@phdthesis{Adelt2024, author = {Adelt, Anne}, title = {The Relativized Minimality approach to comprehension of German relative clauses in aphasia}, doi = {10.25932/publishup-62331}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-623312}, school = {Universit{\"a}t Potsdam}, pages = {xiii, 166}, year = {2024}, abstract = {It is a well-attested finding in head-initial languages that individuals with aphasia (IWA) have greater difficulties in comprehending object-extracted relative clauses (ORCs) as compared to subject-extracted relative clauses (SRCs). Adopting the linguistically based approach of Relativized Minimality (RM; Rizzi, 1990, 2004), the subject-object asymmetry is attributed to the occurrence of a Minimality effect in ORCs due to reduced processing capacities in IWA (Garraffa \& Grillo, 2008; Grillo, 2008, 2009). For ORCs, it is claimed that the embedded subject intervenes in the syntactic dependency between the moved object and its trace, resulting in greater processing demands. In contrast, no such intervener is present in SRCs. Based on the theoretical framework of RM and findings from language acquisition (Belletti et al., 2012; Friedmann et al., 2009), it is assumed that Minimality effects are alleviated when the moved object and the intervening subject differ in terms of relevant syntactic features. For German, the language under investigation, the RM approach predicts that number (i.e., singular vs. plural) and the lexical restriction [+NP] feature (i.e., lexically restricted determiner phrases vs. lexically unrestricted pronouns) are considered relevant in the computation of Minimality. Greater degrees of featural distinctiveness are predicted to result in more facilitated processing of ORCs, because IWA can more easily distinguish between the moved object and the intervener. This cumulative dissertation aims to provide empirical evidence on the validity of the RM approach in accounting for comprehension patterns during relative clause (RC) processing in German-speaking IWA. For that purpose, I conducted two studies including visual-world eye-tracking experiments embedded within an auditory referent-identification task to study the offline and online processing of German RCs. More specifically, target sentences were created to evaluate (a) whether IWA demonstrate a subject-object asymmetry, (b) whether dissimilarity in the number and/or the [+NP] features facilitates ORC processing, and (c) whether sentence processing in IWA benefits from greater degrees of featural distinctiveness. Furthermore, by comparing RCs disambiguated through case marking (at the relative pronoun or the following noun phrase) and number marking (inflection of the sentence-final verb), it was possible to consider the role of the relative position of the disambiguation point. The RM approach predicts that dissimilarity in case should not affect the occurrence of Minimality effects. However, the case cue to sentence interpretation appears earlier within RCs than the number cue, which may result in lower processing costs in case-disambiguated RCs compared to number-disambiguated RCs. In study I, target sentences varied with respect to word order (SRC vs. ORC) and dissimilarity in the [+NP] feature (lexically restricted determiner phrase vs. pronouns as embedded element). Moreover, by comparing the impact of these manipulations in case- and number-disambiguated RCs, the effect of dissimilarity in the number feature was explored. IWA demonstrated a subject-object asymmetry, indicating the occurrence of a Minimality effect in ORCs. However, dissimilarity neither in the number feature nor in the [+NP] feature alone facilitated ORC processing. Instead, only ORCs involving distinct specifications of both the number and the [+NP] features were well comprehended by IWA. In study II, only temporarily ambiguous ORCs disambiguated through case or number marking were investigated, while controlling for varying points of disambiguation. There was a slight processing advantage of case marking as cue to sentence interpretation as compared to number marking. Taken together, these findings suggest that the RM approach can only partially capture empirical data from German IWA. In processing complex syntactic structures, IWA are susceptible to the occurrence of the intervening subject in ORCs. The new findings reported in the thesis show that structural dissimilarity can modulate sentence comprehension in aphasia. Interestingly, IWA can override Minimality effects in ORCs and derive correct sentence meaning if the featural specifications of the constituents are maximally different, because they can more easily distinguish the moved object and the intervening subject given their reduced processing capacities. This dissertation presents new scientific knowledge that highlights how the syntactic theory of RM helps to uncover selective effects of morpho-syntactic features on sentence comprehension in aphasia, emphasizing the close link between assumptions from theoretical syntax and empirical research.}, language = {en} } @phdthesis{Alawashra2024, author = {Alawashra, Mahmoud}, title = {Plasma instabilities of TeV pair beams induced by blazars}, doi = {10.25932/publishup-63013}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-630131}, school = {Universit{\"a}t Potsdam}, pages = {xxi, 130}, year = {2024}, abstract = {Relativistic pair beams produced in the cosmic voids by TeV gamma rays from blazars are expected to produce a detectable GeV-scale cascade emission missing in the observations. The suppression of this secondary cascade implies either the deflection of the pair beam by intergalactic magnetic fields (IGMFs) or an energy loss of the beam due to the electrostatic beam-plasma instability. IGMF of femto-Gauss strength is sufficient to significantly deflect the pair beams reducing the flux of secondary cascade below the observational limits. A similar flux reduction may result in the absence of the IGMF from the beam energy loss by the instability before the inverse Compton cooling. This dissertation consists of two studies about the instability role in the evolution of blazar-induced beams. Firstly, we investigated the effect of sub-fG level IGMF on the beam energy loss by the instability. Considering IGMF with correlation lengths smaller than a few kpc, we found that such fields increase the transverse momentum of the pair beam particles, dramatically reducing the linear growth rate of the electrostatic instability and hence the energy-loss rate of the pair beam. Our results show that the IGMF eliminates beam plasma instability as an effective energy-loss agent at a field strength three orders of magnitude below that needed to suppress the secondary cascade emission by magnetic deflection. For intermediate-strength IGMF, we do not know a viable process to explain the observed absence of GeV-scale cascade emission and hence can be excluded. Secondly, we probed how the beam-plasma instability feeds back on the beam, using a realistic two-dimensional beam distribution. We found that the instability broadens the beam opening angles significantly without any significant energy loss, thus confirming a recent feedback study on a simplified one-dimensional beam distribution. However, narrowing diffusion feedback of the beam particles with Lorentz factors less than 1e6 might become relevant even though initially it is negligible. Finally, when considering the continuous creation of TeV pairs, we found that the beam distribution and the wave spectrum reach a new quasi-steady state, in which the scattering of beam particles persists and the beam opening angle may increase by a factor of hundreds. This new intrinsic scattering of the cascade can result in time delays of around ten years, thus potentially mimicking the IGMF deflection. Understanding the implications on the GeV cascade emission requires accounting for inverse Compton cooling and simulating the beam-plasma system at different points in the IGM.}, language = {en} } @phdthesis{AlhosseiniAlmodarresiYasin2024, author = {Alhosseini Almodarresi Yasin, Seyed Ali}, title = {Classification, prediction and evaluation of graph neural networks on online social media platforms}, doi = {10.25932/publishup-62642}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-626421}, school = {Universit{\"a}t Potsdam}, pages = {xviii, 78}, year = {2024}, abstract = {The vast amount of data generated on social media platforms have made them a valuable source of information for businesses, governments and researchers. Social media data can provide insights into user behavior, preferences, and opinions. In this work, we address two important challenges in social media analytics. Predicting user engagement with online content has become a critical task for content creators to increase user engagement and reach larger audiences. Traditional user engagement prediction approaches rely solely on features derived from the user and content. However, a new class of deep learning methods based on graphs captures not only the content features but also the graph structure of social media networks. This thesis proposes a novel Graph Neural Network (GNN) approach to predict user interaction with tweets. The proposed approach combines the features of users, tweets and their engagement graphs. The tweet text features are extracted using pre-trained embeddings from language models, and a GNN layer is used to embed the user in a vector space. The GNN model then combines the features and graph structure to predict user engagement. The proposed approach achieves an accuracy value of 94.22\% in classifying user interactions, including likes, retweets, replies, and quotes. Another major challenge in social media analysis is detecting and classifying social bot accounts. Social bots are automated accounts used to manipulate public opinion by spreading misinformation or generating fake interactions. Detecting social bots is critical to prevent their negative impact on public opinion and trust in social media. In this thesis, we classify social bots on Twitter by applying Graph Neural Networks. The proposed approach uses a combination of both the features of a node and an aggregation of the features of a node's neighborhood to classify social bot accounts. Our final results indicate a 6\% improvement in the area under the curve score in the final predictions through the utilization of GNN. Overall, our work highlights the importance of social media data and the potential of new methods such as GNNs to predict user engagement and detect social bots. These methods have important implications for improving the quality and reliability of information on social media platforms and mitigating the negative impact of social bots on public opinion and discourse.}, language = {en} } @phdthesis{Antonoglou2024, author = {Antonoglou, Nikolaos}, title = {GNSS-based remote sensing: Innovative observation of key hydrological parameters in the Central Andes}, doi = {10.25932/publishup-62825}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-628256}, school = {Universit{\"a}t Potsdam}, pages = {xxii, 116}, year = {2024}, abstract = {The Central Andean region is characterized by diverse climate zones with sharp transitions between them. In this work, the area of interest is the South-Central Andes in northwestern Argentina that borders with Bolivia and Chile. The focus is the observation of soil moisture and water vapour with Global Navigation Satellite System (GNSS) remote-sensing methodologies. Because of the rapid temporal and spatial variations of water vapour and moisture circulations, monitoring this part of the hydrological cycle is crucial for understanding the mechanisms that control the local climate. Moreover, GNSS-based techniques have previously shown high potential and are appropriate for further investigation. This study includes both logistic-organization effort and data analysis. As for the prior, three GNSS ground stations were installed in remote locations in northwestern Argentina to acquire observations, where there was no availability of third-party data. The methodological development for the observation of the climate variables of soil moisture and water vapour is independent and relies on different approaches. The soil-moisture estimation with GNSS reflectometry is an approximation that has demonstrated promising results, but it has yet to be operationally employed. Thus, a more advanced algorithm that exploits more observations from multiple satellite constellations was developed using data from two pilot stations in Germany. Additionally, this algorithm was slightly modified and used in a sea-level measurement campaign. Although the objective of this application is not related to monitoring hydrological parameters, its methodology is based on the same principles and helps to evaluate the core algorithm. On the other hand, water-vapour monitoring with GNSS observations is a well-established technique that is utilized operationally. Hence, the scope of this study is conducting a meteorological analysis by examining the along-the-zenith air-moisture levels and introducing indices related to the azimuthal gradient. The results of the experiments indicate higher-quality soil moisture observations with the new algorithm. Furthermore, the analysis using the stations in northwestern Argentina illustrates the limits of this technology because of varying soil conditions and shows future research directions. The water-vapour analysis points out the strong influence of the topography on atmospheric moisture circulation and rainfall generation. Moreover, the GNSS time series allows for the identification of seasonal signatures, and the azimuthal-gradient indices permit the detection of main circulation pathways.}, language = {en} } @phdthesis{Apodiakou2024, author = {Apodiakou, Anastasia}, title = {Analysis of the regulation of SDI genes, unravelling the role of the SLIM1 transcription factor, and the SNRK3.15 kinase in Arabidopsis under sulfur deprivation}, school = {Universit{\"a}t Potsdam}, pages = {141}, year = {2024}, language = {en} } @phdthesis{Aral2024, author = {Aral, Tuğ{\c{c}}e}, title = {Socialization and development of racial knowledge among youth in inequitable societies}, doi = {10.25932/publishup-64855}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-648559}, school = {Universit{\"a}t Potsdam}, pages = {175}, year = {2024}, abstract = {Background: Societies worldwide have become more diverse yet continue to be inequitable. Understanding how youth growing up in these societies are socialized and consequently develop racial knowledge has important implications not only for their well-being but also for building more just societies. Importantly, there is a lack of research on these topics in Germany and Europe in general. Aim and Method: The overarching aim of the dissertation is to investigate 1) where and how ethnic-racial socialization (ERS) happens in inequitable societies and 2) how it relates to youth's development of racial knowledge, which comprises racial beliefs (e.g., prejudice, attitudes), behaviors (e.g., actions preserving or disrupting inequities), and identities (e.g., inclusive, cultural). Guided by developmental, cultural, and ecological theories of socialization and development, I first explored how family, as a crucial socialization context, contributes to the preservation or disruption of racism and xenophobia in inequitable societies through its influence on children's racial beliefs and behaviors. I conducted a literature review and developed a conceptual model bridging research on ethnic-racial socialization and intergroup relations (Study 1). After documenting the lack of research on socialization and development of racial knowledge within and beyond family contexts outside of the U.S., I conducted a qualitative study to explore ERS in Germany through the lens of racially marginalized youth (Study 2). Then, I conducted two quantitative studies to explore the separate and interacting relations of multiple (i.e., family, school) socialization contexts for the development of racial beliefs and behaviors (Study 3), and identities (Studies 3, 4) in Germany. Participants of Study 2 were 26 young adults (aged between 19 and 32) of Turkish, Kurdish, East, and Southeast Asian heritage living across different cities in Germany. Study 3 was conducted with 503 eighth graders of immigrant and non-immigrant descent (Mage = 13.67) in Berlin, Study 4 included 311 early to mid-adolescents of immigrant descent (Mage= 13.85) in North Rhine-Westphalia with diverse cultural backgrounds. Results and Conclusion: The findings revealed that privileged or marginalized positions of families in relation to their ethnic-racial and religious background in society entail differential experiences and thus are an important determining factor for the content/process of socialization and development of youth's racial knowledge. Until recently, ERS research mostly focused on investigating how racially marginalized families have been the sources of support for their children in resisting racism and how racially privileged families contribute to transmission of information upholding racism (Study 1). ERS for racially marginalized youth in Germany centered heritage culture, discrimination, and resistance strategies to racism, yet resistance strategies transmitted to youth mostly help to survive racism (e.g., working hard) by upholding it instead of liberating themselves from racism by disrupting it (e.g., self-advocacy, Study 2). Furthermore, when families and schools foster heritage and intercultural learning, both contexts may separately promote stronger identification with heritage culture and German identities, and more prosocial intentions towards disadvantaged groups (i.e., refugees) among youth (Studies 3, 4). However, equal treatment in the school context led to mixed results: equal treatment was either unrelated to inclusive identity, or positively related to German and negatively related to heritage culture identities (Studies 3, 4). Additionally, youth receiving messages highlighting strained and preferential intergroup relations at home while attending schools promoting assimilation may develop a stronger heritage culture identity (Study 4). In conclusion, ERS happened across various social contexts (i.e., family, community centers, school, neighborhood, peer). ERS promoting heritage and intercultural learning, at least in one social context (family or school), might foster youth's racial knowledge manifesting in stronger belonging to multiple cultures and in prosocial intentions toward disadvantaged groups. However, there is a need for ERS targeting increasing awareness of discrimination across social contexts of youth and teaching youth resistance strategies for liberation from racism.}, language = {en} } @phdthesis{Arend2024, author = {Arend, Marius}, title = {Comparing genome-scale models of protein-constrained metabolism in heterotrophic and photosynthetic microorganisms}, doi = {10.25932/publishup-65147}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-651470}, school = {Universit{\"a}t Potsdam}, pages = {150}, year = {2024}, abstract = {Genome-scale metabolic models are mathematical representations of all known reactions occurring in a cell. Combined with constraints based on physiological measurements, these models have been used to accurately predict metabolic fluxes and effects of perturbations (e.g. knock-outs) and to inform metabolic engineering strategies. Recently, protein-constrained models have been shown to increase predictive potential (especially in overflow metabolism), while alleviating the need for measurement of nutrient uptake rates. The resulting modelling frameworks quantify the upkeep cost of a certain metabolic flux as the minimum amount of enzyme required for catalysis. These improvements are based on the use of in vitro turnover numbers or in vivo apparent catalytic rates of enzymes for model parameterization. In this thesis several tools for the estimation and refinement of these parameters based on in vivo proteomics data of Escherichia coli, Saccharomyces cerevisiae, and Chlamydomonas reinhardtii have been developed and applied. The difference between in vitro and in vivo catalytic rate measures for the three microorganisms was systematically analyzed. The results for the facultatively heterotrophic microalga C. reinhardtii considerably expanded the apparent catalytic rate estimates for photosynthetic organisms. Our general finding pointed at a global reduction of enzyme efficiency in heterotrophy compared to other growth scenarios. Independent of the modelled organism, in vivo estimates were shown to improve accuracy of predictions of protein abundances compared to in vitro values for turnover numbers. To further improve the protein abundance predictions, machine learning models were trained that integrate features derived from protein-constrained modelling and codon usage. Combining the two types of features outperformed single feature models and yielded good prediction results without relying on experimental transcriptomic data. The presented work reports valuable advances in the prediction of enzyme allocation in unseen scenarios using protein constrained metabolic models. It marks the first successful application of this modelling framework in the biotechnological important taxon of green microalgae, substantially increasing our knowledge of the enzyme catalytic landscape of phototrophic microorganisms.