common for many European regions, were chosen to examine the influence of scale. The cost site of farmers has also been analysed in detail to assess which farm characteristics make production of press juices for biochemical industries viable. Results show that for large farm sizes in particular, the potential profits are high. Additionally, the wider spectrum of marketable products generates new sources of income for farmers. The holistic analysis of the supply chain provides evidence that the cultivation processes for fodder legumes do not need to be adapted for use in Green Biorefineries. In fact, the new utilisation approach even widens the cultivation and processing spectrum and can increase economic viability of fodder legume production in conventional farming.},
  language  = {en}
}
@phdthesis{Cattania2015,
  author    = {Cattania, Camilla},
  title     = {Improvement of aftershock models based on Coulomb stress changes and rate-and-state dependent friction},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-87097},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xvi, 123},
  year      = {2015},
  abstract  = {Earthquake clustering has proven the most useful tool to forecast changes in seismicity rates in the short and medium term (hours to months), and efforts are currently being made to extend the scope of such models to operational earthquake forecasting. The overarching goal of the research presented in this thesis is to improve physics-based earthquake forecasts, with a focus on aftershock sequences. Physical models of triggered seismicity are based on the redistribution of stresses in the crust, coupled with the rate-and-state constitutive law proposed by Dieterich to calculate changes in seismicity rate. This type of models are known as Coulomb- rate and-state (CRS) models. In spite of the success of the Coulomb hypothesis, CRS models typically performed poorly in comparison to statistical ones, and they have been underepresented in the operational forecasting context. In this thesis, I address some of these issues, and in particular these questions: (1) How can we realistically model the uncertainties and heterogeneity of the mainshock stress field? (2) What is the effect of time dependent stresses in the postseismic phase on seismicity? I focus on two case studies from different tectonic settings: the Mw 9.0 Tohoku megathrust and the Mw 6.0 Parkfield strike slip earthquake. I study aleatoric uncertainties using a Monte Carlo method. I find that the existence of multiple receiver faults is the most important source of intrinsic stress heterogeneity, and CRS models perform better when this variability is taken into account. Epistemic uncertainties inherited from the slip models also have a significant impact on the forecast, and I find that an ensemble model based on several slip distributions outperforms most individual models. I address the role of postseismic stresses due to aseismic slip on the mainshock fault (afterslip) and to the redistribution of stresses by previous aftershocks (secondary triggering). I find that modeling secondary triggering improves model performance. The effect of afterslip is less clear, and difficult to assess for near-fault aftershocks due to the large uncertainties of the afterslip models. Off-fault events, on the other hand, are less sensitive to the details of the slip distribution: I find that following the Tohoku earthquake, afterslip promotes seismicity in the Fukushima region. To evaluate the performance of the improved CRS models in a pseudo-operational context, I submitted them for independent testing to a collaborative experiment carried out by CSEP for the 2010-2012 Canterbury sequence. Preliminary results indicate that physical models generally perform well compared to statistical ones, suggesting that CRS models may have a role to play in the future of operational forecasting. To facilitate efforts in this direction, and to enable future studies of earthquake triggering by time dependent processes, I have made the code open source. In the final part of this thesis I summarize the capabilities of the program and outline technical aspects regarding performance and parallelization strategies.},
  language  = {en}
}
@phdthesis{Hildebrandt2015,
  author    = {Hildebrandt, Dominik},
  title     = {The HI Lyman-alpha opacity at redshift 2.7 < z < 3.6},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-78355},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xiv, 292},
  year      = {2015},
  abstract  = {Most of the baryonic matter in the Universe resides in a diffuse gaseous phase in-between galaxies consisting mostly of hydrogen and helium. This intergalactic medium (IGM) is distributed in large-scale filaments as part of the overall cosmic web. The luminous extragalactic objects that we can observe today, such as galaxies and quasars, are surrounded by the IGM in the most dense regions within the cosmic web. The radiation of these objects contributes to the so-called ultraviolet background (UVB) which keeps the IGM highly ionized ever since the epoch of reionization. Measuring the amount of absorption due to intergalactic neutral hydrogen (HI) against extragalactic background sources is a very useful tool to constrain the energy input of ionizing sources into the IGM. Observations suggest that the HI Lyman-alpha effective optical depth, τ_eff, decreases with decreasing redshift, which is primarily due to the expansion of the Universe. However, some studies find a smaller value of the effective optical depth than expected at the specific redshift z~3.2, possibly related to the complete reionization of helium in the IGM and a hardening of the UVB. The detection and possible cause of a decrease in τ_eff at z~3.2 is controversially debated in the literature and the observed features need further explanation. To better understand the properties of the mean absorption at high redshift and to provide an answer for whether the detection of a τ_eff feature is real we study 13 high-resolution, high signal-to-noise ratio quasar spectra observed with the Ultraviolet and Visual Echelle Spectrograph (UVES) at the Very Large Telescope (VLT). The redshift evolution of the effective optical depth, τ_eff(z), is measured in the redshift range 2.7≤z≤3.6. The influence of metal absorption features is removed by performing a comprehensive absorption-line-fitting procedure. In the first part of the thesis, a line-parameter analysis of the column density, N, and Doppler parameter, b, of ≈7500 individually fitted absorption lines is performed. The results are in good agreement with findings from previous surveys. The second (main) part of this thesis deals with the analysis of the redshift evolution of the effective optical depth. The τ_eff measurements vary around the empirical power law τ_eff(z)~(1+z)^(γ+1) with γ=2.09±0.52. The same analysis as for the observed spectra is performed on synthetic absorption spectra. From a comparison between observed and synthetic spectral data it can be inferred that the uncertainties of the τ_eff values are likely underestimated and that the scatter is probably caused by high-column-density absorbers with column densities in the range 15≤logN≤17. In the real Universe, such absorbers are rarely observed, however. Hence, the difference in τ_eff from different observational data sets and absorption studies is most likely caused by cosmic variance. If, alternatively, the disagreement between such data is a result of an too optimistic estimate of the (systematic) errors, it is also possible that all τ_eff measurements agree with a smooth evolution within the investigated redshift range. To explore in detail the different analysis techniques of previous studies an extensive literature comparison to the results of this work is presented in this thesis. Although a final explanation for the occurrence of the τ_eff deviation in different studies at z~3.2 cannot be given here, our study, which represents the most detailed line-fitting analysis of its kind performed at the investigated redshifts so far, represents another important benchmark for the characterization of the HI Ly-alpha effective optical depth at high redshift and its indicated unusual behavior at z~3.2.},
  language  = {en}
}
@phdthesis{Wettstein2015,
  author    = {Wettstein, Christoph},
  title     = {Cytochrome c-DNA and cytochrome c-enzyme interactions for the construction of analytical signal chains},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-78367},
  school      = {Universit{\"a}t Potsdam},
  pages     = {120},
  year      = {2015},
