Refine
Year of publication
- 2019 (15) (remove)
Document Type
- Doctoral Thesis (15) (remove)
Language
- English (15) (remove)
Keywords
- Calcium (1)
- Densimetric Measurement (1)
- Dichtemessung (1)
- Dredging (1)
- Ebullition (1)
- Elektronenmikroskopie (1)
- Freeze Coring (1)
- GRAF1 (1)
- Gas storage capacity (1)
- Gefrierkernverfahren (1)
- Kryo (1)
- Lake Kinneret (1)
- Minimalschnitt (1)
- Nanoröhren (1)
- Nassbaggerung (1)
- Nützlinge (1)
- Oligomer (1)
- Parteienkommunikation (1)
- Proteinstrukturanalyse (1)
- Reservoir Sedimentation (1)
- Schädlingskontrolle (1)
- Sediment (1)
- Stauseeverlandung (1)
- Wahlen zum europäischen Parlament (EU-Wahlen) (1)
- Weinbau (1)
- beneficial insects (1)
- biocide (1)
- chironomids (1)
- decision support tool (1)
- ecotoxicity (1)
- environmental risk assessment (1)
- evolution (1)
- fungus resistant grapevine (1)
- groundwater remediation (1)
- long-living systems (1)
- minimal pruning (1)
- model-based (1)
- mosquito control (1)
- non-target effects (1)
- pelzresistente Rebsorten (1)
- periphyton (1)
- pest control (1)
- punishment goals (1)
- security (1)
- software engineering (1)
- student misbehavior (1)
- uptake (1)
- viticulture (1)
Institute
- Fachbereich 7 (4)
- Fachbereich 8 (2)
- Institut für Integrierte Naturwissenschaften, Abt. Biologie (2)
- Institut für Integrierte Naturwissenschaften (1)
- Institut für Integrierte Naturwissenschaften, Abt. Physik (1)
- Institut für Management (1)
- Institut für Softwaretechnik (1)
- Institut für Umweltwissenschaften (1)
- Institut für Wirtschafts- und Verwaltungsinformatik (1)
Engineering criminal agents
(2019)
This PhD thesis with the title "Engineering Criminal Agents" demonstrates the interplay of three different research fields captured in the title: In the centre are Engineering and Simulation, both set in relation with the application field of Criminology - and the social science aspect of the latter. More precisely,
this work intends to show how specific agent-based simulation models can be created using common methods from software engineering.
Agent-based simulation has proven to be a valuable method for social science since decades, and the trend to increasingly complex simulation models is apparent, not at least due to advancing computational and simulation techniques. An important cause of complexity is the inclusion of 'evidence' as basis of simulation models. Evidence can be provided by various stakeholders, reflecting their different viewpoints on the topic to model.
This poses a particular burden by interrelating the two relevant perspectives on the topic of simulation: on the one hand the user of the simulation model who provides the requirements and is interested in the simulation results, on the other hand the developer of the simulation model who has to program a verified and validated formal model. In order to methodically link these two perspectives, substantial efforts in research and development are needed, where this PhD thesis aims to make a contribution.
The practical results - in terms of software - were achieved by using the multi-faceted approach mentioned above: using methods from software engineering, in order to become able to apply methods from computational social sciences, in order to gain insights into social systems, such as in the internal dynamics of criminal networks.
The PhD thesis shows the research involved to create these practical results, and gives technical details and specifications of the developed software.
The frame for research and development to achieve these results was provided mainly by two research projects: OCOPOMO and GLODERS.