}, language = {en} } @phdthesis{Aue2024, author = {Aue, Lars}, title = {Cyclone impacts on sea ice in the Atlantic Arctic Ocean}, doi = {10.25932/publishup-63445}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-634458}, school = {Universit{\"a}t Potsdam}, pages = {VIII, 131}, year = {2024}, abstract = {The Arctic is the hot spot of the ongoing, global climate change. Over the last decades, near-surface temperatures in the Arctic have been rising almost four times faster than on global average. This amplified warming of the Arctic and the associated rapid changes of its environment are largely influenced by interactions between individual components of the Arctic climate system. On daily to weekly time scales, storms can have major impacts on the Arctic sea-ice cover and are thus an important part of these interactions within the Arctic climate. The sea-ice impacts of storms are related to high wind speeds, which enhance the drift and deformation of sea ice, as well as to changes in the surface energy budget in association with air mass advection, which impact the seasonal sea-ice growth and melt. The occurrence of storms in the Arctic is typically associated with the passage of transient cyclones. Even though the above described mechanisms how storms/cyclones impact the Arctic sea ice are in principal known, there is a lack of statistical quantification of these effects. In accordance with that, the overarching objective of this thesis is to statistically quantify cyclone impacts on sea-ice concentration (SIC) in the Atlantic Arctic Ocean over the last four decades. In order to further advance the understanding of the related mechanisms, an additional objective is to separate dynamic and thermodynamic cyclone impacts on sea ice and assess their relative importance. Finally, this thesis aims to quantify recent changes in cyclone impacts on SIC. These research objectives are tackled utilizing various data sets, including atmospheric and oceanic reanalysis data as well as a coupled model simulation and a cyclone tracking algorithm. Results from this thesis demonstrate that cyclones are significantly impacting SIC in the Atlantic Arctic Ocean from autumn to spring, while there are mostly no significant impacts in summer. The strength and the sign (SIC decreasing or SIC increasing) of the cyclone impacts strongly depends on the considered daily time scale and the region of the Atlantic Arctic Ocean. Specifically, an initial decrease in SIC (day -3 to day 0 relative to the cyclone) is found in the Greenland, Barents and Kara Seas, while SIC increases following cyclones (day 0 to day 5 relative to the cyclone) are mostly limited to the Barents and Kara Seas. For the cold season, this results in a pronounced regional difference between overall (day -3 to day 5 relative to the cyclone) SIC-decreasing cyclone impacts in the Greenland Sea and overall SIC-increasing cyclone impacts in the Barents and Kara Seas. A cyclone case study based on a coupled model simulation indicates that both dynamic and thermodynamic mechanisms contribute to cyclone impacts on sea ice in winter. A typical pattern consisting of an initial dominance of dynamic sea-ice changes followed by enhanced thermodynamic ice growth after the cyclone passage was found. This enhanced ice growth after the cyclone passage most likely also explains the (statistical) overall SIC-increasing effects of cyclones in the Barents and Kara Seas in the cold season. Significant changes in cyclone impacts on SIC over the last four decades have emerged throughout the year. These recent changes are strongly varying from region to region and month to month. The strongest trends in cyclone impacts on SIC are found in autumn in the Barents and Kara Seas. Here, the magnitude of destructive cyclone impacts on SIC has approximately doubled over the last four decades. The SIC-increasing effects following the cyclone passage have particularly weakened in the Barents Sea in autumn. As a consequence, previously existing overall SIC-increasing cyclone impacts in this region in autumn have recently disappeared. Generally, results from this thesis show that changes in the state of the sea-ice cover (decrease in mean sea-ice concentration and thickness) and near-surface air temperature are most important for changed cyclone impacts on SIC, while changes in cyclone properties (i.e. intensity) do not play a significant role.}, language = {en} } @phdthesis{Benson2024, author = {Benson, Lawrence}, title = {Efficient state management with persistent memory}, doi = {10.25932/publishup-62563}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-625637}, school = {Universit{\"a}t Potsdam}, pages = {xiii, 124}, year = {2024}, abstract = {Efficiently managing large state is a key challenge for data management systems. Traditionally, state is split into fast but volatile state in memory for processing and persistent but slow state on secondary storage for durability. Persistent memory (PMem), as a new technology in the storage hierarchy, blurs the lines between these states by offering both byte-addressability and low latency like DRAM as well persistence like secondary storage. These characteristics have the potential to cause a major performance shift in database systems. Driven by the potential impact that PMem has on data management systems, in this thesis we explore their use of PMem. We first evaluate the performance of real PMem hardware in the form of Intel Optane in a wide range of setups. To this end, we propose PerMA-Bench, a configurable benchmark framework that allows users to evaluate the performance of customizable database-related PMem access. Based on experimental results obtained with PerMA-Bench, we discuss findings and identify general and implementation-specific aspects that influence PMem performance and should be considered in future work to improve PMem-aware designs. We then propose Viper, a hybrid PMem-DRAM key-value store. Based on PMem-aware access patterns, we show how to leverage PMem and DRAM efficiently to design a key database component. Our evaluation shows that Viper outperforms existing key-value stores by 4-18x for inserts while offering full data persistence and achieving similar or better lookup performance. Next, we show which changes must be made to integrate PMem components into larger systems. By the example of stream processing engines, we highlight limitations of current designs and propose a prototype engine that overcomes these limitations. This allows our prototype to fully leverage PMem's performance for its internal state management. Finally, in light of Optane's discontinuation, we discuss how insights from PMem research can be transferred to future multi-tier memory setups by the example of Compute Express Link (CXL). Overall, we show that PMem offers high performance for state management, bridging the gap between fast but volatile DRAM and persistent but slow secondary storage. Although Optane was discontinued, new memory technologies are continuously emerging in various forms and we outline how novel designs for them can build on insights from existing PMem research.}, language = {en} } @phdthesis{Benz2024, author = {Benz, Eleanor}, title = {The advisory function of the Inter-American Court of Human Rights}, series = {Beitr{\"a}ge zum ausl{\"a}ndischen {\"o}ffentlichen Recht und V{\"o}lkerrecht}, volume = {329}, journal = {Beitr{\"a}ge zum ausl{\"a}ndischen {\"o}ffentlichen Recht und V{\"o}lkerrecht}, publisher = {Nomos}, address = {Baden-Baden}, issn = {978-3-7489-1980-3}, doi = {10.5771/9783748919803}, school = {Universit{\"a}t Potsdam}, pages = {478}, year = {2024}, abstract = {How do the rights of same-sex couples have to be ensured by states, and which kind of environmental obligations are induced by the right to life and to personal integrity? Questions as diverse and far-reaching as these are regularly dealt with by the Inter-American Court of Human Rights in its advisory function. This book is the first comprehensive, non-Spanish-written treatise on the advisory function of this Court. It analyzes the scope of the Court's advisory jurisdiction and its procedural practice in comparison with that of other international courts. Moreover, the legal effects of the Court's advisory opinions and the question when the Court should better reject a request for an advisory opinion are examined.}, language = {en} } @phdthesis{Blanz2024, author = {Blanz, Alkis}, title = {Essays on the macroeconomics of climate change and policy}, pages = {166}, year = {2024}, language = {en} } @phdthesis{Blaser2024, author = {Blaser, Berenike Lisa}, title = {Premenstrual symptoms as a function of altered central autonomous nervous activity}, doi = {10.25932/publishup-64597}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-645970}, school = {Universit{\"a}t Potsdam}, pages = {XII, 265}, year = {2024}, abstract = {The experience of premenstrual syndrome (PMS) affects up to 90\% of individuals with an active menstrual cycle and involves a spectrum of aversive physiological and psychological symptoms in the days leading up to menstruation (Tschudin et al., 2010). Despite its high prevalence, the precise origins of PMS remain elusive, with influences ranging from hormonal fluctuations to cognitive, social, and cultural factors (Hunter, 2007; Matsumoto et al., 2013). Biologically, hormonal fluctuations, particularly in gonadal steroids, are commonly believed to be implicated in PMS, with the central factor being varying susceptibilities to the fluctuations between individuals and cycles (Rapkin \& Akopians, 2012). Allopregnanolone (ALLO), a neuroactive steroid and progesterone metabolite, has emerged as a potential link to PMS symptoms (Hantsoo \& Epperson, 2020). ALLO is a positive allosteric modulator of the GABAA receptor, influencing inhibitory communication (Rupprecht, 2003; Andr{\´e}en et al., 2006). Different susceptibility to ALLO fluctuations throughout the cycle may lead to reduced GABAergic signal transmission during the luteal phase of the menstrual cycle. The GABAergic system's broad influence leads to a number of affected physiological systems, including a consistent reduction in vagally mediated heart rate variability (vmHRV) during the luteal phase (Schmalenberger et al., 2019). This reduction in vmHRV is more pronounced in individuals with high PMS symptoms (Baker et al., 2008; Matsumoto et al., 2007). Fear conditioning studies have shown inconsistent associations with cycle phases, suggesting a complex interplay between physiological parameters and PMS-related symptoms (Carpenter et al., 2022; Epperson et al., 2007; Milad et al., 2006). The neurovisceral integration model posits that vmHRV reflects the capacity of the central autonomous network (CAN), which is responsible for regulatory processes on behavioral, cognitive, and autonomous levels (Thayer \& Lane, 2000, 2009). Fear learning, mediated within the CAN, is suggested to be indicative of vmHRV's capacity for successful VI regulation (Battaglia \& Thayer, 2022). Given the GABAergic mediation of central inhibitory functional connectivity in the CAN, which may be affected by ALLO fluctuations, this thesis proposes that fluctuating CAN activity in the luteal phase contributes to diverse aversive symptoms in PMS. A research program was designed to empirically test these propositions. Study 1 investigated fear discrimination during different menstrual cycle phases and its interaction with vmHRV, revealing nuanced effects on acoustic startle response and skin conductance response. While there was heightened fear discrimination in acoustic startle responses in participants in the luteal phase, there was an interaction between menstrual cycle phase and vmHRV in skin conductance responses. In this measure, heightened fear discrimination during the luteal phase was only visible in individuals with high resting vmHRV; those with low vmHRV showed reduced fear discrimination and higher overall responses. Despite affecting the vast majority of menstruating people, there are very limited tools available to reliably assess these symptoms in the German speaking area. Study 2 aimed at closing this gap, by translating and validating a German version of the short version of the Premenstrual Assessment Form (Allen et al., 1991), providing a reliable tool for future investigations, which closes the gap in PMS questionnaires in the German-speaking research area. Study 3 employed a diary study paradigm to explore daily associations between vmHRV and PMS symptoms. The results showed clear simultaneous fluctuations between the two constructs with a peak in PMS and a low point in vmHRV a few days before menstruation onset. The association between vmHRV and PMS was driven by psychological PMS symptoms. Based on the theoretical considerations regarding the neurovisceral perspective on PMS, another interesting construct to consider is attentional control, as it is closely related to functions of the CAN. Study 4 delved into attentional control and vmHRV differences between menstrual cycle phases, demonstrating an interaction between cycle phase and PMS symptoms. In a pilot, we found reduced vmHRV and attentional control during the luteal phase only in participants who reported strong PMS. While Studies 1-4 provided evidence for the mechanisms underlying PMS, Studies 5 and 6 investigated short- and long-term intervention protocols to ameliorate PMS symptomatology. Study 5 explored the potential of heart rate variability biofeedback (HRVB) in alleviating PMS symptoms and a number of other outcome measures. In a waitlist-control design, participants underwent a 4-week smartphone-based HRVB intervention. The results revealed positive effects on PMS, with larger effect sizes on psychological symptoms, as well as on depressive symptoms, anxiety/stress and attentional control. Finally, Study 6 examined the acute effects of HRVB on attentional control. The study found positive impact but only in highly stressed individuals. The thesis, based on this comprehensive research program, expands our understanding of PMS as an outcome of CAN fluctuations mediated by GABAA receptor reactivity. The results largely support the model. These findings not only deepen our understanding of PMS but also offer potential avenues for therapeutic interventions. The promising results of smartphone-based HRVB training suggest a non-pharmacological approach to managing PMS symptoms, although further research is needed to confirm its efficacy. In conclusion, this thesis illuminates the complex web of factors contributing to PMS, providing valuable insights into its etiological underpinnings and potential interventions. By elucidating the relationships between hormonal fluctuations, CAN activity, and psychological responses, this research contributes to more effective treatments for individuals grappling with the challenges of PMS. The findings hold promise for improving the quality of life for those affected by this prevalent and often debilitating condition.}, language = {en} } @phdthesis{Boila2024, author = {Boila, Chiara}, title = {The processing of OVS and passive sentences in German monolingual and German-Italian simultaneous bilingual children}, doi = {10.25932/publishup-62972}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-629723}, school = {Universit{\"a}t Potsdam}, pages = {xv, 223}, year = {2024}, abstract = {It is a common finding that preschoolers have difficulties in identifying who is doing what to whom in non-canonical sentences, such as (object-verb-subject) OVS and passive sentences in German. This dissertation investigates how German monolingual and German-Italian simultaneous bilingual children process German OVS sentences in Study 1 and German passives in Study 2. Offline data (i.e., accuracy data) and online data (i.e., eye-gaze and pupillometry data) were analyzed to explore whether children can assign thematic roles during sentence comprehension and processing. Executive functions, language-internal and -external factors were investigated as potential predictors for children's sentence comprehension and processing. Throughout the literature, there are contradicting findings on the relation between language and executive functions. While some results show a bilingual cognitive advantage over monolingual speakers, others suggest there is no relationship between bilingualism and executive functions. If bilingual children possess more advanced executive function abilities than monolingual children, then this might also be reflected in a better performance on linguistic tasks. In the current studies monolingual and bilingual children were tested by means of two executive function tasks: the Flanker task and the task-switching paradigm. However, these findings showed no bilingual cognitive advantages and no better performance by bilingual children in the linguistic tasks. The performance was rather comparable between bilingual and monolingual children, or even better for the monolingual group. This may be due to cross-linguistic influences and language experience (i.e., language input and output). Italian was used because it does not syntactically overlap with the structure of German OVS sentences, and it only overlapped with one of the two types of sentence condition used for the passive study - considering the subject-(finite)verb alignment. The findings showed a better performance of bilingual children in the passive sentence structure that syntactically overlapped in the two languages, providing evidence for cross-linguistic influences. Further factors for children's sentence comprehension were considered. The parents' education, the number of older siblings and language experience variables were derived from a language background questionnaire completed by parents. Scores of receptive vocabulary and grammar, visual and short-term memory and reasoning ability were measured by means of standardized tests. It was shown that higher German language experience by bilinguals correlates with better accuracy in German OVS sentences but not in passive sentences. Memory capacity had a positive effect on the comprehension of OVS and passive sentences in the bilingual group. Additionally, a role was played by executive function abilities in the comprehension of OVS sentences and not of passive sentences. It is suggested that executive function abilities might help children in the sentence comprehension task when the linguistic structures are not yet fully mastered. Altogether, these findings show that bilinguals' poorer performance in the comprehension and processing of German OVS is mainly due to reduced language experience in German, and that the different performance of bilingual children with the two types of passives is mainly due to cross-linguistic influences.