  abstract  = {Electron transfer (ET) reactions play a crucial role in the metabolic pathways of all organisms. In biotechnological approaches, the redox properties of the protein cytochrome c (cyt c), which acts as an electron shuttle in the respiratory chain, was utilized to engineer ET chains on electrode surfaces. With the help of the biopolymer DNA, the redox protein assembles into electro active multilayer (ML) systems, providing a biocompatible matrix for the entrapment of proteins. In this study the characteristics of the cyt c and DNA interaction were defined on the molecular level for the first time and the binding sites of DNA on cyt c were identified. Persistent cyt c/DNA complexes were formed in solution under the assembly conditions of ML architectures, i.e. pH 5.0 and low ionic strength. At pH 7.0, no agglomerates were formed, permitting the characterization of the NMR spectroscopy. Using transverse relaxation-optimized spectroscopy (TROSY)-heteronuclear single quantum coherence (HSQC) experiments, DNAs' binding sites on the protein were identified. In particular, negatively charged AA residues, which are known interaction sites in cyt c/protein binding were identified as the main contact points of cyt c and DNA. Moreover, the sophisticated task of arranging proteins on electrode surfaces to create functional ET chains was addressed. Therefore, two different enzyme types, the flavin dependent fructose dehydrogenase (FDH) and the pyrroloquinoline quinone dependent glucose dehydrogenase (PQQ-GDH), were tested as reaction partners of freely diffusing cyt c and cyt c immobilized on electrodes in mono- and MLs. The characterisation of the ET processes was performed by means of electrochemistry and the protein deposition was monitored by microgravimetric measurements. FDH and PQQ-GDH were found to be generally suitable for combination with the cyt c/DNA ML system, since both enzymes interact with cyt c in solution and in the immobilized state. The immobilization of FDH and cyt c was achieved with the enzyme on top of a cyt c monolayer electrode without the help of a polyelectrolyte. Combining FDH with the cyt c/DNA ML system did not succeed, yet. However, the basic conditions for this protein-protein interaction were defined. PQQ-GDH was successfully coupled with the ML system, demonstrating that that the cyt c/DNA ML system provides a suitable interface for enzymes and that the creation of signal chains, based on the idea of co-immobilized proteins is feasible. Future work may be directed to the investigation of cyt c/DNA interaction under the precise conditions of ML assembly. Therefore, solid state NMR or X-ray crystallography may be required. Based on the results of this study, the combination of FDH with the ML system should be addressed. Moreover, alternative types of enzymes may be tested as catalytic component of the ML assembly, aiming on the development of innovative biosensor applications.},
  language  = {en}
}
@phdthesis{Rajasundaram2015,
  author    = {Rajasundaram, Dhivyaa},
  title     = {Integrative analysis of heterogeneous plant cell wall related data},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-77652},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xii, 205},
  year      = {2015},
  abstract  = {Plant cell walls are complex structures that underpin plant growth and are widely exploited in diverse human activities thus placing them with a central importance in biology. Cell walls have been a prominent area of research for a long time, but the chemical complexity and diversity of cell walls not just between species, but also within plants, between cell-types, and between cell wall micro-domains pose several challenges. Progress accelerated several-fold in cell wall biology owing to advances in sequencing technology, aided soon thereafter by advances in omics and imaging technologies. This development provides additional perspectives of cell walls across a rapidly growing number of species, highlighting a myriad of architectures, compositions, and functions. Furthermore, rather than the component centric view, integrative analysis of the different cell wall components across system-levels help to gain a more in-depth understanding of the structure and biosynthesis of the cell envelope and its interactions with the environment. To this end, in this work three case studies are detailed, all pertaining to the integrative analysis of heterogeneous cell wall related data arising from different system-levels and analytical techniques. A detailed account of multiblock methods is provided and in particular canonical correlation and regression methods of data integration are discussed. In the first integrative analysis, by employing canonical correlation analysis - a multivariate statistical technique to study the association between two datasets - novel insight to the relationship between glycans and phenotypic traits is gained. In addition, sparse partial least squares regression approach that adapts Lasso penalization and allows for the selection of a subset of variables was employed. The second case study focuses on an integrative analysis of images obtained from different spectroscopic techniques. By employing yet another multiblock approach - multiple co-inertia analysis, insitu biochemical composition of cell walls from different cell-types is studied thereby highlighting the common and complementary parts of the two hyperspectral imaging techniques. Finally, the third integrative analysis facilitates gene expression analysis of the Arabidopsis root transcriptome and translatome for the identification of cell wall related genes and compare expression patterns of cell wall synthesis genes. The computational analysis considered correlation and variation of expression across cell-types at both system-levels, and also provides insight into the degree of co-regulatory relationships that are preserved between the two processes. The integrative analysis of glycan data and phenotypic traits in cotton fibers using canonical methods led to the identification of specific polysaccharides which may play a major role during fiber development for the final fiber characteristics. Furthermore, this analysis provides a base for future studies on glycan arrays in case of developing cotton fibers. The integrative analysis of images from infrared and Raman spectroscopic approaches allowed the coupling of different analytical techniques to characterize complex biological material, thereby, representing various facets of their chemical properties. Moreover, the results from the co-inertia analysis demonstrated that the study was well adapted as it is relevant for coupling data tables in a symmetric way. Several indicators are proposed to investigate how the global and block scores are related. In addition, studying the root cells of \textit{Arabidopsis thaliana} allowed positing a novel pipeline to systematically investigate and integrate the different levels of information available at the global and single-cell level. The conducted analysis also confirms that previously identified key transcriptional activators of secondary cell wall development display highly conserved patterns of transcription and translation across the investigated cell-types. Moreover, the biological processes that display conserved and divergent patterns based on the cell-type-specific expression and translation levels are identified.},
  language  = {en}
}
@phdthesis{Bittermann2015,
  author    = {Bittermann, Klaus},
  title     = {Semi-empirical sea-level modelling},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-93881},
  school      = {Universit{\"a}t Potsdam},
  pages     = {v, 88},
  year      = {2015},
  abstract  = {Semi-empirical sea-level models (SEMs) exploit physically motivated empirical relationships between global sea level and certain drivers, in the following global mean temperature. This model class evolved as a supplement to process-based models (Rahmstorf (2007)) which were unable to fully represent all relevant processes. They thus failed to capture past sea-level change (Rahmstorf et al. (2012)) and were thought likely to underestimate future sea-level rise. Semi-empirical models were found to be a fast and useful tool for exploring the uncertainties in future sea-level rise, consistently giving significantly higher projections than process-based models. In the following different aspects of semi-empirical sea-level modelling have been studied. Models were first validated using various data sets of global sea level and temperature. SEMs were then used on the glacier contribution to sea level, and to infer past global temperature from sea-level data via inverse modelling. Periods studied encompass the instrumental period, covered by tide gauges (starting 1700 CE (Common Era) in Amsterdam) and satellites (first launched in 1992 CE), the era from 1000 BCE (before CE) to present, and the full length of the Holocene (using proxy data). Accordingly different data, model formulations and implementations have been used. It could be shown in Bittermann et al. (2013) that SEMs correctly predict 20th century sea-level when calibrated with data until 1900 CE. SEMs also turned out to give better predictions than the Intergovernmental Panel on Climate Change (IPCC) 4th assessment report (AR4, IPCC (2007)) models, for the period from 1961-2003 CE. With the first multi-proxy reconstruction of global sea-level as input, estimate of the human-induced component of modern sea-level change and projections of future sea-level rise were calculated (Kopp et al. (2016)). It turned out with 90\% confidence that more than 40 \% of the observed 20th century sea-level rise is indeed anthropogenic. With the new semi-empirical and IPCC (2013) 5th assessment report (AR5) projections the gap between SEM and process-based model projections closes, giving higher credibility to both. Combining all scenarios, from strong mitigation to business as usual, a global sea-level rise of 28-131 cm relative to 2000 CE, is projected with 90\% confidence. The decision for a low carbon pathway could halve the expected global sea-level rise by 2100 CE. Present day temperature and thus sea level are driven by the globally acting greenhouse-gas forcing. Unlike that, the Milankovich forcing, acting on Holocene timescales, results mainly in a northern-hemisphere temperature change. Therefore a semi-empirical model can be driven with northernhemisphere temperatures, which makes it possible to model the main subcomponent of sea-level change over this period. It showed that an additional positive constant rate of the order of the estimated Antarctic sea-level contribution is then required to explain the sea-level evolution over the Holocene. Thus the global sea level, following the climatic optimum, can be interpreted as the sum of a temperature induced sea-level drop and a positive long-term contribution, likely an ongoing response to deglaciation coming from Antarctica.},