Nanotemplates for the combined structural and functional analysis of membrane-associated proteins
(2019)
Plasma membranes are essential for life because they give cells an identity. Plasma membranes are almost impermeable to fluids and substances. Still, transport between inside and outside needs to be possible. An important transport way is endocytosis. This mechanism relies on membrane-associated proteins that sense and induce curvature to the plasma membrane. However, the physics and structural dynamics behind proteins acting on membranes is not well understood. There is a standard method in vitro to investigate membrane-associated proteins sensing spherical geometries: They are incubated on unilamellar vesicles. This procedure allows to analyze these proteins in their bound state. This approach is inappropriate for GRAF1 (GTPase Regulator Associated with Focal Adhesion Kinase-1), a key player in endocytosis because it senses tubular geometries instead. However, GRAF1 extrudes lipid tubes from vesicles that can be analyzed. Still, this is a limited method because these tubes suffer from inhomogeneity and they do not enable the observation of intermediate and lower concentration binding states. To overcome this issue they can be incubated on pre-tubular structures called nanotemplates. There have been studies using carbon nanotubes and Galactosylceramide lipid tubes as nanotemplates. These approaches require complex chemical modifications or expensive components and they are not necessarily flexible. In this work we present a simple and easy new approach to prepare nanotemplates using Folch lipid mixture. We show on the basis of BPG, a truncate of GRAF1, that our nanotemplates are suitable for Cryo-EM and that it is possible to use IHRSR (Iterative Helical Real Space Reconstruction) to analyze the structure of BPG in its bound state. Moreover, the qualification for Cryo-EM allows to use plunge freezing to interrupt the incubation on our nanotemplates abruptly. This enables the analysis of intermediate binding states to understand the binding process.
In this thesis, I present the results of my studies on taxonomy, systematics, and biogeography of Impatiens (Balsaminaceae) in Madagascar and the Comoro islands.
In Chapter 1 I reviewed the literature on taxonomy and classification of Balsaminaceae, on habitat, world distribution, morphology, molecular phylogenetics and infrageneric classification of the genus Impatiens. In Chapters 2-15 (Fischer & Rahelivololona 2002, 2003, 2004, 2007, 2015a, 2015b, 2015c, 2016, Fischer et al. 2004. 2017, 2018a, b submitted, Rahelivololona et al. 2003) I presented the first results of a revision of Balsaminaceae of Madagascar and the Comoro islands including the description of 78 new species. In Chapter 16 (Yuan et al. 2004) we worked on the phylogeny and biogeography of Balsaminaceae inferred from ITS sequences using combined results from molecular phylogenetic and morphological analyses. In Chapter 17 (Rahelivololona et al. 2018) we conducted a phylogeny and assessment of the infrageneric classification of species in the Malagasy Impatiens (Balsaminaceae) with a particular emphasis on taxa collected from Marojejy.
Below I summarise the most important findings of each chapter and provide an outlook for future studies.
How many species of Impatiens occur in Madagascar and the Comoro islands?
To provide additional information on the taxonomic revision of Impatiens in Madagascar and the Comoro islands, the identification of already described species as well as the description of new species was conducted. Based on herbarium specimens from BR, G, K, NEU, P, TAN and on living plants collected during several field trips, 78 new species and 6 nomina nova have been published and another 70 new taxa are already identified. Actually more than 260 species occur in Madagascar and the Comoro islands and all of them are endemic. For each species, a description of the morphology, phenology, ecology and known distribution range was provided. Apart from new taxa, the delimitation of already described species like Impatiens firmula Baker and Impatiens hildebrandtii Baill. could be clarified by studying the types and by observing the variability in the field.
Are the groups of Impatiens in Madagascar monophyletic, and what is the systematic position of Trimorphopetalum?
Yuan & al. (2004) conducted a molecular phylogenetic study to examine the morphological and karyological evolution, and the historical biogeography of the Balsaminaceae family by using nucleotide sequence data of internal transcribed spacer regions of nuclear ribosomal DNA. The results support the monophyly of the Malagasy endemic section Trimorphopetalum and show that the cleistogamous Impatiens inaperta should be included in the sect. Trimorphopetalum which is the most derived within Impatiens. Therefore, the section Preimpatiens proposed by Perrier de la Bâthie (1934) is paraphyletic.