}, language = {en} } @phdthesis{Brembach2024, author = {Brembach, Theresa-Charlotte}, title = {Regulators and effects of neutrophilic granulocytes in hidradenitis suppurativa}, school = {Universit{\"a}t Potsdam}, pages = {108, XV}, year = {2024}, language = {en} } @phdthesis{Bryant2024, author = {Bryant, Seth}, title = {Aggregation and disaggregation in flood risk models}, doi = {10.25932/publishup-65095}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-650952}, school = {Universit{\"a}t Potsdam}, pages = {ix, 116}, year = {2024}, abstract = {Floods continue to be the leading cause of economic damages and fatalities among natural disasters worldwide. As future climate and exposure changes are projected to intensify these damages, the need for more accurate and scalable flood risk models is rising. Over the past decade, macro-scale flood risk models have evolved from initial proof-of-concepts to indispensable tools for decision-making at global-, nationaland, increasingly, the local-level. This progress has been propelled by the advent of high-performance computing and the availability of global, space-based datasets. However, despite such advancements, these models are rarely validated and consistently fall short of the accuracy achieved by high-resolution local models. While capabilities have improved, significant gaps persist in understanding the behaviours of such macro-scale models, particularly their tendency to overestimate risk. This dissertation aims to address such gaps by examining the scale transfers inherent in the construction and application of coarse macroscale models. To achieve this, four studies are presented that, collectively, address exposure, hazard, and vulnerability components of risk affected by upscaling or downscaling. The first study focuses on a type of downscaling where coarse flood hazard inundation grids are enhanced to a finer resolution. While such inundation downscaling has been employed in numerous global model chains, ours is the first study to focus specifically on this component, providing an evaluation of the state of the art and a novel algorithm. Findings demonstrate that our novel algorithm is eight times faster than existing methods, offers a slight improvement in accuracy, and generates more physically coherent flood maps in hydraulically challenging regions. When applied to a case study, the algorithm generated a 4m resolution inundation map from 30m hydrodynamic model outputs in 33 s, a 60-fold improvement in runtime with a 25\% increase in RMSE compared with direct hydrodynamic modelling. All evaluated downscaling algorithms yielded better accuracy than the coarse hydrodynamic model when compared to observations, demonstrating similar limits of coarse hydrodynamic models reported by others. The substitution of downscaling into flood risk model chains, in place of high-resolution modelling, can drastically improve the lead time of impactbased forecasts and the efficiency of hazard map production. With downscaling, local regions could obtain high resolution local inundation maps by post-processing a global model without the need for expensive modelling or expertise. The second study focuses on hazard aggregation and its implications for exposure, investigating implicit aggregations commonly used to intersect hazard grids with coarse exposure models. This research introduces a novel spatial classification framework to understand the effects of rescaling flood hazard grids to a coarser resolution. The study derives closed-form analytical solutions for the location and direction of bias from flood grid aggregation, showing that bias will always be present in regions near the edge of inundation. For example, inundation area will be positively biased when water depth grids are aggregated, while volume will be negatively biased when water elevation grids are aggregated. Extending the analysis to effects of hazard aggregation on building exposure, this study shows that exposure in regions at the edge of inundation are an order of magnitude more sensitive to aggregation errors than hazard alone. Among the two aggregation routines considered, averaging water surface elevation grids better preserved flood depths at buildings than averaging of water depth grids. The study provides the first mathematical proof and generalizeable treatment of flood hazard grid aggregation, demonstrating important mechanisms to help flood risk modellers understand and control model behaviour. The final two studies focus on the aggregation of vulnerability models or flood damage functions, investigating the practice of applying per-asset functions to aggregate exposure models. Both studies extend Jensen's inequality, a well-known 1906 mathematical proof, to demonstrate how the aggregation of flood damage functions leads to bias. Applying Jensen's proof in this new context, results show that typically concave flood damage functions will introduce a positive bias (overestimation) when aggregated. This behaviour was further investigated with a simulation experiment including 2 million buildings in Germany, four global flood hazard simulations and three aggregation scenarios. The results show that positive aggregation bias is not distributed evenly in space, meaning some regions identified as "hot spots of risk" in assessments may in fact just be hot spots of aggregation bias. This study provides the first application of Jensen's inequality to explain the overestimates reported elsewhere and advice for modellers to minimize such artifacts. In total, this dissertation investigates the complex ways aggregation and disaggregation influence the behaviour of risk models, focusing on the scale-transfers underpinning macro-scale flood risk assessments. Extending a key finding of the flood hazard literature to the broader context of flood risk, this dissertation concludes that all else equal, coarse models overestimate risk. This dissertation goes beyond previous studies by providing mathematical proofs for how and where such bias emerges in aggregation routines, offering a mechanistic explanation for coarse model overestimates. It shows that this bias is spatially heterogeneous, necessitating a deep understanding of how rescaling may bias models to effectively reduce or communicate uncertainties. Further, the dissertation offers specific recommendations to help modellers minimize scale transfers in problematic regions. In conclusion, I argue that such aggregation errors are epistemic, stemming from choices in model structure, and therefore hold greater potential and impetus for study and mitigation. This deeper understanding of uncertainties is essential for improving macro-scale flood risk models and their effectiveness in equitable, holistic, and sustainable flood management.}, language = {en} } @phdthesis{Cheng2024, author = {Cheng, Feng}, title = {Evolution and ontogeny of electric organ discharge in African weakly electric fish genus Campylomormyrus: a genomic and transcriptomic perspective}, doi = {10.25932/publishup-63017}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-630172}, school = {Universit{\"a}t Potsdam}, pages = {176}, year = {2024}, abstract = {The African weakly electric fishes (Mormyridae) exhibit a remarkable adaptive radiation possibly due to their species-specific electric organ discharges (EODs). It is produced by a muscle-derived electric organ that is located in the caudal peduncle. Divergence in EODs acts as a pre-zygotic isolation mechanism to drive species radiations. However, the mechanism behind the EOD diversification are only partially understood. The aim of this study is to explore the genetic basis of EOD diversification from the gene expression level across Campylomormyrus species/hybrids and ontogeny. I firstly produced a high quality genome of the species C. compressirostris as a valuable resource to understand the electric fish evolution. The next study compared the gene expression pattern between electric organs and skeletal muscles in Campylomormyrus species/hybrids with different types of EOD duration. I identified several candidate genes with an electric organ-specific expression, e.g. KCNA7a, KLF5, KCNJ2, SCN4aa, NDRG3, MEF2. The overall genes expression pattern exhibited a significant association with EOD duration in all analyzed species/hybrids. The expression of several candidate genes, e.g. KCNJ2, KLF5, KCNK6 and KCNQ5, possibly contribute to the regulation of EOD duration in Campylomormyrus due to their increasing or decreasing expression. Several potassium channel genes showed differential expression during ontogeny in species and hybrid with EOD alteration, e.g. KCNJ2. I next explored allele specific expression of intragenus hybrids by crossing the duration EOD species C. compressirostris with the medium duration EOD species C. tshokwe and the elongated duration EOD species C. rhynchophorus. The hybrids exhibited global expression dominance of the C. compressirostris allele in the adult skeletal muscle and electric organ, as well as in the juvenile electric organ. Only the gene KCNJ2 showed dominant expression of the allele from C. rhynchophorus, and this was increasingly dominant during ontogeny. It hence supported our hypothesis that KCNJ2 is a key gene of regulating EOD duration. Our results help us to understand, from a genetic perspective, how gene expression effect the EOD diversification in the African weakly electric fish.}, language = {en} } @phdthesis{Damseaux2024, author = {Damseaux, Adrien}, title = {Improving permafrost dynamics in land surface models: insights from dual sensitivity experiments}, doi = {10.25932/publishup-63945}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-639450}, school = {Universit{\"a}t Potsdam}, pages = {xiii, 143}, year = {2024}, abstract = {The thawing of permafrost and the subsequent release of greenhouse gases constitute one of the most significant and uncertain positive feedback loops in the context of climate change, making predictions regarding changes in permafrost coverage of paramount importance. To address these critical questions, climate scientists have developed Land Surface Models (LSMs) that encompass a multitude of physical soil processes. This thesis is committed to advancing our understanding and refining precise representations of permafrost dynamics within LSMs, with a specific focus on the accurate modeling of heat fluxes, an essential component for simulating permafrost physics. The first research question overviews fundamental model prerequisites for the representation of permafrost soils within land surface modeling. It includes a first-of-its-kind comparison between LSMs in CMIP6 to reveal their differences and shortcomings in key permafrost physics parameters. Overall, each of these LSMs represents a unique approach to simulating soil processes and their interactions with the climate system. Choosing the most appropriate model for a particular application depends on factors such as the spatial and temporal scale of the simulation, the specific research question, and available computational resources. The second research question evaluates the performance of the state-of-the-art Community Land Model (CLM5) in simulating Arctic permafrost regions. Our approach overcomes traditional evaluation limitations by individually addressing depth, seasonality, and regional variations, providing a comprehensive assessment of permafrost and soil temperature dynamics. I compare CLM5's results with three extensive datasets: (1) soil temperatures from 295 borehole stations, (2) active layer thickness (ALT) data from the Circumpolar Active Layer Monitoring Network (CALM), and (3) soil temperatures, ALT, and permafrost extent from the ESA Climate Change Initiative (ESA-CCI). The results show that CLM5 aligns well with ESA-CCI and CALM for permafrost extent and ALT but reveals a significant global cold temperature bias, notably over Siberia. These results echo a persistent challenge identified in numerous studies: the existence of a systematic 'cold bias' in soil temperature over permafrost regions. To address this challenge, the following research questions propose dual sensitivity experiments. The third research question represents the first study to apply a Plant Functional Type (PFT)-based approach to derive soil texture and soil organic matter (SOM), departing from the conventional use of coarse-resolution global data in LSMs. This novel method results in a more uniform distribution of soil organic matter density (OMD) across the domain, characterized by reduced OMD values in most regions. However, changes in soil texture exhibit a more intricate spatial pattern. Comparing the results to observations reveals a significant reduction in the cold bias observed in the control run. This method shows noticeable improvements in permafrost extent, but at the cost of an overestimation in ALT. These findings emphasize the model's high sensitivity to variations in soil texture and SOM content, highlighting the crucial role of soil composition in governing heat transfer processes and shaping the seasonal variation of soil temperatures in permafrost regions. Expanding upon a site experiment conducted in Trail Valley Creek by \citet{dutch_impact_2022}, the fourth research question extends the application of the snow scheme proposed by \citet{sturm_thermal_1997} to cover the entire Arctic domain. By employing a snow scheme better suited to the snow density profile observed over permafrost regions, this thesis seeks to assess its influence on simulated soil temperatures. Comparing this method to observational datasets reveals a significant reduction in the cold bias that was present in the control run. In most regions, the Sturm run exhibits a substantial decrease in the cold bias. However, there is a distinctive overshoot with a warm bias observed in mountainous areas. The Sturm experiment effectively addressed the overestimation of permafrost extent in the control run, albeit resulting in a substantial reduction in permafrost extent over mountainous areas. ALT results remain relatively consistent compared to the control run. These outcomes align with our initial hypothesis, which anticipated that the reduced snow insulation in the Sturm run would lead to higher winter soil temperatures and a more accurate representation of permafrost physics. In summary, this thesis demonstrates significant advancements in understanding permafrost dynamics and its integration into LSMs. It has meticulously unraveled the intricacies involved in the interplay between heat transfer, soil properties, and snow dynamics in permafrost regions. These insights offer novel perspectives on model representation and performance.}, language = {en} } @phdthesis{Dronsella2024, author = {Dronsella, Beau B.}, title = {Overcoming natural biomass limitations in gram-negative bacteria through synthetic carbon fixation}, doi = {10.25932/publishup-64627}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-646273}, school = {Universit{\"a}t Potsdam}, pages = {174}, year = {2024}, abstract = {The carbon demands of an ever-increasing human population and the concomitant rise in net carbon emissions requires CO2 sequestering approaches for production of carbon-containing molecules. Microbial production of carbon-containing products from plant-based sugars could replace current fossil-based production. However, this form of sugar-based microbial production directly competes with human food supply and natural ecosystems. Instead, one-carbon feedstocks derived from CO2 and renewable energy were proposed as an alternative. The one carbon molecule formate is a stable, readily soluble and safe-to-store energetic mediator that can be electrochemically generated from CO2 and (excess off-peak) renewable electricity. Formate-based microbial production could represent a promising approach for a circular carbon economy. However, easy-to-engineer and efficient formate-utilizing microbes are lacking. Multiple synthetic metabolic pathways were designed for better-than-nature carbon fixation. Among them, the reductive glycine pathway was proposed as the most efficient pathway for aerobic formate assimilation. While some of these pathways have been successfully engineered in microbial hosts, these synthetic strains did so far not exceed the performance of natural strains. In this work, I engineered and optimized two different synthetic formate assimilation pathways in gram-negative bacteria to exceed the limits of a natural carbon fixation pathway, the Calvin cycle. The first chapter solidified Cupriavidus necator as a promising formatotrophic host to produce value-added chemicals. The formate tolerance of C. necator was assessed and a production pathway for crotonate established in a modularized fashion. Last, bioprocess optimization was leveraged to produce crotonate from formate at a titer of 148 mg/L. In the second chapter, I chromosomally integrated and optimized the synthetic reductive glycine pathway in C. necator using a transposon-mediated selection approach. The insertion methodology allowed selection for condition-specific tailored pathway expression as improved pathway performance led to better growth. I then showed my engineered strains to exceed the biomass yields of the Calvin cycle utilizing wildtype C. necator on formate. This demonstrated for the first time the superiority of a synthetic formate assimilation pathway and by extension of synthetic carbon fixation efforts as a whole. In chapter 3, I engineered a segment of a synthetic carbon fixation cycle in Escherichia coli. The GED cycle was proposed as a Calvin cycle alternative that does not perform a wasteful oxygenation reaction and is more energy efficient. The pathways simple architecture and reasonable driving force made it a promising candidate for enhanced carbon fixation. I created a deletion strain that coupled growth to carboxylation via the GED pathway segment. The CO2 dependence of the engineered strain and 13C-tracer analysis confirmed operation of the pathway in vivo. In the final chapter, I present my efforts of implementing the GED cycle also in C. necator, which might be a better-suited host, as it is accustomed to formatotrophic and hydrogenotrophic growth. To provide the carboxylation substrate in vivo, I engineered C. necator to utilize xylose as carbon source and created a selection strain for carboxylase activity. I verify activity of the key enzyme, the carboxylase, in the decarboxylative direction. Although CO2-dependent growth of the strain was not obtained, I showed that all enzymes required for operation of the GED cycle are active in vivo in C. necator. I then evaluate my success with engineering a linear and cyclical one-carbon fixation pathway in two different microbial hosts. The linear reductive glycine pathway presents itself as a much simpler metabolic solution for formate dependent growth over the sophisticated establishment of hard-to-balance carbon fixation cycles. Last, I highlight advantages and disadvantages of C. necator as an upcoming microbial benchmark organism for synthetic metabolism efforts and give and outlook on its potential for the future of C1-based manufacturing.}, language = {en} } @phdthesis{Doerries2024, author = {D{\"o}rries, Timo Julian}, title = {Anomalous transport and non-Gaussian dynamics in mobile-immobile models}, doi = {10.25932/publishup-63495}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-634959}, school = {Universit{\"a}t Potsdam}, pages = {ii, 177}, year = {2024}, abstract = {The mobile-immobile model (MIM) has been established in geoscience in the context of contaminant transport in groundwater. Here the tracer particles effectively immobilise, e.g., due to diffusion into dead-end pores or sorption. The main idea of the MIM is to split the total particle density into a mobile and an immobile density. Individual tracers switch between the mobile and immobile state following a two-state telegraph process, i.e., the residence times in each state are distributed exponentially. In geoscience the focus lies on the breakthrough curve (BTC), which is the concentration at a fixed location over time. We apply the MIM to biological experiments with a special focus on anomalous scaling regimes of the mean squared displacement (MSD) and non-Gaussian displacement distributions. As an exemplary system, we have analysed the motion of tau proteins, that diffuse freely inside axons of neurons. Their free diffusion thereby corresponds to the mobile state of the MIM. Tau proteins stochastically bind to microtubules, which effectively immobilises the tau proteins until they unbind and continue diffusing. Long immobilisation durations compared to the mobile durations give rise to distinct non-Gaussian Laplace shaped distributions. It is accompanied by a plateau in the MSD for initially mobile tracer particles at relevant intermediate timescales. An equilibrium fraction of initially mobile tracers gives rise to non-Gaussian displacements at intermediate timescales, while the MSD remains linear at all times. In another setting bio molecules diffuse in a biosensor and transiently bind to specific receptors, where advection becomes relevant in the mobile state. The plateau in the MSD observed for the advection-free setting and long immobilisation durations persists also for the case with advection. We find a new clear regime of anomalous diffusion with non-Gaussian distributions and a cubic scaling of the MSD. This regime emerges for initially mobile and for initially immobile tracers. For an equilibrium fraction of initially mobile tracers we observe an intermittent ballistic scaling of the MSD. The long-time effective diffusion coefficient is enhanced by advection, which we physically explain with the variance of mobile durations. Finally, we generalize the MIM to incorporate arbitrary immobilisation time distributions and focus on a Mittag-Leffler immobilisation time distribution with power-law tail ~ t^(-1-mu) with 01. Das Energiefunktional besteht dabei aus einem Divergenz- und einem beliebigen Potentialteil. Als zugrundeliegender Raum wurden hier lokal summierbare unendliche Graphen gew{\"a}hlt. Bisherige Ver{\"o}ffentlichungen zu Hardy-Ungleichungen auf Graphen haben vor allem den Spezialfall p=2 betrachtet, oder lokal endliche Graphen ohne Potentialteil. Zwei grundlegende Fragestellungen ergeben sich nun ganz nat{\"u}rlich: F{\"u}r welche Graphen gibt {\"u}berhaupt es eine Hardy-Ungleichung? Und, wenn es sie gibt, gibt es einen Weg um ein optimales Gewicht zu erhalten? Antworten auf diese Fragen werden in Theorem 10.1 und Theorem 12.1 gegeben. Theorem 10.1 gibt eine Reihe an Charakterisierungen an; unter anderem gibt es eine Hardy-Ungleichung auf einem Graphen genau dann, wenn es eine Greensche Funktion gibt. Theorem 12.1 gibt eine explizite Formel an, um optimale Hardy-Gewichte f{\"u}r lokal endliche Graphen unter einigen technischen Zusatzannahmen zu berechnen. In Beispielen wird gezeigt, dass Greensche Funktionen gute Kandidaten sind um in die Formel eingesetzt zu werden. Um diese beiden Theoreme beweisen zu k{\"o}nnen, m{\"u}ssen eine Vielzahl an Techniken erarbeitet werden, welche in den ersten Kapiteln behandelt werden. Dabei sind eine Verallgemeinerung der Grundzustandstransformation (Theorem 4.1), ein Agmon-Allegretto-Piepenbrink-artiges Resultat (Theorem 6.1) und das Vergleichsprinzip (Proposition 7.3) besonders hervorzuheben, da diese Resultate sehr h{\"a}ufig angewendet werden und somit das Fundament der Dissertation bilden. Es wird zudem darauf Wert gelegt die Theorie durch Beispiele zu veranschaulichen. Hierbei wird der Fokus auf die nat{\"u}rlichen Zahlen, Euklidische Gitter, B{\"a}ume und Sterne gelegt. Als Abschluss werden noch eine nicht-lineare Version der Heisenbergschen Unsch{\"a}rferelation und eine Rellich-Ungleichung aus der Hardy-Ungleichung geschlussfolgert.