  language  = {en}
}
@phdthesis{Brachs2015,
  author    = {Brachs, Maria},
  title     = {Genome wide expression analysis and metabolic mechanisms predicting body weight maintenance},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-100767},
  school      = {Universit{\"a}t Potsdam},
  pages     = {106},
  year      = {2015},
  abstract  = {Obesity is a major health problem for many developing and industrial countries. Increasing rates reach almost 50 \% of the population in some countries and related metabolic diseases including cardiovascular events and T2DM are challenging the health systems. Adiposity, an increase in body fat mass, is a major hallmark of obesity. Adipose tissue is long known not only to store lipids but also to influence whole-body metabolism including food intake, energy expenditure and insulin sensitivity. Adipocytes can store lipids and thereby protect other tissue from lipotoxic damage. However, if the energy intake is higher than the energy expenditure over a sustained time period, adipose tissue will expand. This can lead to an impaired adipose tissue function resulting in higher levels of plasma lipids, which can affect other tissue like skeletal muscle, finally leading to metabolic complications. Several studies showed beneficial metabolic effects of weight reduction in obese subjects immediately after weight loss. However, weight regain is frequently observed along with potential negative effects on cardiovascular risk factors and a high intra-individual response. We performed a body weight maintenance study investigating the mechanisms of weight maintenance after intended WR. Therefore we used a low caloric diet followed by a 12-month life-style intervention. Comprehensive phenotyping including fat and muscle biopsies was conducted to investigate hormonal as well as metabolic influences on body weight regulation. In this study, we showed that weight reduction has numerous potentially beneficial effects on metabolic parameters. After 3-month WR subjects showed significant weight and fat mass reduction, lower TG levels as well as higher insulin sensitivity. Using RNA-Seq to analyse whole fat and muscle transcriptome a strong impact of weight reduction on adipose tissue gene expression was observed. Gene expression alterations over weight reduction included several cellular metabolic genes involved in lipid and glucose metabolism as well as insulin signalling and regulatory pathways. These changes were also associated with anthropometric parameters assigning body composition. Our data indicated that weight reduction leads to a decreased expression of several lipid catabolic as well as anabolic genes. Long-term body weight maintenance might be influenced by several parameters including hormones, metabolic intermediates as well as the transcriptional landscape of metabolic active tissues. Our data showed that genes involved in biosynthesis of unsaturated fatty acids might influence the BMI 18-month after a weight reduction phase. This was further supported by analysing metabolic parameters including RQ and FFA levels. We could show that subjects maintaining their lost body weight had a higher RQ and lower FFA levels, indicating increased metabolic flexibility in subjects. Using this transcriptomic approach we hypothesize that low expression levels of lipid synthetic genes in adipose tissue together with a higher mitochondrial activity in skeletal muscle tissue might be beneficial in terms of body weight maintenance.},
  language  = {en}
}
@phdthesis{Bettenbuehl2015,
  author    = {Bettenb{\"u}hl, Mario},
  title     = {Microsaccades},
  publisher = {Universit{\"a}tsverlag Potsdam},
  address   = {Potsdam},
  isbn      = {978-3-86956-122-6},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-72622},
  school      = {Universit{\"a}t Potsdam},
  pages     = {iv, 126},
  year      = {2015},
  abstract  = {The first thing we do upon waking is open our eyes. Rotating them in our eye sockets, we scan our surroundings and collect the information into a picture in our head. Eye movements can be split into saccades and fixational eye movements, which occur when we attempt to fixate our gaze. The latter consists of microsaccades, drift and tremor. Before we even lift our eye lids, eye movements - such as saccades and microsaccades that let the eyes jump from one to another position - have partially been prepared in the brain stem. Saccades and microsaccades are often assumed to be generated by the same mechanisms. But how saccades and microsaccades can be classified according to shape has not yet been reported in a statistical manner. Research has put more effort into the investigations of microsaccades' properties and generation only since the last decade. Consequently, we are only beginning to understand the dynamic processes governing microsaccadic eye movements. Within this thesis, the dynamics governing the generation of microsaccades is assessed and the development of a model for the underlying processes. Eye movement trajectories from different experiments are used, recorded with a video-based eye tracking technique, and a novel method is proposed for the scale-invariant detection of saccades (events of large amplitude) and microsaccades (events of small amplitude). Using a time-frequency approach, the method is examined with different experiments and validated against simulated data. A shape model is suggested that allows for a simple estimation of saccade- and microsaccade related properties. For sequences of microsaccades, in this thesis a time-dynamic Markov model is proposed, with a memory horizon that changes over time and which can best describe sequences of microsaccades.},
  language  = {en}
}
@phdthesis{Lamanna2015,
  author    = {Lamanna, Francesco},
  title     = {Adaptive radiation and speciation in African weakly-electric fish},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-80097},
  school      = {Universit{\"a}t Potsdam},
  pages     = {114},
  year      = {2015},
  abstract  = {The rise of evolutionary novelties is one of the major drivers of evolutionary diversification. African weakly-electric fishes (Teleostei, Mormyridae) have undergone an outstanding adaptive radiation, putatively owing to their ability to communicate through species-specific Electric Organ Discharges (EODs) produced by a novel, muscle-derived electric organ. Indeed, such EODs might have acted as effective pre-zygotic isolation mechanisms, hence favoring ecological speciation in this group of fishes. Despite the evolutionary importance of this organ, genetic investigations regarding its origin and function have remained limited. The ultimate aim of this study is to better understand the genetic basis of EOD production by exploring the transcriptomic profiles of the electric organ and of its ancestral counterpart, the skeletal muscle, in the genus Campylomormyrus. After having established a set of reference transcriptomes using "Next-Generation Sequencing" (NGS) technologies, I performed in silico analyses of differential expression, in order to identify sets of genes that might be responsible for the functional differences observed between these two kinds of tissues. The results of such analyses indicate that: i) the loss of contractile activity and the decoupling of the excitation-contraction processes are reflected by the down-regulation of the corresponding genes in the electric organ; ii) the metabolic activity of the electric organ might be specialized towards the production and turnover of membrane structures; iii) several ion channels are highly expressed in the electric organ in order to increase excitability, and iv) several myogenic factors might be down-regulated by transcription repressors in the EO. A secondary task of this study is to improve the genus level phylogeny of Campylomormyrus by applying new methods of inference based on the multispecies coalescent model, in order to reduce the conflict among gene trees and to reconstruct a phylogenetic tree as closest as possible to the actual species-tree. By using 1 mitochondrial and 4 nuclear markers, I was able to resolve the phylogenetic relationships among most of the currently described Campylomormyrus species. Additionally, I applied several coalescent-based species delimitation methods, in order to test the hypothesis that putatively cryptic species, which are distinguishable only from their EOD, belong to independently evolving lineages. The results of this analysis were additionally validated by investigating patterns of diversification at 16 microsatellite loci. The results suggest the presence of a new, yet undescribed species of Campylomormyrus.},