Rahelivololona & al. (2018) provided a phylogenetic study focused on three subdivisions (based on macromorphological characters) proposed by Perrier de la Bâthie (1934). The analysis was done using two nuclear AP3/DEF homologues (ImpDEF1 and ImpDEF2) and the plastid atpB-rbcL spacer to reassess or assess the monophyly of the Malagasy Impatiens, of the sections Preimpatiens (Humblotianae and Vulgare groups) and Trimorphopetalum. A focus was on the species of Impatiens from the Marojejy National Park and of the morphologically variable species I. elatostemmoides, I. “hammarbyoides”, I. inaperta and I. manaharensis, using monophyly as the primary criterion.
As results the Malagasy Impatiens are paraphyletic and the section Preimpatiens sensu Perrier de la Bâthie (1934) (= subgen. Impatiens sensu Fischer & Rahelivololona 2002) was not resolved as a monophyletic group. The section Trimorphopetalum sensu Perrier de la Bâthie (1934) (= subgen. Trimorphopetalum sensu Fischer & Rahelivololona 2002), however, was strongly confirmed as a monophyletic lineage (BS: 92; BPP: 1). Neither the Humblotianae group nor the Vulgare group was supported as monophyletic. None of the morphologically variable species appeared to be monophyletic and the sampled species of Impatiens from the Marojejy National Park do also not form a monophyletic group.
What are the biogeographical position and the distribution patterns of Impatiens in Madagascar and the Comoro islands?
Investigation of the geographical affinities and species distribution of section Impatiens (including Humblotianae group and Vulgare group) and section Trimorphopetalum were conducted and the origin and evolution as well as species richness and endemism were discussed.
The isolation, the climate and the complex topography of Madagascar have generated the microhabitats and ecological niches favourable to the diversification of Impatiens species. Impatiens of Madagascar with 260 endemic species is actually the largest genus in Madagascar. Therefore, Madagascar and the Comoro islands are among the most species-rich regions in the world for Impatiens.
Future studies
In Impatiens on Madagascar, there remain numerous unresolved questions that need to be adressed:
• A further study based on a much larger molecular data set and sampling from the entire geographic ranges of Impatiens in Madagascar is needed to retest the monophyly of the different subgenera and sections, as well as a molecular dating of the Malagasy Impatiens.
• The study of pollinators as a key for understanding the radiation and species richness is required: Within Impatiens the different shapes of spur are related to pollinators (bees, birds, butterflies and moths). Therefore pollinator observation of specific species need to be done to understand the radiation of species by adaptation and coevolution with these pollinators. A pollination study with a large number of species within section Trimorphopetalum will help to understand the mechanism of complete disappearance of the spur, the shift of pollinators and the evolution of species richness.
• The destruction of the natural habitats of Impatiens and the subsequent reduction of humidity in logged area constitute a severe threat for the survival of many species. The conservation and reforestation of vulnerable areas such as Ankaratra, Daraina, Mandraka and Col des Tapia near Antsirabe is required.
• In terms of conservation and to mitigate the threat on the genus, a study on the ex-situ-conservation of Malagasy Impatiens species is very important as long as some species are suitable for horticultural purposes (e.g. Impatiens mayae-valeriae, Impatiens emiliae and species with broad red spur).
• Finally, the publication of the revision of Impatiens of Madagascar and the Comoro islands will help other botanists to identify the species and will thus increase our knowledge on the group.