}, language = {en} } @phdthesis{Fitzner2024, author = {Fitzner, Maria}, title = {Cultivation of selected halophytes in saline indoor farming and modulation of cultivation conditions to optimize metabolite profiles for human nutrition}, doi = {10.25932/publishup-62697}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-626974}, school = {Universit{\"a}t Potsdam}, pages = {178}, year = {2024}, abstract = {With the many challenges facing the agricultural system, such as water scarcity, loss of arable land due to climate change, population growth, urbanization or trade disruptions, new agri-food systems are needed to ensure food security in the future. In addition, healthy diets are needed to combat non-communicable diseases. Therefore, plant-based diets rich in health-promoting plant secondary metabolites are desirable. A saline indoor farming system is representing a sustainable and resilient new agrifood system and can preserve valuable fresh water. Since indoor farming relies on artificial lighting, assessment of lighting conditions is essential. In this thesis, the cultivation of halophytes in a saline indoor farming system was evaluated and the influence of cultivation conditions were assessed in favor of improving the nutritional quality of halophytes for human consumption. Therefore, five selected edible halophyte species (Brassica oleracea var. palmifolia, Cochlearia officinalis, Atriplex hortensis, Chenopodium quinoa, and Salicornia europaea) were cultivated in saline indoor farming. The halophyte species were selected for to their salt tolerance levels and mechanisms. First, the suitability of halophytes for saline indoor farming and the influence of salinity on their nutritional properties, e.g. plant secondary metabolites and minerals, were investigated. Changes in plant performance and nutritional properties were observed as a function of salinity. The response to salinity was found to be species-specific and related to the salt tolerance mechanism of the halophytes. At their optimal salinity levels, the halophytes showed improved carotenoid content. In addition, a negative correlation was found between the nitrate and chloride content of halophytes as a function of salinity. Since chloride and nitrate can be antinutrient compounds, depending on their content, monitoring is essential, especially in halophytes. Second, regional brine water was introduced as an alternative saline water resource in the saline indoor farming system. Brine water was shown to be feasible for saline indoor farming of halophytes, as there was no adverse effect on growth or nutritional properties, e.g. carotenoids. Carotenoids were shown to be less affected by salt composition than by salt concentration. In addition, the interaction between the salinity and the light regime in indoor farming and greenhouse cultivation has been studied. There it was shown that interacting light regime and salinity alters the content of carotenoids and chlorophylls. Further, glucosinolate and nitrate content were also shown to be influenced by light regime. Finally, the influence of UVB light on halophytes was investigated using supplemental narrow-band UVB LEDs. It was shown that UVB light affects the growth, phenotype and metabolite profile of halophytes and that the UVB response is species specific. Furthermore, a modulation of carotenoid content in S. europaea could be achieved to enhance health-promoting properties and thus improve nutritional quality. This was shown to be dose-dependent and the underlying mechanisms of carotenoid accumulation were also investigated. Here it was revealed that carotenoid accumulation is related to oxidative stress. In conclusion, this work demonstrated the potential of halophytes as alternative vegetables produced in a saline indoor farming system for future diets that could contribute to ensuring food security in the future. To improve the sustainability of the saline indoor farming system, LED lamps and regional brine water could be integrated into the system. Since the nutritional properties have been shown to be influenced by salt, light regime and UVB light, these abiotic stressors must be taken into account when considering halophytes as alternative vegetables for human nutrition.}, language = {en} } @phdthesis{Frank2024, author = {Frank, Mario}, title = {On synthesising Linux kernel module components from Coq formalisations}, doi = {10.25932/publishup-64255}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-642558}, school = {Universit{\"a}t Potsdam}, pages = {IX, 78}, year = {2024}, abstract = {This thesis presents an attempt to use source code synthesised from Coq formalisations of device drivers for existing (micro)kernel operating systems, with a particular focus on the Linux Kernel. In the first part, the technical background and related work are described. The focus is here on the possible approaches to synthesising certified software with Coq, namely the extraction to functional languages using the Coq extraction plugin and the extraction to Clight code using the CertiCoq plugin. It is noted that the implementation of CertiCoq is verified, whereas this is not the case for the Coq extraction plugin. Consequently, there is a correctness guarantee for the generated Clight code which does not hold for the code being generated by the Coq extraction plugin. Furthermore, the differences between user space and kernel space software are discussed in relation to Linux device drivers. It is elaborated that it is not possible to generate working Linux kernel module components using the Coq extraction plugin without significant modifications. In contrast, it is possible to produce working user space drivers both with the Coq extraction plugin and CertiCoq. The subsequent parts describe the main contributions of the thesis. In the second part, it is demonstrated how to extend the Coq extraction plugin to synthesise foreign function calls between the functional language OCaml and the imperative language C. This approach has the potential to improve the type-safety of user space drivers. Furthermore, it is shown that the code being synthesised by CertiCoq cannot be used in kernel space without modifications to the necessary runtime. Consequently, the necessary modifications to the runtimes of CertiCoq and VeriFFI are introduced, resulting in the runtimes becoming compatible components of a Linux kernel module. Furthermore, justifications for the transformations are provided and possible further extensions to both plugins and solutions to failing garbage collection calls in kernel space are discussed. The third part presents a proof of concept device driver for the Linux Kernel. To achieve this, the event handler of the original PC Speaker driver is partially formalised in Coq. Furthermore, some relevant formal properties of the formalised functionality are discussed. Subsequently, a kernel module is defined, utilising the modified variants of CertiCoq and VeriFFI to compile a working device driver. It is furthermore shown that it is possible to compile the synthesised code with CompCert, thereby extending the guarantee of correctness to the assembly layer. This is followed by a performance evaluation that compares a naive formalisation of the PC speaker functionality with the original PC Speaker driver pointing out the weaknesses in the formalisation and possible improvements. The part closes with a summary of the results, their implications and open questions being raised. The last part lists all used sources, separated into scientific literature, documentations or reference manuals and artifacts, i.e. source code.}, language = {en} } @phdthesis{Freimuth2024, author = {Freimuth, Nina}, title = {Elucidating the suppression of root hair formation by a member of a novel, short ENTH protein family in Arabidopsis thaliana}, doi = {10.25932/publishup-63499}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-634994}, school = {Universit{\"a}t Potsdam}, pages = {XIII, 156}, year = {2024}, abstract = {This work analyzed functional and regulatory aspects of the so far little characterized EPSIN N-terminal Homology (ENTH) domain-containing protein EPSINOID2 in Arabidopsis thaliana. ENTH domain proteins play accessory roles in the formation of clathrin-coated vesicles (CCVs) (Zouhar and Sauer 2014). Their ENTH domain interacts with membranes and their typically long, unstructured C-terminus contains binding motifs for adaptor protein complexes and clathrin itself. There are seven ENTH domain proteins in Arabidopsis. Four of them possess the canonical long C-terminus and participate in various, presumably CCV-related intracellular transport processes (Song et al. 2006; Lee et al. 2007; Sauer et al. 2013; Collins et al. 2020; Heinze et al. 2020; Mason et al. 2023). The remaining three ENTH domain proteins, however, have severely truncated C-termini and were termed EPSINOIDs (Zouhar and Sauer 2014; Freimuth 2015). Their functions are currently unclear. Preceding studies focusing on EPSINOID2 indicated a role in root hair formation: epsinoid2 T DNA mutants exhibited an increased root hair density and EPSINOID2-GFP was specifically located in non-hair cell files in the Arabidopsis root epidermis (Freimuth 2015, 2019). In this work, it was clearly shown that loss of EPSINOID2 leads to an increase in root hair density through analyses of three independent mutant alleles, including a newly generated CRISPR/Cas9 full deletion mutant. The ectopic root hairs emerging from non-hair positions in all epsinoid2 mutant alleles are most likely not a consequence of altered cell fate, because extensive genetic analyses placed EPSINOID2 downstream of the established epidermal patterning network. Thus, EPSINOID2 seems to act as a cell autonomous inhibitor of root hair formation. Attempts to confirm this hypothesis by ectopically overexpressing EPSINOID2 led to the discovery of post-transcriptional and -translational regulation through different mechanisms. One involves the little characterized miRNA844-3p. Interference with this pathway resulted in ectopic EPSINOID2 overexpression and decreased root hair density, confirming it as negative factor in root hair formation. A second mechanism likely involves proteasomal degradation. Treatment with proteasomal inhibitor MG132 led to EPSINOID2-GFP accumulation, and a KEN box degron motif was identified in the EPSINOID2 sequence associated with degradation through a ubiquitin/proteasome-dependent pathway. In line with a tight dose regulation, genetic analyses of all three mutant alleles indicate that EPSINOID2 is haploinsufficient. Lastly, it was revealed that, although EPSINOID2 promoter activity was found in all epidermal cells, protein accumulation was observed in N-cells only, hinting at yet another layer of regulation.}, language = {en} } @phdthesis{Friese2024, author = {Friese, Sharleen}, title = {Trace elements and genomic instability in the murine brain}, school = {Universit{\"a}t Potsdam}, pages = {XV, 112, XXI}, year = {2024}, abstract = {The trace elements copper, iron, manganese, selenium and zinc are essential micronutrients involved in various cellular processes, all with different responsibilities. Based on that importance, their concentrations are tightly regulated in mammalian organisms. The maintenance of those levels is termed trace element homeostasis and mediated by a combination of processes regulating absorption, cellular and systemic transport mechanisms, storage and effector proteins as well as excretion. Due to their chemical properties, some functions of trace elements overlap, as seen in antioxidative defence, for example, comprising an expansive spectrum of antioxidative proteins and molecules. Simultaneously, the same is true for regulatory mechanisms, causing trace elements to influence each other's homeostases. To mimic physiological conditions, trace elements should therefore not be evaluated separately but considered in parallel. While many of these homeostatic mechanisms are well-studied, for some elements new pathways are still discovered. Additionally, the connections between dietary trace element intake, trace element status and health are not fully unraveled, yet. With current demographic developments, also the influence of ageing as well as of certain pathological conditions is of increasing interest. Here, the TraceAge research unit was initiated, aiming to elucidate the homeostases of and interactions between essential trace elements in healthy and diseased elderly. While human cohort studies can offer insights into trace element profiles, also in vivo model organisms are used to identify underlying molecular mechanisms. This is achieved by a set of feeding studies including mice of various age groups receiving diets of reduced trace element content. To account for cognitive deterioration observed with ageing, neurodegenerative diseases, as well as genetic mutations triggering imbalances in cerebral trace element concentrations, one TraceAge work package focuses on trace elements in the murine brain, specifically the cerebellum. In that context, concentrations of the five essential trace elements of interest, copper, iron, manganese, selenium and zinc, were quantified via inductively coupled plasma-tandem mass spectrometry, revealing differences in priority of trace element homeostases between brain and liver. Upon moderate reduction of dietary trace element supply, cerebellar concentrations of copper and manganese deviated from those in adequately supplied animals. By further reduction of dietary trace element contents, also concentrations of cerebellar iron and selenium were affected, but not as strong as observed in liver tissue. In contrast, zinc concentrations remained stable. Investigation of aged mice revealed cerebellar accumulation of copper and iron, possibly contributing to oxidative stress on account of their redox properties. Oxidative stress affects a multitude of cellular components and processes, among them, next to proteins and lipids, also the DNA. Direct insults impairing its integrity are of relevance here, but also indirect effects, mediated by the machinery ensuring genomic stability and its functionality. The system includes the DNA damage response, comprising detection of endogenous and exogenous DNA lesions, decision on subsequent cell fate and enabling DNA repair, which presents another pillar of genomic stability maintenance. Also in proteins of this machinery, trace elements act as cofactors, shaping the hypothesis of impaired genomic stability maintenance under conditions of disturbed trace element homeostasis. To investigate this hypothesis, a variety of approaches was used, applying OECD guidelines Organisation for Economic Co-operation and Development, adapting existing protocols for use in cerebellum tissue and establishing new methods. In order to assess the impact of age and dietary trace element depletion on selected endpoints estimating genomic instability, DNA damage and DNA repair were investigated. DNA damage analysis, in particular of DNA strand breaks and oxidatively modified DNA bases, revealed stable physiological levels which were neither affected by age nor trace element supply. To examine whether this is a result of increased repair rates, two steps characteristic for base excision repair, namely DNA incision and ligation activity, were studied. DNA glycosylases and DNA ligases were not reduced in their activity by age or trace element depletion, either. Also on the level of gene expression, major proteins involved in genomic stability maintenance were analysed, mirroring results obtained from protein studies. To conclude, the present work describes homeostatic regulation of trace elements in the brain, which, in absence of genetic mutations, is able to retain physiological levels even under conditions of reduced trace element supply to a certain extent. This is reflected by functionality of genomic stability maintenance mechanisms, illuminating the prioritization of the brain as vital organ.}, language = {en} } @phdthesis{Fulat2024, author = {Fulat, Karol}, title = {Electron acceleration at quasi-perpendicular shocks in supernova remnants}, doi = {10.25932/publishup-65136}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-651365}, school = {Universit{\"a}t Potsdam}, pages = {vi, 94}, year = {2024}, abstract = {Astrophysical shocks, driven by explosive events such as supernovae, efficiently accelerate charged particles to relativistic energies. The majority of these shocks occur in collisionless plasmas where the energy transfer is dominated by particle-wave interactions.Strong nonrelativistic shocks found in supernova remnants are plausible sites of galactic cosmic ray production, and the observed emission indicates the presence of nonthermal electrons. To participate in the primary mechanism of energy gain - Diffusive Shock Acceleration - electrons must have a highly suprathermal energy, implying a need for very efficient pre-acceleration. This poorly understood aspect of the shock acceleration theory is known as the electron injection problem. Studying electron-scale phenomena requires the use of fully kinetic particle-in-cell (PIC) simulations, which describe collisionless plasma from first principles. Most published studies consider a homogenous upstream medium, but turbulence is ubiquitous in astrophysical environments and is typically driven at magnetohydrodynamic scales, cascading down to kinetic scales. For the first time, I investigate how preexisting turbulence affects electron acceleration at nonrelativistic shocks using the fully kinetic approach. To accomplish this, I developed a novel simulation framework that allows the study of shocks propagating in turbulent media. It involves simulating slabs of turbulent plasma separately, which are further continuously inserted into a shock simulation. This demands matching of the plasma slabs at the interface. A new procedure of matching electromagnetic fields and currents prevents numerical transients, and the plasma evolves self-consistently. The versatility of this framework has the potential to render simulations more consistent with turbulent systems in various astrophysical environments. In this Thesis, I present the results of 2D3V PIC simulations of high-Mach-number nonrelativistic shocks with preexisting compressive turbulence in an electron-ion plasma. The chosen amplitudes of the density fluctuations (\$\lesssim15\\%\$) concord with \textit{in situ} measurements in the heliosphere and the local interstellar medium. I explored how these fluctuations impact the dynamics of upstream electrons, the driving of the plasma instabilities, electron heating and acceleration. My results indicate that while the presence of the turbulence enhances variations in the upstream magnetic field, their levels remain too low to influence the behavior of electrons at perpendicular shocks significantly. However, the situation is different at oblique shocks. The external magnetic field inclined at an angle between \$50^\circ \lesssim \theta_\text{Bn} \lesssim 75^\circ\$ relative to the shock normal allows the escape of fast electrons toward the upstream region. An extended electron foreshock region is formed, where these particles drive various instabilities. Results of an oblique shock with \$\theta_\text{Bn}=60^\circ\$ propagating in preexisting compressive turbulence show that the foreshock becomes significantly shorter, and the shock-reflected electrons have higher temperatures. Furthermore, the energy spectrum of downstream electrons shows a well-pronounced nonthermal tail that follows a power law with an index up to -2.3. The methods and results presented in this Thesis could serve as a starting point for more realistic modeling of interactions between shocks and turbulence in plasmas from first principles.