  language  = {en}
}
@phdthesis{Olszewska2015,
  author    = {Olszewska, Agata},
  title     = {Forming magnetic chain with the help of biological organisms},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-89767},
  school      = {Universit{\"a}t Potsdam},
  pages     = {101},
  year      = {2015},
  abstract  = {Magnetite nanoparticles and their assembly comprise a new area of development for new technologies. The magnetic particles can interact and assemble in chains or networks. Magnetotactic bacteria are one of the most interesting microorganisms, in which the assembly of nanoparticles occurs. These microorganisms are a heterogeneous group of gram negative prokaryotes, which all show the production of special magnetic organelles called magnetosomes, consisting of a magnetic nanoparticle, either magnetite (Fe3O4) or greigite (Fe3S4), embedded in a membrane. The chain is assembled along an actin-like scaffold made of MamK protein, which makes the magnetosomes to arrange in mechanically stable chains. The chains work as a compass needle in order to allow cells to orient and swim along the magnetic field of the Earth. The formation of magnetosomes is known to be controlled at the molecular level. The physico-chemical conditions of the surrounding environment also influence biomineralization. The work presented in this manuscript aims to understand how such external conditions, in particular the extracellular oxidation reduction potential (ORP) influence magnetite formation in the strain Magnetospirillum magneticum AMB-1. A controlled cultivation of the microorganism was developed in a bioreactor and the formation of magnetosomes was characterized. Different techniques have been applied in order to characterize the amount of iron taken up by the bacteria and in consequence the size of magnetosomes produced at different ORP conditions. By comparison of iron uptake, morphology of bacteria, size and amount of magnetosomes per cell at different ORP, the formation of magnetosomes was inhibited at ORP 0 mV, whereas reduced conditions, ORP - 500 mV facilitate biomineralization process. Self-assembly of magnetosomes occurring in magnetotactic bacteria became an inspiration to learn from nature and to construct nanoparticles assemblies by using the bacteriophage M13 as a template. The M13 bacteriophage is an 800 nm long filament with encapsulated single-stranded DNA that has been recently used as a scaffold for nanoparticle assembly. I constructed two types of assemblies based on bacteriophages and magnetic nanoparticles. A chain - like assembly was first formed where magnetite nanoparticles are attached along the phage filament. A sperm - like construct was also built with a magnetic head and a tail formed by phage filament. The controlled assembly of magnetite nanoparticles on the phage template was possible due to two different mechanism of nanoparticle assembly. The first one was based on the electrostatic interactions between positively charged polyethylenimine coated magnetite nanoparticles and negatively charged phages. The second phage -nanoparticle assembly was achieved by bioengineered recognition sites. A mCherry protein is displayed on the phage and is was used as a linker to a red binding nanobody (RBP) that is fused to the one of the proteins surrounding the magnetite crystal of a magnetosome. Both assemblies were actuated in water by an external magnetic field showing their swimming behavior and potentially enabling further usage of such structures for medical applications. The speed of the phage - nanoparticles assemblies are relatively slow when compared to those of microswimmers previously published. However, only the largest phage-magnetite assemblies could be imaged and it is therefore still unclear how fast these structures can be in their smaller version.},
  language  = {en}
}
@phdthesis{Ayguel2015,
  author    = {Ayg{\"u}l, Mesut},
  title     = {Pre-collisional accretion and exhumation along the southern Laurasian active margin, Central Pontides, Turkey},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-416769},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xxxiv, 206},
  year      = {2015},
  abstract  = {The Central Pontides is an accretionary-type orogenic area within the Alpine-Himalayan orogenic belt characterized by pre-collisional tectonic continental growth. The region comprises Mesozoic subduction-accretionary complexes and an accreted intra-oceanic arc that are sandwiched between the Laurasian active continental margin and Gondwana-derived the K{\i}r{\c{s}}ehir Block. The subduction-accretion complexes mainly consist of an Albian-Turonian accretionary wedge representing the Laurasian active continental margin. To the north, the wedge consists of slate/phyllite and metasandstone intercalation with recrystallized limestone, Na-amphibole-bearing metabasite (PT= 7-12 kbar and 400 ± 70 ºC) and tectonic slices of serpentinite representing accreted distal part of a large Lower Cretaceous submarine turbidite fan deposited on the Laurasian active continental margin that was subsequently accreted and metamorphosed. Raman spectra of carbonaceous material (RSCM) of the metapelitic rocks revealed that the metaflysch sequence consists of metamorphic packets with distinct peak metamorphic temperatures. The majority of the metapelites are low-temperature (ca. 330 °C) slates characterized by lack of differentiation of the graphite (G) and D2 defect bands. They possibly represent offscraped distal turbidites along the toe of the Albian accretionary wedge. The rest are phyllites that are characterized by slightly pronounced G band with D2 defect band occurring on its shoulder. Peak metamorphic temperatures of these phyllites are constrained to 370-385 °C. The phyllites are associated with a strip of incipient blueschist facies metabasites which are found as slivers within the offscraped distal turbidites. They possibly represent underplated continental metasediments together with oceanic crustal basalt along the basal d{\´e}collement. Tectonic emplacement of the underplated rocks into the offscraped distal turbidites was possibly achieved by out-of-sequence thrusting causing tectonic thickening and uplift of the wedge. 40Ar/39Ar phengite ages from the phyllites are ca. 100 Ma, indicating Albian subduction and regional HP metamorphism. The accreted continental metasediments are underlain by HP/LT metamorphic rocks of oceanic origin along an extensional shear zone. The oceanic metamorphic sequence mainly comprises tectonically thickened deep-seated eclogite to blueschist facies metabasites and micaschists. In the studied area, metabasites are epidote-blueschists locally with garnet (PT= 17 ± 1 kbar and 500 ± 40 °C). Lawsonite-blueschists are exposed as blocks along the extensional shear zone (PT= 14 ± 2 kbar and 370-440 °C). They are possibly associated with low shear stress regime of the initial stage of convergence. Close to the shear zone, the footwall micaschists consist of quartz, phengite, paragonite, chlorite, rutile with syn-kinematic albite porphyroblast formed by pervasive shearing during exhumation. These types of micaschists are tourmaline-bearing and their retrograde nature suggests high-fluid flux along shear zones. Peak metamorphic mineral assemblages are partly preserved in the chloritoid-micaschist farther away from the shear zone representing the zero strain domains during exhumation. Three peak metamorphic assemblages are identified and their PT conditions are constrained by pseudosections produced by Theriak-Domino and by Raman spectra of carbonaceous material: 1) garnet-chloritoid-glaucophane with lawsonite pseudomorphs (P= 17.5 ± 1 kbar, T: 390-450 °C) 2) chloritoid with glaucophane pseudomorphs (P= 16-18 kbar, T: 475 ± 40 °C) and 3) relatively high-Mg chloritoid (17\%) with jadeite pseudomorphs (P= 22-25 kbar; T: 440 ± 30 °C) in addition to phengite, paragonite, quartz, chlorite, rutile and apatite. The last mineral assemblage is interpreted as transformation of the chloritoid + glaucophane assemblage to chloritoid + jadeite paragenesis with increasing pressure. Absence of tourmaline suggests that the chloritoid-micaschist did not interact with B-rich fluids during zero strain exhumation. 40Ar/39Ar phengite age of a pervasively sheared footwall micaschist is constrained to 100.6 ± 1.3 Ma and that of a chloritoid-micaschist is constrained to 91.8 ± 1.8 Ma suggesting exhumation during on-going subduction with a southward younging of the basal accretion and the regional metamorphism. To the south, accretionary wedge consists of blueschist and greenschist facies metabasite, marble and volcanogenic metasediment intercalation. 