Lakes and reservoirs are important sources of methane, a potent greenhouse gas. Although freshwaters cover only a small fraction of the global surface, their contribution to global methane emission is significant and this is expected to increase, as a positive feedback to climate warming and exacerbated eutrophication. Yet, global estimates of methane emission from freshwaters are often based on point measurements that are spatio-temporally biased. To better constrain the uncertainties in quantifying methane fluxes from inland waters, a closer examination of the processes transporting methane from sediment to atmosphere is necessary. Among these processes, ebullition (bubbling) is an important transport pathway and is a primary source of uncertainty in quantifying methane emissions from freshwaters. This thesis aims to improve our understanding of ebullition in freshwaters by studying the processes of methane bubble formation, storage and release in aquatic sediments. The laboratory experiments demonstrate that aquatic sediments can store up to ~20% (volumetric content) gas and the storage capacity varies with sediment properties. The methane produced is stored as gas bubbles in sediment with minimal ebullition until the storage capacity is reached. Once the sediment void spaces are created by gas bubble formation, they are stable and available for future bubble storage and transport. Controlled water level drawdown experiments showed that the amounts of gas released from the sediment scaled with the total volume of sediment gas storage and correlated linearly to the drop in hydrostatic pressure. It was hypothesized that not only the timing of ebullition is controlled by sediment gas storage, but also the spatial distribution of ebullition. A newly developed freeze corer, capable of characterizing sediment gas content under in situ environments, enabled the possibility to test the hypothesis in a large subtropical lake (Lake Kinneret, Israel). The results showed that gas content was variable both vertically and horizontally in the lake sediment. Sediment methane production rate and sediment characteristics could explain these variabilities. The spatial distribution of ebullition generally was in a good agreement with the horizontal distribution of depth-averaged (surface 1 m) sediment gas content. While discrepancies were found between sediment depth-integrated methane production and the snapshot ebullition rate, they were consistent in a long term (multiyear average). These findings provide a solid basis for the future development of a process-based ebullition model. By coupling a sediment transport model with a sediment diagenetic model, general patterns of ebullition hotspots can be predicted at a system level and the uncertainties in ebullition flux measurements can be better constrained both on long-term (months to years) and short-term (minutes to hours) scales.
Small headwater streams comprise most of the total channel length and catchment area in fluvial networks. They are tightly connected to their catchments and, thus, are highly vulnerable to changes in catchment hydrologic budgets and land use. Although these small, often fishless streams are of little economic interest, they are vital for the ecological and chemical state of larger water bodies. Although numerous studies investigate the impact of various anthropogenic stressors or altered catchment conditions, we lack an in-depth understanding of the natural conditions and processes in headwater streams. This natural state, however, largely affects how a headwater stream responds to anthropogenic or climatic changes. One of the major threats to aquatic ecosystems is the excessive anthropogenic input of nutrients leading to eutrophication. Nutrients exert a bottom-up effect in the food web, foremost affecting primary producers and their consumers, i.e. periphyton and benthic grazers in headwater streams. The periphyton-grazer link is the main path of autochthonous (in-stream) production into the stream food web and the strength of this link largely determines the effectiveness of this pathway. Therefore, this thesis aims at elucidating important biological processes with the explicit focus on periphyton-grazer interactions. I assessed different aspects of periphyton-grazer interactions using laboratory experiments to solve methodological problems, and using a field study to compare the benthic communities of three morphologically similar, phosphorus-limited, near-natural headwater streams. With the results of the laboratory experiments, I was able to show that periphyton RNA/DNA ratios can be used as proxy for periphyton growth rates in controlled experiments and that the fatty acid composition of grazing mayfly nymphs responds to changes in fatty acids provided by the diet after only two weeks. The use of the RNA/DNA ratio as a proxy for periphyton growth rate allows a comparison of these growth rates even in simple experimental set-ups and thereby permits the inclusion of this important process in ecotoxicological or ecological experiments. The observed fast turnover rates of fatty acids in consumer tissues show that even short-term changes in available primary producers can alter the fatty acid composition of primary consumers with important implications for the supply of higher trophic levels with physiologically important polyunsaturated fatty acids. With the results of the field study, I revealed gaps in the understanding of the linkages between catchment and in-stream phosphorus availability under near-natural conditions and demonstrated that seemingly comparable headwater streams had significantly different benthic communities. These differences most likely affect stream responses to environmental changes.