}, language = {en} } @phdthesis{Ghahremani2024, author = {Ghahremani, Sona}, title = {Incremental self-adaptation of dynamic architectures attaining optimality and scalability}, doi = {10.25932/publishup-62423}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-624232}, school = {Universit{\"a}t Potsdam}, pages = {xii, 285}, year = {2024}, abstract = {The landscape of software self-adaptation is shaped in accordance with the need to cost-effectively achieve and maintain (software) quality at runtime and in the face of dynamic operation conditions. Optimization-based solutions perform an exhaustive search in the adaptation space, thus they may provide quality guarantees. However, these solutions render the attainment of optimal adaptation plans time-intensive, thereby hindering scalability. Conversely, deterministic rule-based solutions yield only sub-optimal adaptation decisions, as they are typically bound by design-time assumptions, yet they offer efficient processing and implementation, readability, expressivity of individual rules supporting early verification. Addressing the quality-cost trade-of requires solutions that simultaneously exhibit the scalability and cost-efficiency of rulebased policy formalism and the optimality of optimization-based policy formalism as explicit artifacts for adaptation. Utility functions, i.e., high-level specifications that capture system objectives, support the explicit treatment of quality-cost trade-off. Nevertheless, non-linearities, complex dynamic architectures, black-box models, and runtime uncertainty that makes the prior knowledge obsolete are a few of the sources of uncertainty and subjectivity that render the elicitation of utility non-trivial. This thesis proposes a twofold solution for incremental self-adaptation of dynamic architectures. First, we introduce Venus, a solution that combines in its design a ruleand an optimization-based formalism enabling optimal and scalable adaptation of dynamic architectures. Venus incorporates rule-like constructs and relies on utility theory for decision-making. Using a graph-based representation of the architecture, Venus captures rules as graph patterns that represent architectural fragments, thus enabling runtime extensibility and, in turn, support for dynamic architectures; the architecture is evaluated by assigning utility values to fragments; pattern-based definition of rules and utility enables incremental computation of changes on the utility that result from rule executions, rather than evaluating the complete architecture, which supports scalability. Second, we introduce HypeZon, a hybrid solution for runtime coordination of multiple off-the-shelf adaptation policies, which typically offer only partial satisfaction of the quality and cost requirements. Realized based on meta-self-aware architectures, HypeZon complements Venus by re-using existing policies at runtime for balancing the quality-cost trade-off. The twofold solution of this thesis is integrated in an adaptation engine that leverages state- and event-based principles for incremental execution, therefore, is scalable for large and dynamic software architectures with growing size and complexity. The utility elicitation challenge is resolved by defining a methodology to train utility-change prediction models. The thesis addresses the quality-cost trade-off in adaptation of dynamic software architectures via design-time combination (Venus) and runtime coordination (HypeZon) of rule- and optimization-based policy formalisms, while offering supporting mechanisms for optimal, cost-effective, scalable, and robust adaptation. The solutions are evaluated according to a methodology that is obtained based on our systematic literature review of evaluation in self-healing systems; the applicability and effectiveness of the contributions are demonstrated to go beyond the state-of-the-art in coverage of a wide spectrum of the problem space for software self-adaptation.}, language = {en} } @phdthesis{GostkowskaLekner2024, author = {Gostkowska-Lekner, Natalia Katarzyna}, title = {Organic-inorganic hybrids based on P3HT and mesoporous silicon for thermoelectric applications}, doi = {10.25932/publishup-62047}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-620475}, school = {Universit{\"a}t Potsdam}, pages = {121}, year = {2024}, abstract = {This thesis presents a comprehensive study on synthesis, structure and thermoelectric transport properties of organic-inorganic hybrids based on P3HT and porous silicon. The effect of embedding polymer in silicon pores on the electrical and thermal transport is studied. Morphological studies confirm successful polymer infiltration and diffusion doping with roughly 50\% of the pore space occupied by conjugated polymer. Synchrotron diffraction experiments reveal no specific ordering of the polymer inside the pores. P3HT-pSi hybrids show improved electrical transport by five orders of magnitude compared to porous silicon and power factor values comparable or exceeding other P3HT-inorganic hybrids. The analysis suggests different transport mechanisms in both materials. In pSi, the transport mechanism relates to a Meyer-Neldel compansation rule. The analysis of hybrids' data using the power law in Kang-Snyder model suggests that a doped polymer mainly provides charge carriers to the pSi matrix, similar to the behavior of a doped semiconductor. Heavily suppressed thermal transport in porous silicon is treated with a modified Landauer/Lundstrom model and effective medium theories, which reveal that pSi agrees well with the Kirkpatrick model with a 68\% percolation threshold. Thermal conductivities of hybrids show an increase compared to the empty pSi but the overall thermoelectric figure of merit ZT of P3HT-pSi hybrid exceeds both pSi and P3HT as well as bulk Si.}, language = {en} } @phdthesis{Grohmann2024, author = {Grohmann, Nils-Hendrik}, title = {Strengthening the UN Human Rights Treaty Bodies}, series = {Jus Internationale et Europaeum}, journal = {Jus Internationale et Europaeum}, number = {202}, publisher = {Mohr Siebeck}, address = {T{\"u}bingen}, isbn = {978-3-16-162825-2}, issn = {1861-1893}, doi = {10.1628/978-3-16-162826-9}, pages = {XV, 315}, year = {2024}, abstract = {Nils-Hendrik Grohmann besch{\"a}ftigt sich mit dem noch andauernden St{\"a}rkungsprozess der UN-Menschenrechtsvertragsorgane. Er analysiert, welche rechtlichen Befugnisse die Aussch{\"u}sse haben, ob sie von sich aus Vorschl{\"a}ge einbringen k{\"o}nnen und inwieweit sie ihre Verfahrensweisen bisher aufeinander abgestimmt haben. Ein weiterer Schwerpunkt liegt auf der Zusammenarbeit zwischen den verschiedenen Aussch{\"u}ssen und der Frage, welche Rolle das Treffen der Vorsitzenden bei der St{\"a}rkung spielen kann.}, language = {en} } @phdthesis{Hagemann2024, author = {Hagemann, Justus}, title = {On the molecular evolution of sengis (Macroscelidea)}, doi = {10.25932/publishup-64197}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-641975}, school = {Universit{\"a}t Potsdam}, pages = {xiii, 144}, year = {2024}, abstract = {This thesis focuses on the molecular evolution of Macroscelidea, commonly referred to as sengis. Sengis are a mammalian order belonging to the Afrotherians, one of the four major clades of placental mammals. Sengis currently consist of twenty extant species, all of which are endemic to the African continent. They can be separated in two families, the soft-furred sengis (Macroscelididae) and the giant sengis (Rhynchocyonidae). While giant sengis can be exclusively found in forest habitats, the different soft-furred sengi species dwell in a broad range of habitats, from tropical rain-forests to rocky deserts. Our knowledge on the evolutionary history of sengis is largely incomplete. The high level of superficial morphological resemblance among different sengi species (especially the soft-furred sengis) has for example led to misinterpretations of phylogenetic relationships, based on morphological characters. With the rise of DNA based taxonomic inferences, multiple new genera were defined and new species described. Yet, no full taxon molecular phylogeny exists, hampering the answering of basic taxonomic questions. This lack of knowledge can be to some extent attributed to the limited availability of fresh-tissue samples for DNA extraction. The broad African distribution, partly in political unstable regions and low population densities complicate contemporary sampling approaches. Furthermore, the DNA information available usually covers only short stretches of the mitochondrial genome and thus a single genetic locus with limited informational content. Developments in DNA extraction and library protocols nowadays offer the opportunity to access DNA from museum specimens, collected over the past centuries and stored in natural history museums throughout the world. Thus, the difficulties in fresh-sample acquisition for molecular biological studies can be overcome by the application of museomics, the research field which emerged from those laboratory developments. This thesis uses fresh-tissue samples as well as a vast collection museum specimens to investigate multiple aspects about the macroscelidean evolutionary history. Chapter 4 of this thesis focuses on the phylogenetic relationships of all currently known sengi species. By accessing DNA information from museum specimens in combination of fresh tissue samples and publicly available genetic resources it produces the first full taxon molecular phylogeny of sengis. It confirms the monophyly of the genus Elephantulus and discovers multiple deeply divergent lineages within different species, highlighting the need for species specific approaches. The study furthermore focuses on the evolutionary time frame of sengis by evaluating the impact of commonly varied parameters on tree dating. The results of the study show, that the mitochondrial information used in previous studies to temporal calibrate the Macroscelidean phylogeny led to an overestimation of node ages within sengis. Especially soft-furred sengis are thus much younger than previously assumed. The refined knowledge of nodes ages within sengis offer the opportunity to link e.g. speciation events to environmental changes. Chapter 5 focuses on the genus Petrodromus with its single representative Petrodromus tetradactylus. It again exploits the opportunities of museomics and gathers a comprehensive, multi-locus genetic dataset of P. tetradactylus individuals, distributed across most the known range of this species. It reveals multiple deeply divergent lineages within Petrodromus, whereby some could possibly be associated to previously described sub-species, at least one was formerly unknown. It underscores the necessity for a revision of the genus Petrodromus through the integration of both molecular and morphological evidence. The study, furthermore identifies changing forest distributions through climatic oscillations as main factor shaping the genetic structure of Petrodromus. Chapter 6 uses fresh tissue samples to extent the genomic resources of sengis by thirteen new nuclear genomes, of which two were de-novo assembled. An extensive dataset of more than 8000 protein coding one-to-one orthologs allows to further refine and confirm the temporal time frame of sengi evolution found in Chapter 4. This study moreover investigates the role of gene-flow and incomplete lineage sorting (ILS) in sengi evolution. In addition it identifies clade specific genes of possible outstanding evolutionary importance and links them to potential phenotypic traits affected. A closer investigation of olfactory receptor proteins reveals clade specific differences. A comparison of the demographic past of sengis to other small African mammals does not reveal a sengi specific pattern.}, language = {en} } @phdthesis{Halfpap2024, author = {Halfpap, Stefan}, title = {Integer linear programming-based heuristics for partially replicated database clusters and selecting indexes}, doi = {10.25932/publishup-63361}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-633615}, school = {Universit{\"a}t Potsdam}, pages = {iii, 185}, year = {2024}, abstract = {Column-oriented database systems can efficiently process transactional and analytical queries on a single node. However, increasing or peak analytical loads can quickly saturate single-node database systems. Then, a common scale-out option is using a database cluster with a single primary node for transaction processing and read-only replicas. Using (the naive) full replication, queries are distributed among nodes independently of the accessed data. This approach is relatively expensive because all nodes must store all data and apply all data modifications caused by inserts, deletes, or updates. In contrast to full replication, partial replication is a more cost-efficient implementation: Instead of duplicating all data to all replica nodes, partial replicas store only a subset of the data while being able to process a large workload share. Besides lower storage costs, partial replicas enable (i) better scaling because replicas must potentially synchronize only subsets of the data modifications and thus have more capacity for read-only queries and (ii) better elasticity because replicas have to load less data and can be set up faster. However, splitting the overall workload evenly among the replica nodes while optimizing the data allocation is a challenging assignment problem. The calculation of optimized data allocations in a partially replicated database cluster can be modeled using integer linear programming (ILP). ILP is a common approach for solving assignment problems, also in the context of database systems. Because ILP is not scalable, existing approaches (also for calculating partial allocations) often fall back to simple (e.g., greedy) heuristics for larger problem instances. Simple heuristics may work well but can lose optimization potential. In this thesis, we present optimal and ILP-based heuristic programming models for calculating data fragment allocations for partially replicated database clusters. Using ILP, we are flexible to extend our models to (i) consider data modifications and reallocations and (ii) increase the robustness of allocations to compensate for node failures and workload uncertainty. We evaluate our approaches for TPC-H, TPC-DS, and a real-world accounting workload and compare the results to state-of-the-art allocation approaches. Our evaluations show significant improvements for varied allocation's properties: Compared to existing approaches, we can, for example, (i) almost halve the amount of allocated data, (ii) improve the throughput in case of node failures and workload uncertainty while using even less memory, (iii) halve the costs of data modifications, and (iv) reallocate less than 90\% of data when adding a node to the cluster. Importantly, we can calculate the corresponding ILP-based heuristic solutions within a few seconds. Finally, we demonstrate that the ideas of our ILP-based heuristics are also applicable to the index selection problem.}, language = {en} } @phdthesis{Hammel2024, author = {Hammel, Alexander}, title = {Establishing the red microalga Porphyridium purpureum as a novel platform for the production of recombinant proteins}, doi = {10.25932/publishup-63270}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-632709}, school = {Universit{\"a}t Potsdam}, pages = {ix, 159}, year = {2024}, abstract = {Microalgae have been recognized as a promising green production platform for recombinant proteins. The majority of studies on recombinant protein expression have been conducted in the green microalga C. reinhardtii. While promising improvement regarding nuclear transgene expression in this alga has been made, it is still inefficient due to epigenetic silencing, often resulting in low yields that are not competitive with other expressor organisms. Other microalgal species might be better suited for high-level protein expression, but are limited in their availability of molecular tools. The red microalga Porphyridium purpureum recently emerged as candidate for the production of recombinant proteins. It is promising in that transformation vectors are episomally maintained as autonomously replicating plasmids in the nucleus at a high copy number, thus leading to high expression values in this red alga. In this work, we expand the genetic tools for P. purpureum and investigate parameters that govern efficient transgene expression. We provide an improved transformation protocol to streamline the generation of transgenic lines in this organism. After being able to efficiently generate transgenic lines, we showed that codon usage is a main determinant of high-level transgene expression, not only at the protein level but also at the level of mRNA accumulation. The optimized expression constructs resulted in YFP accumulation up to an unprecedented 5\% of the total soluble protein. Furthermore, we designed new constructs conferring efficient transgene expression into the culture medium, simplifying purification and harvests of recombinant proteins. To further improve transgene expression, we tested endogenous promoters driving the most highly transcribed genes in P. purpureum and found minor increase of YFP accumulation. We employed the previous findings to express complex viral antigens from the hepatitis B virus and the hepatitis C virus in P. purpureum to demonstrate its feasibility as producer of biopharmaceuticals. The viral glycoproteins were successfully produced to high levels and could reach their native confirmation, indicating a functional glycosylation machinery and an appropriate folding environment in this red alga. We could successfully upscale the biomass production of transgenic lines and with that provide enough material for immunization trials in mice that were performed in collaboration. These trials showed no toxicity of neither the biomass nor the purified antigens, and, additionally, the algal-produced antigens were able to elicit a strong and specific immune response. The results presented in this work pave the way for P. purpureum as a new promising producer organism for biopharmaceuticals in the microalgal field.