40Ar/39Ar phengite dating reveals that this part of the wedge is of Middle Jurassic age partly overprinted during the Albian. Emplacement of the Middle Jurassic subduction-accretion complexes is possibly associated with obliquity of the Albian convergence. Peak metamorphic assemblages and PT estimates of the deep-seated oceanic metamorphic sequence suggest tectonic stacking within wedge with different depths of burial. Coupling and exhumation of the distinct metamorphic slices are controlled by decompression of the wedge possibly along a retreating slab. Structurally, decompression of the wedge is evident by an extensional shear zone and the footwall micaschists with syn-kinematic albite porphyroblasts. Post-kinematic garnets with increasing grossular content and pseudomorphing minerals within the chloritoid-micaschists also support decompression model without an extra heating. Thickening of subduction-accretionary complexes is attributed to i) significant amount of clastic sediment supply from the overriding continental domain and ii) deep level basal underplating by propagation of the d{\´e}collement along a retreating slab. Underplating by basal d{\´e}collement propagation and subsequent exhumation of the deep-seated subduction-accretion complexes are connected and controlled by slab rollback creating a necessary space for progressive basal accretion along the plate interface and extension of the wedge above for exhumation of the tectonically thickened metamorphic sequences. This might be the most common mechanism of the tectonic thickening and subsequent exhumation of deep-seated HP/LT subduction-accretion complexes. To the south, the Albian-Turonian accretionary wedge structurally overlies a low-grade volcanic arc sequence consisting of low-grade metavolcanic rocks and overlying metasedimentary succession is exposed north of the İzmir-Ankara-Erzincan suture (İAES), separating Laurasia from Gondwana-derived terranes. The metavolcanic rocks mainly consist of basaltic andesite/andesite and mafic cognate xenolith-bearing rhyolite with their pyroclastic equivalents, which are interbedded with recrystallized pelagic limestone and chert. The metavolcanic rocks are stratigraphically overlain by recrystallized micritic limestone with rare volcanogenic metaclastic rocks. Two groups can be identified based on trace and rare earth element characteristics. The first group consists of basaltic andesite/andesite (BA1) and rhyolite with abundant cognate gabbroic xenoliths. It is characterized by relative enrichment of LREE with respect to HREE. The rocks are enriched in fluid mobile LILE, and strongly depleted in Ti and P reflecting fractionation of Fe-Ti oxides and apatite, which are found in the mafic cognate xenoliths. Abundant cognate gabbroic xenoliths and identical trace and rare earth elements compositions suggest that rhyolites and basaltic andesites/andesites (BA1) are cogenetic and felsic rocks were derived from a common mafic parental magma by fractional crystallization and accumulation processes. The second group consists only of basaltic andesites (BA2) with flat REE pattern resembling island arc tholeiites. Although enriched in LILE, this group is not depleted in Ti or P. Geochemistry of the metavolcanic rocks indicates supra-subduction volcanism evidenced by depletion of HFSE and enrichment of LILE. The arc sequence is sandwiched between an Albian-Turonian subduction-accretionary complex representing the Laurasian active margin and an ophiolitic m{\´e}lange. Absence of continent derived detritus in the arc sequence and its tectonic setting in a wide Cretaceous accretionary complex suggest that the K{\"o}sdağ Arc was intra-oceanic. This is in accordance with basaltic andesites (BA2) with island arc tholeiite REE pattern. Zircons from two metarhyolite samples give Late Cretaceous (93.8 ± 1.9 and 94.4 ± 1.9 Ma) U/Pb ages. Low-grade regional metamorphism of the intra-oceanic arc sequence is constrained 69.9 ± 0.4 Ma by 40Ar/39Ar dating on metamorphic muscovite from a metarhyolite indicating that the arc sequence became part of a wide Tethyan Cretaceous accretionary complex by the latest Cretaceous. The youngest 40Ar/39Ar phengite age from the overlying subduction-accretion complexes is 92 Ma confirming southward younging of an accretionary-type orogenic belt. Hence, the arc sequence represents an intra-oceanic paleo-arc that formed above the sinking Tethyan slab and finally accreted to Laurasian active continental margin. Abrupt non-collisional termination of arc volcanism was possibly associated with southward migration of the arc volcanism similar to the Izu-Bonin-Mariana arc system. The intra-oceanic K{\"o}sdağ Arc is coeval with the obducted supra-subduction ophiolites in NW Turkey suggesting that it represents part of the presumed but missing incipient intra-oceanic arc associated with the generation of the regional supra-subduction ophiolites. Remnants of a Late Cretaceous intra-oceanic paleo-arc and supra-subduction ophiolites can be traced eastward within the Alp-Himalayan orogenic belt. This reveals that Late Cretaceous intra-oceanic subduction occurred as connected event above the sinking Tethyan slab. It resulted as arc accretion to Laurasian active margin and supra-subduction ophiolite obduction on Gondwana-derived terranes.},
  language  = {en}
}
@phdthesis{Priegnitz2015,
  author    = {Priegnitz, Mike},
  title     = {Development of geophysical methods to characterize methane hydrate reservoirs on a laboratory scale},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-89321},
  school      = {Universit{\"a}t Potsdam},
  pages     = {X, 99},
  year      = {2015},
  abstract  = {Gashydrate sind kristalline Feststoffe bestehend aus Wasser und Gasmolek{\"u}len. Sie sind stabil bei erh{\"o}hten Dr{\"u}cken und niedrigen Temperaturen. Nat{\"u}rliche Hydratvorkommen treten daher an Kontinentalh{\"a}ngen, in Permafrostb{\"o}den und in tiefen Seen sowie Binnenmeeren auf. Bei der Hydratbildung orientieren sich die Wassermolek{\"u}le neu und bilden sogenannte K{\"a}figstrukturen, in die Gas eingelagert werden kann. Aufgrund des hohen Drucks bei der Hydratbildung k{\"o}nnen große Mengen an Gas in die Hydratstruktur eingebaut werden. Das Volumenverh{\"a}ltnis von Wasser zu Gas kann dabei bis zu 1:172 bei 0°C und Atmosph{\"a}rendruck betragen. Nat{\"u}rliche Gashydrate enthalten haupts{\"a}chlich Methan. Da Methan sowohl ein Treibhausgas als auch ein Brenngas ist, stellen Gashydrate gleichermaßen eine potentielle Energieressource sowie eine m{\"o}gliche Quelle f{\"u}r Treibhausgase dar. Diese Arbeit untersucht die physikalischen Eigenschaften von Methanhydrat ges{\"a}ttigten Sedimentproben im Labormaßstab. Dazu wurde ein großer Reservoirsimulator (LARS) mit einer eigens entwickelten elektrischen Widerstandstomographie ausger{\"u}stet, die das erste Mal an hydratges{\"a}ttigten Sedimentproben unter kontrollierten Temperatur-, Druck-, und Hydrats{\"a}ttigungsbedingungen im Labormaßstab angewendet wurde. {\"U}blicherweise ist der Porenraum von (marinen) Sedimenten mit elektrisch gut leitendem Salzwasser gef{\"u}llt. Da Hydrate einen elektrischen Isolator darstellen, ergeben sich große Kontraste hinsichtlich der elektrischen Eigenschaften im Porenraum w{\"a}hrend der Hydratbildung und -zersetzung. Durch wiederholte Messungen w{\"a}hrend der Hydraterzeugung ist es m{\"o}glich die r{\"a}umliche Widerstandsverteilung in LARS aufzuzeichnen. Diese Daten bilden in der Folge die Grundlage f{\"u}r eine neue Auswerteroutine, welche die r{\"a}umliche Widerstandsverteilung in die r{\"a}umliche Verteilung der Hydrats{\"a}ttigung {\"u}berf{\"u}hrt. Dadurch ist es m{\"o}glich, die sich {\"a}ndernde Hydrats{\"a}ttigung sowohl r{\"a}umlich als auch zeitlich hoch aufgel{\"o}st w{\"a}hrend der gesamten Hydraterzeugungsphase zu verfolgen. Diese Arbeit zeigt, dass die entwickelte Widerstandstomographie eine gute Datenqualit{\"a}t aufwies und selbst geringe Hydrats{\"a}ttigungen innerhalb der Sedimentprobe detektiert werden konnten. Bei der Umrechnung der Widerstandsverteilung in lokale Hydrat-S{\"a}ttigungswerte wurden die besten Ergebnisse mit dem Archie-var-phi Ansatz erzielt, der die zunehmende Hydratphase dem Sedimentger{\"u}st zuschreibt, was einer Abnahme der Porosit{\"a}t gleichkommt. Die Widerstandsmessungen zeigten weiterhin, dass die schnelle Hydraterzeugung im Labor zur Ausbildung von kleinen Hydratkristallen f{\"u}hrte, die dazu neigten, zu rekristalliesieren. Es wurden weiterhin Hydrat-Abbauversuche durchgef{\"u}hrt, bei denen die Hydratphase {\"u}ber Druckerniedrigung in Anlehnung an den 2007/2008 Mallik Feldtest zersetzt wurde. Dabei konnte beobachtet werden, dass die Muster der Gas- undWasserflussraten im Labor zum Teil gut nachgebildet werden konnten, jedoch auch aufbaubedingte Abweichungen auftraten. In zwei weiteren Langzeitversuchen wurde die Realisierbarkeit und das Verhalten bei CO2-CH4-Hydrat Austauschversuchen in LARS untersucht. Das tomographische Messsystem wurde dabei genutzt um w{\"a}hrend der CH4 Hydrat Aufbauphase die Hydratverteilung innerhalb der Sedimentprobe zu {\"u}berwachen. Im Zuge der anschließenden CO2-Injektion konnte mithilfe der Widerstandstomographie die sich ausbreitende CO2-Front {\"u}berwacht und der Zeitpunkt des CO2 Durchbruchs identifiziert werden.},
  language  = {en}
}
@phdthesis{Helpa2015,
  author    = {Helpa, Vanessa},
  title     = {Interplay between mineral reaction and deformation via structural defects},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-90332},
  school      = {Universit{\"a}t Potsdam},
  pages     = {x, 104},
  year      = {2015},
  abstract  = {This thesis contains three experimental studies addressing the interplay between deformation and the mineral reaction between natural calcite and magnesite. The solid-solid mineral reaction between the two carbonates causes the formation of a magnesio-calcite precursor layer and a dolomite reaction rim in every experiment at isostatic annealing and deformation conditions. CHAPTER 1 briefly introduces general aspects concerning mineral reactions in nature and diffusion pathways for mass transport. Moreover, results of previous laboratory studies on the influence of deformation on mineral reactions are summarized. In addition, the main goals of this study are pointed out. In CHAPTER 2, the reaction between calcite and magnesite single crystals is examined at isostatic annealing conditions. Time series performed at a fixed temperature revealed a diffusion-controlled dolomite rim growth. Two microstructural domains could be identified characterized by palisade-shaped dolomite grains growing into the magnesite and granular dolomite growing towards calcite. A model was provided for the dolomite rim growth based on the counter-diffusion of CaO and MgO. All reaction products exhibited a characteristic crystallographic relationship with respect to the calcite reactant. Moreover, kinetic parameters of the mineral reaction were determined out of a temperature series at a fixed time. The main goal of the isostatic test series was to gain information about the microstructure evolution, kinetic parameters, chemical composition and texture development of the reaction products. The results were used as a reference to quantify the influence of deformation on the mineral reaction. CHAPTER 3 deals with the influence of non-isostatic deformation on dolomite and magnesio-calcite layer production between calcite and magnesite single crystals. Deformation was achieved by triaxial compression and by torsion. Triaxial compression up to 38 MPa axial stress at a fixed time showed no significant influence of stress and strain on dolomite formation. Time series conducted at a fixed stress yield no change in growth rates for dolomite and magnesio-calcite at low strains. Slightly larger magnesio-calcite growth rates were observed at strains above >0.1. High strains at similar stresses were caused by the activation of additional glide systems in the calcite single crystal and more mobile dislocations in the magnesio-calcite grains, providing fast diffusion pathways. In torsion experiments a gradual decrease in dolomite and magnesio-calcite layer thickness was observed at a critical shear strain. During deformation, crystallographic orientations of reaction products rearranged with respect to the external framework. A direct effect of the mineral reaction on deformation could not be recognized due to the relatively small reaction product widths. In CHAPTER 4, the influence of starting material microfabrics and the presence of water on the reaction kinetics was evaluated. In these experimental series polycrystalline material was in contact with single crystals or two polycrystalline materials were used as reactants. Isostatic annealing resulted in different dolomite and magnesio-calcite layer thicknesses, depending on starting material microfabrics. The reaction progress at the magnesite interface was faster with smaller magnesite grain size, because grain boundaries provided fast pathways for diffusion and multiple nucleation sites for dolomite formation. Deformation by triaxial compression and torsion yield lower dolomite rim thicknesses compared to annealed samples for the same time. This was caused by grain coarsening of polycrystalline magnesite during deformation. In contrast, magnesio-calcite layers tended to be larger during deformation, which triggered enhanced diffusion along grain boundaries. The presence of excess water had no significant influence on the reaction kinetics, at least if the reactants were single crystals. In CHAPTER 5 general conclusions about the interplay between deformation and the mineral reaction in the carbonate system are presented. Finally, CHAPTER 6 highlights possible future work in the carbonate system based on the results of this study.},
  language  = {en}
}
@phdthesis{Streich2015,
  author    = {Streich, David},
  title     = {Understanding massive disk galaxy formation through resolved stellar populations},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-81027},
  school      = {Universit{\"a}t Potsdam},
  pages     = {ix, 140},
  year      = {2015},
  abstract  = {In this thesis we utilize resolved stellar populations to improve our understanding of galaxy formation and evolution. In the first part we improve a method for metallicity determination of faint old stellar systems, in the second and third part we analyze the individual history of six nearby disk galaxies outside the Local Group. A New Calibration of the Color Metallicity Relation of Red Giants for HST data: It is well known, that the color distribution of stars on the the Red Giant Branch (RGB) can be used to determine metallicities of old stellar populations that have only shallow photometry. Based on the largest sample of globular clusters ever used for such studies, we quantify the relation between metallicity and color in the widely used HST ACS filters F606W and F814W. We use a sample of globular clusters from the ACS Globular Cluster Survey and measure their RGB color at given absolute magnitudes to derive the color-metallicity relation. We find a clear relation between metallicity and RGB color; we investigate the scatter and the uncertainties in this relation and show its limitations. A comparison with isochrones shows reasonably good agreement with BaSTI models, a small offset to Dartmouth models, and a larger offset to Padua models. Even for the best globular cluster data available, the metallicity of a simple stellar population can be determined from the RGB alone only with an accuracy of 0.3 dex for [M/H]<-1, and 0.15 dex for [M/H]>-1. For mixed populations, as they are observed in external galaxies, the uncertainties will be even larger due to uncertainties in extinction, age, etc. Therefore caution is necessary when interpreting photometric metallicities. The Structural History of Nearby Low Mass Disk Galaxies: We study the individual evolution histories of three nearby, low-mass, edge-on galaxies (IC5052, NGC4244, NGC5023). Using the color magnitude diagrams of resolved stellar populations, we construct star count density maps for populations of different ages and analyze the change of structural parameters with stellar age within each galaxy. The three galaxies show low vertical heating rates, which are much lower than the heating rate of the Milky Way. This indicates that heating agents, as giant molecular clouds and spiral structure are weak in low mass galaxies. We do not detect a separate thick disk in any of the three galaxies, even though our observations cover a larger range in equivalent surface brightness than any integrated light study. While scaleheights increase with age, each population can be well described by a single disk. Only two of the galaxies contain a very weak additional component, which we identify as the faint halo. The mass of these faint halos is less than 1\% of the mass of the disk. All populations in the three galaxies exhibit no or only little flaring. While this finding is consistent with previous integrated light studies, it poses strong constraints on galaxy formation models, because most theoretical simulations often find strong flaring due to interactions or radial migration. Furthermore, we find breaks in the radial profiles of all three galaxies. The radii of these breaks are independent of age, and the break strength is decreasing with age in two of the galaxies (NGC4244 and NGC5023). This is consistent with break formation models, that combine a star formation cutoff with radial migration. The differing behavior of IC5052 can be explained by a recent interaction or minor merger. The Structural History of Massive Disk Galaxies: We extend the structural analysis of stellar populations with distinct ages to three massive galaxies, NGC891, NGC4565 and NGC7814. While confusion effects due to the high stellar number densities in their central region, and the prominent dust lanes inhibit an detailed analysis of the radial profiles, we can study their vertical structure. These massive galaxies also have a slower heating than the Milky Way, comparable to the low mass galaxies. This can be traced back to their already thick young populations and thick layers of their interstellar medium. We do not find a clear separate thick disk in any of these three galaxies; all populations can be described by a single disk plus a S\'ersic bulge/halo component. In contrast to the low mass galaxies, we cannot rule out the presence of thick disks in the massive galaxies, because of the strong influence of the halo, that might hide the possible contribution of the thick disk to the vertical star count profiles. However, the faintness of the possible thick disks still points to problems in the earlier ubiquitous findings of thick disks in external galaxies.},
  language  = {en}
}
@phdthesis{Radenacker2015,
  author    = {Radenacker, Anke},
  title     = {Economic consequences of family dissolution},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-100217},
  school      = {Universit{\"a}t Potsdam},