}, language = {en} } @phdthesis{Harbart2024, author = {Harbart, Vanessa}, title = {The effect of protected cultivation on the nutritional quality of lettuce (Lactuca sativa var capitata L.) with a focus on antifogging additives in polyolefin covers}, doi = {10.25932/publishup-62937}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-629375}, school = {Universit{\"a}t Potsdam}, pages = {IV, 115}, year = {2024}, abstract = {Protected cultivation in greenhouses or polytunnels offers the potential for sustainable production of high-yield, high-quality vegetables. This is related to the ability to produce more on less land and to use resources responsibly and efficiently. Crop yield has long been considered the most important factor. However, as plant-based diets have been proposed for a sustainable food system, the targeted enrichment of health-promoting plant secondary metabolites should be addressed. These metabolites include carotenoids and flavonoids, which are associated with several health benefits, such as cardiovascular health and cancer protection. Cover materials generally have an influence on the climatic conditions, which in turn can affect the levels of secondary metabolites in vegetables grown underneath. Plastic materials are cost-effective and their properties can be modified by incorporating additives, making them the first choice. However, these additives can migrate and leach from the material, resulting in reduced service life, increased waste and possible environmental release. Antifogging additives are used in agricultural films to prevent the formation of droplets on the film surface, thereby increasing light transmission and preventing microbiological contamination. This thesis focuses on LDPE/EVA covers and incorporated antifogging additives for sustainable protected cultivation, following two different approaches. The first addressed the direct effects of leached antifogging additives using simulation studies on lettuce leaves (Lactuca sativa var capitata L). The second determined the effect of antifog polytunnel covers on lettuce quality. Lettuce is usually grown under protective cover and can provide high nutritional value due to its carotenoid and flavonoid content, depending on the cultivar. To study the influence of simulated leached antifogging additives on lettuce leaves, a GC-MS method was first developed to analyze these additives based on their fatty acid moieties. Three structurally different antifogging additives (reference material) were characterized outside of a polymer matrix for the first time. All of them contained more than the main fatty acid specified by the manufacturer. Furthermore, they were found to adhere to the leaf surface and could not be removed by water or partially by hexane. The incorporation of these additives into polytunnel covers affects carotenoid levels in lettuce, but not flavonoids, caffeic acid derivatives and chlorophylls. Specifically, carotenoids were higher in lettuce grown under polytunnels without antifog than with antifog. This has been linked to their effect on the light regime and was suggested to be related to carotenoid function in photosynthesis. In terms of protected cultivation, the use of LDPE/EVA polytunnels affected light and temperature, and both are closely related. The carotenoid and flavonoid contents of lettuce grown under polytunnels was reversed, with higher carotenoid and lower flavonoid levels. At the individual level, the flavonoids detected in lettuce did not differ however, lettuce carotenoids adapted specifically depending on the time of cultivation. Flavonoid reduction was shown to be transcriptionally regulated (CHS) in response to UV light (UVR8). In contrast, carotenoids are thought to be regulated post-transcriptionally, as indicated by the lack of correlation between carotenoid levels and transcripts of the first enzyme in carotenoid biosynthesis (PSY) and a carotenoid degrading enzyme (CCD4), as well as the increased carotenoid metabolic flux. Understanding the regulatory mechanisms and metabolite adaptation strategies could further advance the strategic development and selection of cover materials.}, language = {en} } @phdthesis{Hartmann2024, author = {Hartmann, Anne}, title = {Tracing the evolution of hillslope structure and hillslope hydrological response over ten millennia in two glacial forefields of different geology}, doi = {10.25932/publishup-62862}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-628629}, school = {Universit{\"a}t Potsdam}, pages = {XVIII, 138, XLIV}, year = {2024}, abstract = {Assessing the impact of global change on hydrological systems is one of the greatest hydrological challenges of our time. Changes in land cover, land use, and climate have an impact on water quantity, quality, and temporal availability. There is a widespread consensus that, given the far-reaching effects of global change, hydrological systems can no longer be viewed as static in their structure; instead, they must be regarded as entire ecosystems, wherein hydrological processes interact and coevolve with biological, geomorphological, and pedological processes. To accurately predict the hydrological response under the impact of global change, it is essential to understand this complex coevolution. The knowledge of how hydrological processes, in particular the formation of subsurface (preferential) flow paths, evolve within this coevolution and how they feed back to the other processes is still very limited due to a lack of observational data. At the hillslope scale, this intertwined system of interactions is known as the hillslope feedback cycle. This thesis aims to enhance our understanding of the hillslope feedback cycle by studying the coevolution of hillslope structure and hillslope hydrological response. Using chronosequences of moraines in two glacial forefields developed from siliceous and calcareous glacial till, the four studies shed light on the complex coevolution of hydrological, biological, and structural hillslope properties, as well as subsurface hydrological flow paths over an evolutionary period of 10 millennia in these two contrasting geologies. The findings indicate that the contrasting properties of siliceous and calcareous parent materials lead to variations in soil structure, permeability, and water storage. As a result, different plant species and vegetation types are favored on siliceous versus calcareous parent material, leading to diverse ecosystems with distinct hydrological dynamics. The siliceous parent material was found to show a higher activity level in driving the coevolution. The soil pH resulting from parent material weathering emerges as a crucial factor, influencing vegetation development, soil formation, and consequently, hydrology. The acidic weathering of the siliceous parent material favored the accumulation of organic matter, increasing the soils' water storage capacity and attracting acid-loving shrubs, which further promoted organic matter accumulation and ultimately led to podsolization after 10 000 years. Tracer experiments revealed that the subsurface flow path evolution was influenced by soil and vegetation development, and vice versa. Subsurface flow paths changed from vertical, heterogeneous matrix flow to finger-like flow paths over a few hundred years, evolving into macropore flow, water storage, and lateral subsurface flow after several thousand years. The changes in flow paths among younger age classes were driven by weathering processes altering soil structure, as well as by vegetation development and root activity. In the older age class, the transition to more water storage and lateral flow was attributed to substantial organic matter accumulation and ongoing podsolization. The rapid vertical water transport in the finger-like flow paths, along with the conductive sandy material, contributed to podsolization and thus to the shift in the hillslope hydrological response. In contrast, the calcareous site possesses a high pH buffering capacity, creating a neutral to basic environment with relatively low accumulation of dead organic matter, resulting in a lower water storage capacity and the establishment of predominantly grass vegetation. The coevolution was found to be less dynamic over the millennia. Similar to the siliceous site, significant changes in subsurface flow paths occurred between the young age classes. However, unlike the siliceous site, the subsurface flow paths at the calcareous site only altered in shape and not in direction. Tracer experiments showed that flow paths changed from vertical, heterogeneous matrix flow to vertical, finger-like flow paths after a few hundred to thousands of years, which was driven by root activities and weathering processes. Despite having a finer soil texture, water storage at the calcareous site was significantly lower than at the siliceous site, and water transport remained primarily rapid and vertical, contributing to the flourishing of grass vegetation. The studies elucidated that changes in flow paths are predominantly shaped by the characteristics of the parent material and its weathering products, along with their complex interactions with initial water flow paths and vegetation development. Time, on the other hand, was not found to be a primary factor in describing the evolution of the hydrological response. This thesis makes a valuable contribution to closing the gap in the observations of the coevolution of hydrological processes within the hillslope feedback cycle, which is important to improve predictions of hydrological processes in changing landscapes. Furthermore, it emphasizes the importance of interdisciplinary studies in addressing the hydrological challenges arising from global change.}, language = {en} } @phdthesis{Haskamp2024, author = {Haskamp, Thomas}, title = {Products design organizations}, doi = {10.25932/publishup-64695}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-646954}, school = {Universit{\"a}t Potsdam}, pages = {IX, 148}, year = {2024}, abstract = {The automotive industry is a prime example of digital technologies reshaping mobility. Connected, autonomous, shared, and electric (CASE) trends lead to new emerging players that threaten existing industrial-aged companies. To respond, incumbents need to bridge the gap between contrasting product architecture and organizational principles in the physical and digital realms. Over-the-air (OTA) technology, that enables seamless software updates and on-demand feature additions for customers, is an example of CASE-driven digital product innovation. Through an extensive longitudinal case study of an OTA initiative by an industrial- aged automaker, this dissertation explores how incumbents accomplish digital product innovation. Building on modularity, liminality, and the mirroring hypothesis, it presents a process model that explains the triggers, mechanisms, and outcomes of this process. In contrast to the literature, the findings emphasize the primacy of addressing product architecture challenges over organizational ones and highlight the managerial implications for success.}, language = {en} } @phdthesis{Heckenbach2024, author = {Heckenbach, Esther Lina}, title = {Geodynamic modeling of process interactions at continental plate boundaries}, doi = {10.25932/publishup-64750}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-647500}, school = {Universit{\"a}t Potsdam}, pages = {127}, year = {2024}, abstract = {Plate tectonic boundaries constitute the suture zones between tectonic plates. They are shaped by a variety of distinct and interrelated processes and play a key role in geohazards and georesource formation. Many of these processes have been previously studied, while many others remain unaddressed or undiscovered. In this work, the geodynamic numerical modeling software ASPECT is applied to shed light on further process interactions at continental plate boundaries. In contrast to natural data, geodynamic modeling has the advantage that processes can be directly quantified and that all parameters can be analyzed over the entire evolution of a structure. Furthermore, processes and interactions can be singled out from complex settings because the modeler has full control over all of the parameters involved. To account for the simplifying character of models in general, I have chosen to study generic geological settings with a focus on the processes and interactions rather than precisely reconstructing a specific region of the Earth. In Chapter 2, 2D models of continental rifts with different crustal thicknesses between 20 and 50 km and extension velocities in the range of 0.5-10 mm/yr are used to obtain a speed limit for the thermal steady-state assumption, commonly employed to address the temperature fields of continental rifts worldwide. Because the tectonic deformation from ongoing rifting outpaces heat conduction, the temperature field is not in equilibrium, but is characterized by a transient, tectonically-induced heat flow signal. As a result, I find that isotherm depths of the geodynamic evolution models are shallower than a temperature distribution in equilibrium would suggest. This is particularly important for deep isotherms and narrow rifts. In narrow rifts, the magnitude of the transient temperature signal limits a well-founded applicability of the thermal steady-state assumption to extension velocities of 0.5-2 mm/yr. Estimation of the crustal temperature field affects conclusions on all temperature-dependent processes ranging from mineral assemblages to the feasible exploitation of a geothermal reservoir. In Chapter 3, I model the interactions of different rheologies with the kinematics of folding and faulting using the example of fault-propagation folds in the Andean fold-and-thrust belt. The evolution of the velocity fields from geodynamic models are compared with those from trishear models of the same structure. While the latter use only geometric and kinematic constraints of the main fault, the geodynamic models capture viscous, plastic, and elastic deformation in the entire model domain. I find that both models work equally well for early, and thus relatively simple stages of folding and faulting, while results differ for more complex situations where off-fault deformation and secondary faulting are present. As fault-propagation folds can play an important role in the formation of reservoirs, knowledge of fluid pathways, for example via fractures and faults, is crucial for their characterization. Chapter 4 deals with a bending transform fault and the interconnections between tectonics and surface processes. In particular, the tectonic evolution of the Dead Sea Fault is addressed where a releasing bend forms the Dead Sea pull-apart basin, while a restraining bend further to the North resulted in the formation of the Lebanese mountains. I ran 3D coupled geodynamic and surface evolution models that included both types of bends in a single setup. I tested various randomized initial strain distributions, showing that basin asymmetry is a consequence of strain localization. Furthermore, by varying the surface process efficiency, I find that the deposition of sediment in the pull-apart basin not only controls basin depth, but also results in a crustal flow component that increases uplift at the restraining bend. Finally, in Chapter 5, I present the computational basis for adding further complexity to plate boundary models in ASPECT with the implementation of earthquake-like behavior using the rate-and-state friction framework. Despite earthquakes happening on a relatively small time scale, there are many interactions between the seismic cycle and the long time spans of other geodynamic processes. Amongst others, the crustal state of stress as well as the presence of fluids or changes in temperature may alter the frictional behavior of a fault segment. My work provides the basis for a realistic setup of involved structures and processes, which is therefore important to obtain a meaningful estimate for earthquake hazards. While these findings improve our understanding of continental plate boundaries, further development of geodynamic software may help to reveal even more processes and interactions in the future.}, language = {en} } @phdthesis{Hegener2024, author = {Hegener, Wolfgang}, title = {In the beginning was the scripture}, doi = {10.25932/publishup-61882}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-618827}, school = {Universit{\"a}t Potsdam}, pages = {406}, year = {2024}, abstract = {Sigmund Freud, der Begr{\"u}nder der Psychoanalyse, hat sein intellektuelles Leben mit der J{\"u}dischen Bibel begonnen und es zugleich mit ihr auch beendet. Am Anfang stand die gemeinsame Lekt{\"u}re in der Philippson-Bibel vor allem mit seinem Vater Jacob Freud und am Ende seine Besch{\"a}ftigung mit der Figur des Mose. Die vorliegende Arbeit geht den Spuren dieser Besch{\"a}ftigung systematisch nach und zeigt, dass die J{\"u}dische Bibel f{\"u}r Freud ein konstanter Bezug war und seine j{\"u}dische Identit{\"a}t bestimmt hat. Dies wird anhand der Analyse von Familiendokumenten, des Religionsunterrichts sowie der Bezugnahme auf die Bibel in Freuds Schriften und Korrespondenzen gezeigt.}, language = {en} } @phdthesis{Hempel2024, author = {Hempel, Elisabeth}, title = {Resolving the evolutionary history of two hippotragin antelopes using archival and ancient DNA}, doi = {10.25932/publishup-64771}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-647718}, school = {Universit{\"a}t Potsdam}, pages = {xii, 224}, year = {2024}, abstract = {African antelopes are iconic but surprisingly understudied in terms of their genetics, especially when it comes to their evolutionary history and genetic diversity. The age of genomics provides an opportunity to investigate evolution using whole nuclear genomes. Decreasing sequencing costs enable the recovery of multiple loci per genome, giving more power to single specimen analyses and providing higher resolution insights into species and populations that can help guide conservation efforts. This age of genomics has only recently begun for African antelopes. Many African bovids have a declining population trend and hence, are often endangered. Consequently, contemporary samples from the wild are often hard to collect. In these cases, ex situ samples from contemporary captive populations or in the form of archival or ancient DNA (aDNA) from historical museum or archaeological/paleontological specimens present a great research opportunity with the latter two even offering a window to information about the past. However, the recovery of aDNA is still considered challenging from regions with prevailing climatic conditions that are deemed adverse for DNA preservation like the African continent. This raises the question if DNA recovery from fossils as old as the early Holocene from these regions is possible. This thesis focuses on investigating the evolutionary history and genetic diversity of two species: the addax (Addax nasomaculatus) and the blue antelope (Hippotragus leucophaeus). The addax is critically endangered and might even already be extinct in the wild, while the blue antelope became extinct ~1800 AD, becoming the first extinct large African mammal species in historical times. Together, the addax and the blue antelope can inform us about current and past extinction events and the knowledge gained can help guide conservation efforts of threatened species. The three studies used ex situ samples and present the first nuclear whole genome data for both species. The addax study used historical museum specimens and a contemporary sample from a captive population. The two studies on the blue antelope used mainly historical museum specimens but also fossils, and resulted in the recovery of the oldest paleogenome from Africa at that time. The aim of the first study was to assess the genetic diversity and the evolutionary history of the addax. It found that the historical wild addax population showed only limited phylogeographic structuring, indicating that the addax was a highly mobile and panmictic population and suggesting that the current European captive population might be missing the majority of the historical mitochondrial diversity. It also found the nuclear and mitochondrial diversity in the addax to be rather low compared to other wild ungulate species. Suggestions on how to best save the remaining genetic diversity are presented. The European zoo population was shown to exhibit no or only minor levels of inbreeding, indicating good prospects for the restoration of the species in the wild. The trajectory of the addax's effective population size indicated a major bottleneck in the late Pleistocene and a low effective population size well before recent human impact led to the species being critically endangered today. The second study set out to investigate the identities of historical blue antelope specimens using aDNA techniques. Results showed that six out of ten investigated specimens were misidentified, demonstrating the blue antelope to be one of the scarcest mammal species in historical natural history collections, with almost no bone reference material. The preliminary analysis of the mitochondrial genomes suggested a low diversity and hence low population size at the time of the European colonization of southern Africa. Study three presents the results of the analyses of two blue antelope nuclear genomes, one ~200 years old and another dating to the early Holocene, 9,800-9,300 cal years BP. A fossil-calibrated phylogeny dated the divergence time of the three historically extant Hippotragus species to ~2.86 Ma and demonstrated the blue and the sable antelope (H. niger) to be sister species. In addition, ancient gene flow from the roan (H. equinus) into the blue antelope was detected. A comparison with the roan and the sable antelope indicated that the blue antelope had a much lower nuclear diversity, suggesting a low population size since at least the early Holocene. This concurs with findings from the fossil record that show a considerable decline in abundance after the Pleistocene-Holocene transition. Moreover, it suggests that the blue antelope persisted throughout the Holocene regardless of a low population size, indicating that human impact in the colonial era was a major factor in the blue antelope's extinction. This thesis uses aDNA analyses to provide deeper insights into the evolutionary history and genetic diversity of the addax and the blue antelope. Human impact likely was the main driver of extinction in the blue antelope, and is likely the main factor threatening the addax today. This thesis demonstrates the value of ex situ samples for science and conservation, and suggests to include genetic data for conservation assessments of species. It further demonstrates the beneficial use of aDNA for the taxonomic identification of historically important specimens in natural history collections. Finally, the successful retrieval of a paleogenome from the early Holocene of Africa using shotgun sequencing shows that DNA retrieval from samples of that age is possible from regions generally deemed unfavorable for DNA preservation, opening up new research opportunities. All three studies enhance our knowledge of African antelopes, contributing to the general understanding of African large mammal evolution and to the conservation of these and similarly threatened species.