  pages     = {v, 134},
  year      = {2015},
  abstract  = {Welfare states and policies have changed greatly over the past decades, mostly characterized by retrenchments in terms of government spending or in terms of restricted access to certain benefits. In the area of family policies, however, a lot of countries have simultaneously expanded provisions and transfers for families. Bringing together the macro analysis of policy variation and household income changes on the micro-level, the main research question of the dissertation is to what extent economic consequences following separation and divorce in families with children have changed between the 1980s and the 2000s in Germany and the United States. The second research question of the dissertation regards the differences in dissolution outcomes between married and cohabiting parents in Germany. The dissertation thus aims to link institutional regulations of welfare states with the actual income situation of families. To achieve this, a research design was developed that has never been used for the analysis of the economic consequences of family dissolution. For this, the two longest running panel datasets, German Socio-economic Panel (GSOEP) and the US American Panel Study of Income Dynamics (PSID), have been used. The analytic strategy applied to estimate the effects of family dissolution on household income is a difference-in-difference design combined with coarsened exact matching (CEM). To begin with, the dissertation confirmed many findings of previous research, for example regarding the gender differences in family dissolution outcomes. Mothers experience clearly higher relative income losses and consequently higher risks of poverty than fathers. This finding is universal, that is it holds for both countries, for all time periods observed, and for all measures of economic outcome that were employed. Another confirmed finding is the higher level of welfare state intervention in Germany compared to the United States. The dissertation also revealed a number of novel findings. The results show that the expansion of family policies in Germany over time has not been accompanied by substantially decreasing income losses for mothers. Though income losses have slightly decreased over time, they have become more persistent during the years following family dissolution. The impact of the German welfare state has meanwhile been quite stable. American mothers' income losses took place on a slightly lower level than those of German mothers. Only during the 1980s their relative losses were clearly lower than those of German mothers. And also American mothers did not recover as much from their income losses during the 2000s than they used to during the 1980s. For them, the 1996 welfare reform brought a considerable decrease in welfare state support. Accordingly, the results for American mothers can certainly be described as a shift from public to private provision. The general finding of previous studies that fathers do not have to suffer income losses, or if at all rather moderate ones compared to mothers, can be confirmed. Nevertheless, both German and US American fathers face a deterioration of the economic consequences of family dissolution over time. German fathers' relative income changes are still positive though they have decreased over time. One reason for this decrease is the increasing loss of partner earnings following union dissolution. Also among American fathers, income gains still prevail in the year of family dissolution. Two years later, however, they have been facing income losses already since the 1980s which have furthermore increased considerably over time. Zooming in on Germany, family dissolution outcomes by marital status show negligible differences between cohabiting and married mothers in disposable income, but considerable differences in losses of income before taxes and transfers. It is the impact of the welfare state that equalizes the differences in income losses between these two groups of mothers. For married mothers, losses are not as high in the year of event but they have difficulties to recover from these losses. Without the income buffering of the welfare state, married mothers would, three years after family dissolution, remain with relative income losses double as high as for cohabiting mothers. Compared to mothers, differences between married and cohabiting fathers are visible in changes of income before as well as after taxes and transfers. The welfare state does not alter the difference between the two groups of fathers. With regard to both income concepts, cohabiting fathers fare worse than married fathers. Cohabiting fathers suffer moderate income losses of disposable income while married fathers experience moderate income gains. Accounting for support payments is decisive for fathers' income changes. If these payments are not deducted from disposable income, both married and cohabiting fathers experience gains in disposable income following family dissolution.},
  language  = {en}
}
@phdthesis{Grygiel2015,
  author    = {Grygiel, Konrad},
  title     = {Poly(ionic liquid) stabilizers and new synthetic approaches},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-80367},
  school      = {Universit{\"a}t Potsdam},
  pages     = {vii, 126},
  year      = {2015},
  abstract  = {The main focus of the present thesis was to investigate the stabilization ability of poly(ionic liquid)s (PILs) in several examples as well as develop novel chemical structures and synthetic routes of PILs. The performed research can be specifically divided into three parts that include synthesis and application of hybrid material composed of PIL and cellulose nanofibers (CNFs), thiazolium-containing PILs, and main-chain imidazolium-type PILs. In the first chapter, a vinylimidazolium-type IL was polymerized in water in the presence of CNFs resulting in the in situ electrostatic grafting of polymeric chains onto the surface of CNFs. The synthesized hybrid material merged advantages of its two components, that is, superior mechanical strength of CNFs and anion dependent solution properties of PILs. In contrast to unmodified CNFs, the hybrid could be stabilized and processed in organic solvents enabling its application as reinforcing agent for porous polyelectrolyte membranes. In the second part, PILs and ionic polymers containing two types of thiazolium repeating units were synthesized. Such polymers displayed counterion dependent thermal stability and solubility in organic solvents of various dielectric constants. This new class of PILs was tested as stabilizers and phase transfer agents for carbon nanotubes in aqueous and organic media, and as binder materials to disperse electroactive powders and carbon additives in solid electrode in lithium-ion batteries. The incorporation of S and N atoms into the polymeric structures make such PILs also potential precursors for S, N - co-doped carbons. In the last chapter, reactants originating from biomass were successfully harnessed to synthesize main-chain imidazolium-type PILs. An imidazolium-type diester IL obtained via a modified Debus-Radziszewski reaction underwent transesterification with diol in a polycondensation reaction. This yielded a polyester-type PIL which CO2 sorption properties were investigated. In the next step, the modified Debus-Radziszewski reaction was further applied to synthesize main-chain PILs according to a convenient, one-step protocol, using water as a green solvent and simple organic molecules as reagents. Depending on the structure of the employed diamine, the synthesized PILs after anion exchange showed superior thermal stability with unusually high carbonization yields. Overall, the outcome of these studies will actively contribute to the current research on PILs by introducing novel PIL chemical structures, improved synthetic routes, and new examples of stabilized materials. The synthesis of main-chain imidazolium-type PILs by a modified Debus-Radziszewski reaction is of a special interest for the future work on porous ionic liquid networks as well as colloidal PIL nanoparticles.},
  language  = {en}
}
@phdthesis{Obu2015,
  author    = {Obu, Jaroslav},
  title     = {Effect of mass wasting on soil organic carbon storage and coastal erosion in permafrost environments},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-90599},
  school      = {Universit{\"a}t Potsdam},
  pages     = {iii, 93},
  year      = {2015},