}, language = {en} } @phdthesis{Henning2024, author = {Henning, Thorsten}, title = {Cross-sectional associations of dietary biomarker patterns with health and nutritional status}, school = {Universit{\"a}t Potsdam}, pages = {111}, year = {2024}, language = {en} } @phdthesis{Hippel2024, author = {Hippel, Barbara von}, title = {Long-term bacteria-fungi-plant associations in permafrost soils inferred from palaeometagenomics}, doi = {10.25932/publishup-63600}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-636009}, school = {Universit{\"a}t Potsdam}, pages = {xii, 198}, year = {2024}, abstract = {The arctic is warming 2 - 4 times faster than the global average, resulting in a strong feedback on northern ecosystems such as boreal forests, which cover a vast area of the high northern latitudes. With ongoing global warming, the treeline subsequently migrates northwards into tundra areas. The consequences of turning ecosystems are complex: on the one hand, boreal forests are storing large amounts of global terrestrial carbon and act as a carbon sink, dragging carbon dioxide out of the global carbon cycle, suggesting an enhanced carbon uptake with increased tree cover. On the other hand, with the establishment of trees, the albedo effect of tundra decreases, leading to enhanced soil warming. Meanwhile, permafrost thaws, releasing large amounts of previously stored carbon into the atmosphere. So far, mainly vegetation dynamics have been assessed when studying the impact of warming onto ecosystems. Most land plants are living in close symbiosis with bacterial and fungal communities, sustaining their growth in nutrient poor habitats. However, the impact of climate change on these subsoil communities alongside changing vegetation cover remains poorly understood. Therefore, a better understanding of soil community dynamics on multi millennial timescales is inevitable when addressing the development of entire ecosystems. Unravelling long-term cross-kingdom dependencies between plant, fungi, and bacteria is not only a milestone for the assessment of warming on boreal ecosystems. On top, it also is the basis for agriculture strategies to sustain society with sufficient food in a future warming world. The first objective of this thesis was to assess ancient DNA as a proxy for reconstructing the soil microbiome (Manuscripts I, II, III, IV). Research findings across these projects enable a comprehensive new insight into the relationships of soil microorganisms to the surrounding vegetation. First, this was achieved by establishing (Manuscript I) and applying (Manuscript II) a primer pair for the selective amplification of ancient fungal DNA from lake sediment samples with the metabarcoding approach. To assess fungal and plant co-variation, the selected primer combination (ITS67, 5.8S) amplifying the ITS1 region was applied on samples from five boreal and arctic lakes. The obtained data showed that the establishment of fungal communities is impacted by warming as the functional ecological groups are shifting. Yeast and saprotroph dominance during the Late Glacial declined with warming, while the abundance of mycorrhizae and parasites increased with warming. The overall species richness was also alternating. The results were compared to shotgun sequencing data reconstructing fungi and bacteria (Manuscripts III, IV), yielding overall comparable results to the metabarcoding approach. Nonetheless, the comparison also pointed out a bias in the metabarcoding, potentially due to varying ITS lengths or copy numbers per genome. The second objective was to trace fungus-plant interaction changes over time (Manuscripts II, III). To address this, metabarcoding targeting the ITS1 region for fungi and the chloroplast P6 loop for plants for the selective DNA amplification was applied (Manuscript II). Further, shotgun sequencing data was compared to the metabarcoding results (Manuscript III). Overall, the results between the metabarcoding and the shotgun approaches were comparable, though a bias in the metabarcoding was assumed. We demonstrated that fungal shifts were coinciding with changes in the vegetation. Yeast and lichen were mainly dominant during the Late Glacial with tundra vegetation, while warming in the Holocene lead to the expansion of boreal forests with increasing mycorrhizae and parasite abundance. Aside, we highlighted that Pinaceae establishment is dependent on mycorrhizal fungi such as Suillineae, Inocybaceae, or Hyaloscypha species also on long-term scales. The third objective of the thesis was to assess soil community development on a temporal gradient (Manuscripts III, IV). Shotgun sequencing was applied on sediment samples from the northern Siberian lake Lama and the soil microbial community dynamics compared to ecosystem turnover. Alongside, podzolization processes from basaltic bedrock were recovered (Manuscript III). Additionally, the recovered soil microbiome was compared to shotgun data from granite and sandstone catchments (Manuscript IV, Appendix). We assessed if the establishment of the soil microbiome is dependent on the plant taxon and as such comparable between multiple geographic locations or if the community establishment is driven by abiotic soil properties and as such the bedrock area. We showed that the development of soil communities is to a great extent driven by the vegetation changes and temperature variation, while time only plays a minor role. The analyses showed general ecological similarities especially between the granite and basalt locations, while the microbiome on species-level was rather site-specific. A greater number of correlated soil taxa was detected for deep-rooting boreal taxa in comparison to grasses with shallower roots. Additionally, differences between herbaceous taxa of the late Glacial compared to taxa of the Holocene were revealed. With this thesis, I demonstrate the necessity to investigate subsoil community dynamics on millennial time scales as it enables further understanding of long-term ecosystem as well as soil development processes and such plant establishment. Further, I trace long-term processes leading to podzolization which supports the development of applied carbon capture strategies under future global warming.}, language = {en} } @phdthesis{Huegle2024, author = {Huegle, Johannes}, title = {Causal discovery in practice: Non-parametric conditional independence testing and tooling for causal discovery}, doi = {10.25932/publishup-63582}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-635820}, school = {Universit{\"a}t Potsdam}, pages = {xiv, 156}, year = {2024}, abstract = {Knowledge about causal structures is crucial for decision support in various domains. For example, in discrete manufacturing, identifying the root causes of failures and quality deviations that interrupt the highly automated production process requires causal structural knowledge. However, in practice, root cause analysis is usually built upon individual expert knowledge about associative relationships. But, "correlation does not imply causation", and misinterpreting associations often leads to incorrect conclusions. Recent developments in methods for causal discovery from observational data have opened the opportunity for a data-driven examination. Despite its potential for data-driven decision support, omnipresent challenges impede causal discovery in real-world scenarios. In this thesis, we make a threefold contribution to improving causal discovery in practice. (1) The growing interest in causal discovery has led to a broad spectrum of methods with specific assumptions on the data and various implementations. Hence, application in practice requires careful consideration of existing methods, which becomes laborious when dealing with various parameters, assumptions, and implementations in different programming languages. Additionally, evaluation is challenging due to the lack of ground truth in practice and limited benchmark data that reflect real-world data characteristics. To address these issues, we present a platform-independent modular pipeline for causal discovery and a ground truth framework for synthetic data generation that provides comprehensive evaluation opportunities, e.g., to examine the accuracy of causal discovery methods in case of inappropriate assumptions. (2) Applying constraint-based methods for causal discovery requires selecting a conditional independence (CI) test, which is particularly challenging in mixed discrete-continuous data omnipresent in many real-world scenarios. In this context, inappropriate assumptions on the data or the commonly applied discretization of continuous variables reduce the accuracy of CI decisions, leading to incorrect causal structures. Therefore, we contribute a non-parametric CI test leveraging k-nearest neighbors methods and prove its statistical validity and power in mixed discrete-continuous data, as well as the asymptotic consistency when used in constraint-based causal discovery. An extensive evaluation of synthetic and real-world data shows that the proposed CI test outperforms state-of-the-art approaches in the accuracy of CI testing and causal discovery, particularly in settings with low sample sizes. (3) To show the applicability and opportunities of causal discovery in practice, we examine our contributions in real-world discrete manufacturing use cases. For example, we showcase how causal structural knowledge helps to understand unforeseen production downtimes or adds decision support in case of failures and quality deviations in automotive body shop assembly lines.}, language = {en} } @phdthesis{Hussein2024, author = {Hussein, Mahmoud}, title = {Solvent engineering for highly-efficiency lead-free perovskite solar cells}, doi = {10.25932/publishup-63037}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-630375}, school = {Universit{\"a}t Potsdam}, pages = {137}, year = {2024}, abstract = {Global warming, driven primarily by the excessive emission of greenhouse gases such as carbon dioxide into the atmosphere, has led to severe and detrimental environmental impacts. Rising global temperatures have triggered a cascade of adverse effects, including melting glaciers and polar ice caps, more frequent and intense heat waves disrupted weather patterns, and the acidification of oceans. These changes adversely affect ecosystems, biodiversity, and human societies, threatening food security, water availability, and livelihoods. One promising solution to mitigate the harmful effects of global warming is the widespread adoption of solar cells, also known as photovoltaic cells. Solar cells harness sunlight to generate electricity without emitting greenhouse gases or other pollutants. By replacing fossil fuel-based energy sources, solar cells can significantly reduce CO2 emissions, a significant contributor to global warming. This transition to clean, renewable energy can help curb the increasing concentration of greenhouse gases in the atmosphere, thereby slowing down the rate of global temperature rise. Solar energy's positive impact extends beyond emission reduction. As solar panels become more efficient and affordable, they empower individuals, communities, and even entire nations to generate electricity and become less dependent on fossil fuels. This decentralized energy generation can enhance resilience in the face of climate-related challenges. Moreover, implementing solar cells creates green jobs and stimulates technological innovation, further promoting sustainable economic growth. As solar technology advances, its integration with energy storage systems and smart grids can ensure a stable and reliable energy supply, reducing the need for backup fossil fuel power plants that exacerbate environmental degradation. The market-dominant solar cell technology is silicon-based, highly matured technology with a highly systematic production procedure. However, it suffers from several drawbacks, such as: 1) Cost: still relatively high due to high energy consumption due to the need to melt and purify silicon, and the use of silver as an electrode, which hinders their widespread availability, especially in low-income countries. 2) Efficiency: theoretically, it should deliver around 29\%; however, the efficiency of most of the commercially available silicon-based solar cells ranges from 18 - 22\%. 3) Temperature sensitivity: The efficiency decreases with the increase in the temperature, affecting their output. 4) Resource constraints: silicon as a raw material is unavailable in all countries, creating supply chain challenges. Perovskite solar cells arose in 2011 and matured very rapidly in the last decade as a highly efficient and versatile solar cell technology. With an efficiency of 26\%, high absorption coefficients, solution processability, and tunable band gap, it attracted the attention of the solar cells community. It represented a hope for cheap, efficient, and easily processable next-generation solar cells. However, lead toxicity might be the block stone hindering perovskite solar cells' market reach. Lead is a heavy and bioavailable element that makes perovskite solar cells environmentally unfriendly technology. As a result, scientists try to replace lead with a more environmentally friendly element. Among several possible alternatives, tin was the most suitable element due to its electronic and atomic structure similarity to lead. Tin perovskites were developed to alleviate the challenge of lead toxicity. Theoretically, it shows very high absorption coefficients, an optimum band gap of 1.35 eV for FASnI3, and a very high short circuit current, which nominates it to deliver the highest possible efficiency of a single junction solar cell, which is around 30.1\% according to Schockly-Quisser limit. However, tin perovskites' efficiency still lags below 15\% and is irreproducible, especially from lab to lab. This humble performance could be attributed to three reasons: 1) Tin (II) oxidation to tin (IV), which would happen due to oxygen, water, or even by the effect of the solvent, as was discovered recently. 2) fast crystallization dynamics, which occurs due to the lateral exposure of the P-orbitals of the tin atom, which enhances its reactivity and increases the crystallization pace. 3) Energy band misalignment: The energy bands at the interfaces between the perovskite absorber material and the charge selective layers are not aligned, leading to high interfacial charge recombination, which devastates the photovoltaic performance. To solve these issues, we implemented several techniques and approaches that enhanced the efficiency of tin halide perovskites, providing new chemically safe solvents and antisolvents. In addition, we studied the energy band alignment between the charge transport layers and the tin perovskite absorber. Recent research has shown that the principal source of tin oxidation is the solvent known as dimethylsulfoxide, which also happens to be one of the most effective solvents for processing perovskite. The search for a stable solvent might prove to be the factor that makes all the difference in the stability of tin-based perovskites. We started with a database of over 2,000 solvents and narrowed it down to a series of 12 new solvents that are suitable for processing FASnI3 experimentally. This was accomplished by looking into 1) the solubility of the precursor chemicals FAI and SnI2, 2) the thermal stability of the precursor solution, and 3) the potential to form perovskite. Finally, we show that it is possible to manufacture solar cells using a novel solvent system that outperforms those produced using DMSO. The results of our research give some suggestions that may be used in the search for novel solvents or mixes of solvents that can be used to manufacture stable tin-based perovskites. Due to the quick crystallization of tin, it is more difficult to deposit tin-based perovskite films from a solution than manufacturing lead-based perovskite films since lead perovskite is more often utilized. The most efficient way to get high efficiencies is to deposit perovskite from dimethyl sulfoxide (DMSO), which slows down the quick construction of the tin-iodine network that is responsible for perovskite synthesis. This is the most successful approach for achieving high efficiencies. Dimethyl sulfoxide, which is used in the processing, is responsible for the oxidation of tin, which is a disadvantage of this method. This research presents a potentially fruitful alternative in which 4-(tert-butyl) pyridine can substitute dimethyl sulfoxide in the process of regulating crystallization without causing tin oxidation to take place. Perovskite films that have been formed from pyridine have been shown to have a much-reduced defect density. This has resulted in increased charge mobility and better photovoltaic performance, making pyridine a desirable alternative for use in the deposition of tin perovskite films. The precise control of perovskite precursor crystallization inside a thin film is of utmost importance for optimizing the efficiency and manufacturing of solar cells. The deposition process of tin-based perovskite films from a solution presents difficulties due to the quick crystallization of tin compared to the more often employed lead perovskite. The optimal approach for attaining elevated efficiencies entails using dimethyl sulfoxide (DMSO) as a medium for depositing perovskite. This choice of solvent impedes the tin-iodine network's fast aggregation, which plays a crucial role in the production of perovskite. Nevertheless, this methodology is limited since the utilization of dimethyl sulfoxide leads to the oxidation of tin throughout the processing stage. In this thesis, we present a potentially advantageous alternative approach wherein 4-(tert-butyl) pyridine is proposed as a substitute for dimethyl sulfoxide in regulating crystallization processes while avoiding the undesired consequence of tin oxidation. Films of perovskite formed using pyridine as a solvent have a notably reduced density of defects, resulting in higher mobility of charges and improved performance in solar applications. Consequently, the utilization of pyridine for the deposition of tin perovskite films is considered advantageous. Tin perovskites are suffering from an apparent energy band misalignment. However, the band diagrams published in the current body of research display contradictions, resulting in a dearth of unanimity. Moreover, comprehensive information about the dynamics connected with charge extraction is lacking. This thesis aims to ascertain the energy band locations of tin perovskites by employing the kelvin probe and Photoelectron yield spectroscopy methods. This thesis aims to construct a precise band diagram for the often-utilized device stack. Moreover, a comprehensive analysis is performed to assess the energy deficits inherent in the current energetic structure of tin halide perovskites. In addition, we investigate the influence of BCP on the improvement of electron extraction in C60/BCP systems, with a specific emphasis on the energy factors involved. Furthermore, transient surface photovoltage was utilized to investigate the charge extraction kinetics of frequently studied charge transport layers, such as NiOx and PEDOT as hole transport layers and C60, ICBA, and PCBM as electron transport layers. The Hall effect, KP, and TRPL approaches accurately ascertain the p-doping concentration in FASnI3. The results consistently demonstrated a value of 1.5 * 1017 cm-3. Our research findings highlight the imperative nature of autonomously constructing the charge extraction layers for tin halide perovskites, apart from those used for lead perovskites. The crystallization of perovskite precursors relies mainly on the utilization of two solvents. The first one dissolves the perovskite powder to form the precursor solution, usually called the solvent. The second one precipitates the perovskite precursor, forming the wet film, which is a supersaturated solution of perovskite precursor and in the remains of the solvent and the antisolvent. Later, this wet film crystallizes upon annealing into a full perovskite crystallized film. In our research context, we proposed new solvents to dissolve FASnI3, but when we tried to form a film, most of them did not crystallize. This is attributed to the high coordination strength between the metal halide and the solvent molecules, which is unbreakable by the traditionally used antisolvents such as Toluene and Chlorobenzene. To solve this issue, we introduce a high-throughput antisolvent screening in which we screened around 73 selected antisolvents against 15 solvents that can form a 1M FASnI3 solution. We used for the first time in tin perovskites machine learning algorithm to understand and predict the effect of an antisolvent on the crystallization of a precursor solution in a particular solvent. We relied on film darkness as a primary criterion to judge the efficacy of a solvent-antisolvent pair. We found that the relative polarity between solvent and antisolvent is the primary factor that affects the solvent-antisolvent interaction. Based on our findings, we prepared several high-quality tin perovskite films free from DMSO and achieved an efficiency of 9\%, which is the highest DMSO tin perovskite device so far.