  abstract  = {Accelerated permafrost thaw under the warming Arctic climate can have a significant impact on Arctic landscapes. Areas underlain by permafrost store high amounts of soil organic carbon (SOC). Permafrost disturbances may contribute to increased release of carbon dioxide and methane to the atmosphere. Coastal erosion, amplified through a decrease in Arctic sea-ice extent, may also mobilise SOC from permafrost. Large expanses of permafrost affected land are characterised by intense mass-wasting processes such as solifluction, active-layer detachments and retrogressive thaw slumping. Our aim is to assess the influence of mass wasting on SOC storage and coastal erosion. We studied SOC storage on Herschel Island by analysing active-layer and permafrost samples, and compared non-disturbed sites to those characterised by mass wasting. Mass-wasting sites showed decreased SOC storage and material compaction, whereas sites characterised by material accumulation showed increased storage. The SOC storage on Herschel Island is also significantly correlated to catenary position and other slope characteristics. We estimated SOC storage on Herschel Island to be 34.8 kg C m-2. This is comparable to similar environments in northwest Canada and Alaska. Coastal erosion was analysed using high resolution digital elevation models (DEMs). Two LIDAR scanning of the Yukon Coast were done in 2012 and 2013. Two DEMs with 1 m horizontal resolution were generated and used to analyse elevation changes along the coast. The results indicate considerable spatial variability in short-term coastline erosion and progradation. The high variability was related to the presence of mass-wasting processes. Erosion and deposition extremes were recorded where the retrogressive thaw slump (RTS) activity was most pronounced. Released sediment can be transported by longshore drift and affects not only the coastal processes in situ but also along adjacent coasts. We also calculated volumetric coastal erosion for Herschel Island by comparing a stereo-photogrammetrically derived DEM from 2004 with LIDAR DEMs. We compared this volumetric erosion to planimetric erosion, which was based on coastlines digitised from satellite imagery. We found a complex relationship between planimetric and volumetric coastal erosion, which we attribute to frequent occurrence of mass-wasting processes along the coasts. Our results suggest that volumetric erosion corresponds better with environmental forcing and is more suitable for the estimation of organic carbon fluxes than planimetric erosion. Mass wasting can decrease SOC storage by several mechanisms. Increased aeration following disturbance may increase microbial activity, which accelerates organic matter decomposition. New hydrological conditions that follow the mass wasting event can cause leaching of freshly exposed material. Organic rich material can also be directly removed into the sea or into a lake. On the other hand the accumulation of mobilised material can result in increased SOC storage. Mass-wasting related accumulations of mobilised material can significantly impact coastal erosion in situ or along the adjacent coast by longshore drift. Therefore, the coastline movement observations cannot completely resolve the actual sediment loss due to these temporary accumulations. The predicted increase of mass-wasting activity in the course of Arctic warming may increase SOC mobilisation and coastal erosion induced carbon fluxes.},
  language  = {en}
}
@phdthesis{Lischke2015,
  author    = {Lischke, Betty},
  title     = {Food web regulation under different forcing regimes in shallow lakes},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-89149},
  school      = {Universit{\"a}t Potsdam},
  pages     = {131},
  year      = {2015},
  abstract  = {The standing stock and production of organismal biomass depends strongly on the organisms' biotic environment, which arises from trophic and non-trophic interactions among them. The trophic interactions between the different groups of organisms form the food web of an ecosystem, with the autotrophic and bacterial production at the basis and potentially several levels of consumers on top of the producers. Feeding interactions can regulate communities either by severe grazing pressure or by shortage of resources or prey production, termed top-down and bottom-up control, respectively. The limitations of all communities conglomerate in the food web regulation, which is subject to abiotic and biotic forcing regimes arising from external and internal constraints. This dissertation presents the effects of alterations in two abiotic, external forcing regimes, terrestrial matter input and long-lasting low temperatures in winter. Diverse methodological approaches, a complex ecosystem model study and the analysis of two whole-lake measurements, were performed to investigate effects for the food web regulation and the resulting consequences at the species, community and ecosystem scale. Thus, all types of organisms, autotrophs and heterotrophs, at all trophic levels were investigated to gain a comprehensive overview of the effects of the two mentioned altered forcing regimes. In addition, an extensive evaluation of the trophic interactions and resulting carbon fluxes along the pelagic and benthic food web was performed to display the efficiencies of the trophic energy transfer within the food webs. All studies were conducted in shallow lakes, which is worldwide the most abundant type of lakes. The specific morphology of shallow lakes allows that the benthic production contributes substantially to the whole-lake production. Further, as shallow lakes are often small they are especially sensitive to both, changes in the input of terrestrial organic matter and the atmospheric temperature. Another characteristic of shallow lakes is their appearance in alternative stable states. They are either in a clear-water or turbid state, where macrophytes and phytoplankton dominate, respectively. Both states can stabilize themselves through various mechanisms. These two alternative states and stabilizing mechanisms are integrated in the complex ecosystem model PCLake, which was used to investigate the effects of the enhanced terrestrial particulate organic matter (t-POM) input to lakes. The food web regulation was altered by three distinct pathways: (1) Zoobenthos received more food, increased in biomass which favored benthivorous fish and those reduced the available light due to bioturbation. (2) Zooplankton substituted autochthonous organic matter in their diet by suspended t-POM, thus the autochthonous organic matter remaining in the water reduced its transparency. (3) T-POM suspended into the water and reduced directly the available light. As macrophytes are more light-sensitive than phytoplankton they suffered the most from the lower transparency. Consequently, the resilience of the clear-water state was reduced by enhanced t-POM inputs, which makes the turbid state more likely at a given nutrient concentration. In two subsequent winters long-lasting low temperatures and a concurrent long duration of ice coverage was observed which resulted in low overall adult fish biomasses in the two study lakes - Schulzensee and Gollinsee, characterized by having and not having submerged macrophytes, respectively. Before the partial winterkill of fish Schulzensee allowed for a higher proportion of piscivorous fish than Gollinsee. However, the partial winterkill of fish aligned both communities as piscivorous fish are more sensitive to low oxygen concentrations. Young of the year fish benefitted extremely from the absence of adult fish due to lower predation pressure. Therefore, they could exert a strong top-down control on crustaceans, which restructured the entire zooplankton community leading to low crustacean biomasses and a community composition characterized by copepodites and nauplii. As a result, ciliates were released from top-down control, increased to high biomasses compared to lakes of various trophic states and depths and dominated the zooplankton community. While being very abundant in the study lakes and having the highest weight specific grazing rates among the zooplankton, ciliates exerted potentially a strong top-down control on small phytoplankton and particle-attached bacteria. This resulted in a higher proportion of large phytoplankton compared to other lakes. Additionally, the phytoplankton community was evenly distributed presumably due to the numerous fast growing and highly specific ciliate grazers. Although, the pelagic food web was completely restructured after the subsequent partial winterkills of fish, both lakes were resistant to effects of this forcing regime at the ecosystem scale. The consistently high predation pressure on phytoplankton prevented that Schulzensee switched from the clear-water to the turbid state. Further mechanisms, which potentially stabilized the clear-water state, were allelopathic effects by macrophytes and nutrient limitation in summer. The pelagic autotrophic and bacterial production was an order of magnitude more efficient transferred to animal consumers than the respective benthic production, despite the alterations of the food web structure after the partial winterkill of fish. Thus, the compiled mass-balanced whole-lake food webs suggested that the benthic bacterial and autotrophic production, which exceeded those of the pelagic habitat, was not used by animal consumers. This holds even true if the food quality, additional consumers such as ciliates, benthic protozoa and meiobenthos, the pelagic-benthic link and the potential oxygen limitation of macrobenthos were considered. Therefore, low benthic efficiencies suggest that lakes are primarily pelagic systems at least at the animal consumer level. Overall, this dissertation gives insights into the regulation of organism groups in the pelagic and benthic habitat at each trophic level under two different forcing regimes and displays the efficiency of the carbon transfer in both habitats. The results underline that the alterations of external forcing regimes affect all hierarchical level including the ecosystem.},
  language  = {en}
}