}, language = {en} } @phdthesis{Jahns2024, author = {Jahns, Esther}, title = {Diglossic translanguaging}, series = {Language and Social Life [LSL]}, volume = {33}, journal = {Language and Social Life [LSL]}, publisher = {de Gruyter Mouton}, address = {Berlin}, isbn = {978-3-11-132246-9}, doi = {10.1515/9783111322674}, school = {Universit{\"a}t Potsdam}, pages = {XI, 245}, year = {2024}, abstract = {This book examines how German-speaking Jews living in Berlin make sense and make use of their multilingual repertoire. With a focus on lexical variation, the book demonstrates how speakers integrate Yiddish and Hebrew elements into German for indexing belonging and for positioning themselves within the Jewish community. Linguistic choices are shaped by language ideologies (e.g., authenticity, prescriptivism, nostalgia). Speakers translanguage when using their multilingual repertoire, but do so in a diglossic way, using elements from different languages for specific domains}, language = {en} } @phdthesis{Karakas2024, author = {Karakas, Esra}, title = {High-resolution studies of epistasis in tomato metabolism}, school = {Universit{\"a}t Potsdam}, pages = {137}, year = {2024}, abstract = {The inclusion of exotic germplasm serves as a crucial means to enhance allelic and consequently phenotypic diversity in inbred crop species. Such species have experienced a reduction in diversity due to artificial selection focused on a limited set of traits. The natural biodiversity within ecosystems presents an opportunity to explore various traits influencing plant survival, reproductive fitness and yield potential. In agricultural research, the study of wild species closely related to cultivated plants serves as a means to comprehend the genetic foundations of past domestication events and the polymorphisms essential for future breeding efforts to develop superior varieties. In order to examine the metabolic composition, pinpoint quantitative trait loci (QTL) and facilitate their resolution an extensive large-scale analysis of metabolic QTL (mQTL) was conducted on tomato backcross inbred lines (BILs) derived from a cross between the wild species S. pennellii (5240) incorporated into the background of S. lycopersicum cv. LEA determinate inbred which can be grown in open fields and cv. TOP indeterminate which can be grown in greenhouse conditions. A large number of mQTL associated with primary secondary and lipid metabolism in fruit were identified across the two BIL populations. Epistasis, the interactions between genes at different loci, has been an interest in molecular and quantitative genetics for many decades. The study of epistasis requires the analysis of very large populations with multiple independent genotypes that carry specific genomic regions. In order to understand the genetic basis of tomato fruit metabolism, I extended the work to investigate epistatic interactions of the genomic regions. In addition, two candidate genes were identified through quantitative trait loci underlying fruit-specific sucrose and jasmonic acid derivatives. Finally, in this study, I assessed the genetic framework of fruit metabolic traits with a high level of detail, utilizing the newly created Solanum pennellii (5240) backcrossed introgression lines (n=3000). This investigation resulted in the discovery of promising candidate loci associated with significant fruit quality traits, including those to the abundance of glutamic acid and aspartic acid crucial elements contributing to the development of acidity and flavors.}, language = {en} } @phdthesis{Kersting2024, author = {Kersting, Katerina}, title = {Development of a CRISPR/Cas gene editing technique for the coccolithophore Chrysotila carterae}, school = {Universit{\"a}t Potsdam}, pages = {137}, year = {2024}, language = {en} } @phdthesis{Ketzer2024, author = {Ketzer, Laura}, title = {The impact of stellar activity evolution on atmospheric mass loss of young exoplanets}, doi = {10.25932/publishup-62681}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-626819}, school = {Universit{\"a}t Potsdam}, pages = {x, 208}, year = {2024}, abstract = {The increasing number of known exoplanets raises questions about their demographics and the mechanisms that shape planets into how we observe them today. Young planets in close-in orbits are exposed to harsh environments due to the host star being magnetically highly active, which results in high X-ray and extreme UV fluxes impinging on the planet. Prolonged exposure to this intense photoionizing radiation can cause planetary atmospheres to heat up, expand and escape into space via a hydrodynamic escape process known as photoevaporation. For super-Earth and sub-Neptune-type planets, this can even lead to the complete erosion of their primordial gaseous atmospheres. A factor of interest for this particular mass-loss process is the activity evolution of the host star. Stellar rotation, which drives the dynamo and with it the magnetic activity of a star, changes significantly over the stellar lifetime. This strongly affects the amount of high-energy radiation received by a planet as stars age. At a young age, planets still host warm and extended envelopes, making them particularly susceptible to atmospheric evaporation. Especially in the first gigayear, when X-ray and UV levels can be 100 - 10,000 times higher than for the present-day sun, the characteristics of the host star and the detailed evolution of its high-energy emission are of importance. In this thesis, I study the impact of stellar activity evolution on the high-energy-induced atmospheric mass loss of young exoplanets. The PLATYPOS code was developed as part of this thesis to calculate photoevaporative mass-loss rates over time. The code, which couples parameterized planetary mass-radius relations with an analytical hydrodynamic escape model, was used, together with Chandra and eROSITA X-ray observations, to investigate the future mass loss of the two young multiplanet systems V1298 Tau and K2-198. Further, in a numerical ensemble study, the effect of a realistic spread of activity tracks on the small-planet radius gap was investigated for the first time. The works in this thesis show that for individual systems, in particular if planetary masses are unconstrained, the difference between a young host star following a low-activity track vs. a high-activity one can have major implications: the exact shape of the activity evolution can determine whether a planet can hold on to some of its atmosphere, or completely loses its envelope, leaving only the bare rocky core behind. For an ensemble of simulated planets, an observationally-motivated distribution of activity tracks does not substantially change the final radius distribution at ages of several gigayears. My simulations indicate that the overall shape and slope of the resulting small-planet radius gap is not significantly affected by the spread in stellar activity tracks. However, it can account for a certain scattering or fuzziness observed in and around the radius gap of the observed exoplanet population.}, language = {en} } @phdthesis{Kindermann2024, author = {Kindermann, Liana}, title = {Trees, shrubs, and land-use change}, doi = {10.25932/publishup-64894}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-648943}, school = {Universit{\"a}t Potsdam}, pages = {X, 186}, year = {2024}, abstract = {The global drylands cover nearly half of the terrestrial surface and are home to more than two billion people. In many drylands, ongoing land-use change transforms near-natural savanna vegetation to agricultural land to increase food production. In Southern Africa, these heterogenous savanna ecosystems are also recognized as habitats of many protected animal species, such as elephant, lion and large herds of diverse herbivores, which are of great value for the tourism industry. Here, subsistence farmers and livestock herder communities often live in close proximity to nature conservation areas. Although these land-use transformations are different regarding the future they aspire to, both processes, nature conservation with large herbivores and agricultural intensification, have in common, that they change the vegetation structure of savanna ecosystems, usually leading to destruction of trees, shrubs and the woody biomass they consist of. Such changes in woody vegetation cover and biomass are often regarded as forms of land degradation and forest loss. Global forest conservation approaches and international programs aim to stop degradation processes, also to conserve the carbon bound within wood from volatilization into earth's atmosphere. In search for mitigation options against global climate change savannas are increasingly discussed as potential carbon sinks. Savannas, however, are not forests, in that they are naturally shaped by and adapted to disturbances, such as wildfires and herbivory. Unlike in forests, disturbances are necessary for stable, functioning savanna ecosystems and prevent these ecosystems from forming closed forest stands. Their consequently lower levels of carbon storage in woody vegetation have long been the reason for savannas to be overlooked as a potential carbon sink but recently the question was raised if carbon sequestration programs (such as REDD+) could also be applied to savanna ecosystems. However, heterogenous vegetation structure and chronic disturbances hamper the quantification of carbon stocks in savannas, and current procedures of carbon storage estimation entail high uncertainties due to methodological obstacles. It is therefore challenging to assess how future land-use changes such as agricultural intensification or increasing wildlife densities will impact the carbon storage balance of African drylands. In this thesis, I address the research gap of accurately quantifying carbon storage in vegetation and soils of disturbance-prone savanna ecosystems. I further analyse relevant drivers for both ecosystem compartments and their implications for future carbon storage under land-use change. Moreover, I show that in savannas different carbon storage pools vary in their persistence to disturbance, causing carbon bound in shrub vegetation to be most likely to experience severe losses under land-use change while soil organic carbon stored in subsoils is least likely to be impacted by land-use change in the future. I start with summarizing conventional approaches to carbon storage assessment and where and for which reasons they fail to accurately estimated savanna ecosystem carbon storage. Furthermore, I outline which future-making processes drive land-use change in Southern Africa along two pathways of land-use transformation and how these are likely to influence carbon storage. In the following chapters, I propose a new method of carbon storage estimation which is adapted to the specific conditions of disturbance-prone ecosystems and demonstrate the advantages of this approach in relation to existing forestry methods. Specifically, I highlight sources for previous over- and underestimation of savanna carbon stocks which the proposed methodology resolves. In the following chapters, I apply the new method to analyse impacts of land-use change on carbon storage in woody vegetation in conjunction with the soil compartment. With this interdisciplinary approach, I can demonstrate that indeed both, agricultural intensification and nature conservation with large herbivores, reduce woody carbon storage above- and belowground, but partly sequesters this carbon into the soil organic carbon stock. I then quantify whole-ecosystem carbon storage in different ecosystem compartments (above- and belowground woody carbon in shrubs and trees, respectively, as well as topsoil and subsoil organic carbon) of two savanna vegetation types (scrub savanna and savanna woodland). Moreover, in a space-for-time substitution I analyse how land-use changes impact carbon storage in each compartment and in the whole ecosystem. Carbon storage compartments are found to differ in their persistence to land-use change with carbon bound in shrub biomass being least persistent to future changes and subsoil organic carbon being most stable under changing land-use. I then explore which individual land-use change effects act as drivers of carbon storage through Generalized Additive Models (GAMs) and uncover non-linear effects, especially of elephant browsing, with implications for future carbon storage. In the last chapter, I discuss my findings in the larger context of this thesis and discuss relevant implications for land-use change and future-making decisions in rural Africa.}, language = {en} } @phdthesis{Kiss2024, author = {Kiss, Andrea}, title = {Moss-associated bacterial and archaeal communities of northern peatlands: key taxa, environmental drivers and potential functions}, doi = {10.25932/publishup-63064}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-630641}, school = {Universit{\"a}t Potsdam}, pages = {XX, 139, liv}, year = {2024}, abstract = {Moss-microbe associations are often characterised by syntrophic interactions between the microorganisms and their hosts, but the structure of the microbial consortia and their role in peatland development remain unknown. In order to study microbial communities of dominant peatland mosses, Sphagnum and brown mosses, and the respective environmental drivers, four study sites representing different successional stages of natural northern peatlands were chosen on a large geographical scale: two brown moss-dominated, circumneutral peatlands from the Arctic and two Sphagnum-dominated, acidic peat bogs from subarctic and temperate zones. The family Acetobacteraceae represented the dominant bacterial taxon of Sphagnum mosses from various geographical origins and displayed an integral part of the moss core community. This core community was shared among all investigated bryophytes and consisted of few but highly abundant prokaryotes, of which many appear as endophytes of Sphagnum mosses. Moreover, brown mosses and Sphagnum mosses represent habitats for archaea which were not studied in association with peatland mosses so far. Euryarchaeota that are capable of methane production (methanogens) displayed the majority of the moss-associated archaeal communities. Moss-associated methanogenesis was detected for the first time, but it was mostly negligible under laboratory conditions. Contrarily, substantial moss-associated methane oxidation was measured on both, brown mosses and Sphagnum mosses, supporting that methanotrophic bacteria as part of the moss microbiome may contribute to the reduction of methane emissions from pristine and rewetted peatlands of the northern hemisphere. Among the investigated abiotic and biotic environmental parameters, the peatland type and the host moss taxon were identified to have a major impact on the structure of moss-associated bacterial communities, contrarily to archaeal communities whose structures were similar among the investigated bryophytes. For the first time it was shown that different bog development stages harbour distinct bacterial communities, while at the same time a small core community is shared among all investigated bryophytes independent of geography and peatland type. The present thesis displays the first large-scale, systematic assessment of bacterial and archaeal communities associated both with brown mosses and Sphagnum mosses. It suggests that some host-specific moss taxa have the potential to play a key role in host moss establishment and peatland development.}, language = {en} } @phdthesis{Koyan2024, author = {Koyan, Philipp}, title = {3D attribute analysis and classification to interpret ground-penetrating radar (GPR) data collected across sedimentary environments: Synthetic studies and field examples}, doi = {10.25932/publishup-63948}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-639488}, school = {Universit{\"a}t Potsdam}, pages = {xi, 115, A51}, year = {2024}, abstract = {Die Untersuchung des oberfl{\"a}chennahen Untergrundes erfolgt heutzutage bei Frage- stellungen aus den Bereichen des Bauwesens, der Arch{\"a}ologie oder der Geologie und Hydrologie oft mittels zerst{\"o}rungsfreier beziehungsweise zerst{\"o}rungsarmer Methoden der angewandten Geophysik. Ein Bereich, der eine immer zentralere Rolle in Forschung und Ingenieurwesen einnimmt, ist die Untersuchung von sediment{\"a}ren Umgebungen, zum Beispiel zur Charakterisierung oberfl{\"a}chennaher Grundwassersysteme. Ein in diesem Kontext h{\"a}ufig eingesetztes Verfahren ist das des Georadars (oftmals GPR - aus dem Englischen ground-penetrating radar). Dabei werden kurze elektromagnetische Impulse von einer Antenne in den Untergrund ausgesendet, welche dort wiederum an Kontrasten der elektromagnetischen Eigenschaften (wie zum Beispiel an der Grundwasseroberfl{\"a}che) reflektiert, gebrochen oder gestreut werden. Eine Empfangsantenne zeichnet diese Signale in Form derer Amplituden und Laufzeiten auf. Eine Analyse dieser aufgezeichneten Signale erm{\"o}glicht Aussagen {\"u}ber den Untergrund, beispielsweise {\"u}ber die Tiefenlage der Grundwasseroberfl{\"a}che oder die Lagerung und Charakteristika oberfl{\"a}chennaher Sedimentschichten. Dank des hohen Aufl{\"o}sungsverm{\"o}gens der GPR-Methode sowie stetiger technologischer Entwicklungen erfolgt heutzutage die Aufzeichnung von GPR- Daten immer h{\"a}ufiger in 3D. Trotz des hohen zeitlichen und technischen Aufwandes f{\"u}r die Datenakquisition und -bearbeitung werden die resultierenden 3D-Datens{\"a}tze, welche den Untergrund hochaufl{\"o}send abbilden, typischerweise von Hand interpretiert. Dies ist in der Regel ein {\"a}ußerst zeitaufwendiger Analyseschritt. Daher werden oft repr{\"a}sentative 2D-Schnitte aus dem 3D-Datensatz gew{\"a}hlt, in denen markante Reflektionsstrukuren markiert werden. Aus diesen Strukturen werden dann sich {\"a}hnelnde Bereiche im Untergrund als so genannte Radar-Fazies zusammengefasst. Die anhand von 2D-Schnitten erlangten Resultate werden dann als repr{\"a}sentativ f{\"u}r die gesamte untersuchte Fl{\"a}che angesehen. In dieser Form durchgef{\"u}hrte Interpretationen sind folglich oft unvollst{\"a}ndig sowie zudem in hohem Maße von der Expertise der Interpretierenden abh{\"a}ngig und daher in der Regel nicht reproduzierbar. Eine vielversprechende Alternative beziehungsweise Erg{\"a}nzung zur manuellen In- terpretation ist die Verwendung von so genannten GPR-Attributen. Dabei werden nicht die aufgezeichneten Daten selbst, sondern daraus abgeleitete Gr{\"o}ßen, welche die markanten Reflexionsstrukturen in 3D charakterisieren, zur Interpretation herangezogen. In dieser Arbeit wird anhand verschiedener Feld- und Modelldatens{\"a}tze untersucht, welche Attribute sich daf{\"u}r insbesondere eignen. Zudem zeigt diese Arbeit, wie ausgew{\"a}hlte Attribute mittels spezieller Bearbeitungs- und Klassifizierungsmethoden zur Erstellung von 3D-Faziesmodellen genutzt werden k{\"o}nnen. Dank der M{\"o}glichkeit der Erstellung so genannter attributbasierter 3D-GPR-Faziesmodelle k{\"o}nnen zuk{\"u}nftige Interpretationen zu gewissen Teilen automatisiert und somit effizienter durchgef{\"u}hrt werden. Weiterhin beschreiben die so erhaltenen Resultate den untersuchten Untergrund in reproduzierbarer Art und Weise sowie umf{\"a}nglicher als es bisher mittels manueller Interpretationsmethoden typischerweise m{\"o}glich war.}, language = {en} }