Institut für Physik und Astronomie
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Institute
- Institut für Physik und Astronomie (26) (remove)
Via their powerful radiation, stellar winds, and supernova explosions, massive stars (Mini & 8 M☉) bear a tremendous impact on galactic evolution. It became clear in recent decades that the majority of massive stars reside in binary systems. This thesis sets as a goal to quantify the impact of binarity (i.e., the presence of a companion star) on massive stars. For this purpose, massive binary systems in the Local Group, including OB-type binaries, high mass X-ray binaries (HMXBs), and Wolf-Rayet (WR) binaries, were investigated by means of spectral, orbital, and evolutionary analyses.
The spectral analyses were performed with the non-local thermodynamic equillibrium (non-LTE) Potsdam Wolf-Rayet (PoWR) model atmosphere code. Thanks to critical updates in the calculation of the hydrostatic layers, the code became a state-of-the-art tool applicable for all types of hot massive stars (Chapter 2). The eclipsing OB-type triple system δ Ori served as an intriguing test-case for the new version of the PoWR code, and provided key insights regarding the formation of X-rays in massive stars (Chapter 3). We further analyzed two prototypical HMXBs, Vela X-1 and IGR J17544-2619, and obtained fundamental conclusions regarding the dichotomy of two basic classes of HMXBs (Chapter 4). We performed an exhaustive analysis of the binary R 145 in the Large Magellanic Cloud (LMC), which was claimed to host the most massive stars known. We were able to disentangle the spectrum of the system, and performed an orbital, polarimetric, and spectral analysis, as well as an analysis of the wind-wind collision region. The true masses of the binary components turned out to be significantly lower than suggested, impacting our understanding of the initial mass function and stellar evolution at low metallicity (Chapter 5). Finally, all known WR binaries in the Small Magellanic Cloud (SMC) were analyzed. Although it was theoretical predicted that virtually all WR stars in the SMC should be formed via mass-transfer in binaries, we find that binarity was not important for the formation of the known WR stars in the SMC, implying a strong discrepancy between theory and observations (Chapter 6).
Proteins are molecules that are essential for life and carry out an enormous number of functions in organisms. To this end, they change their conformation and bind to other molecules. However, the interplay between conformational change and binding is not fully understood. In this work, this interplay is investigated with molecular dynamics (MD) simulations of the protein-peptide system Mdm2-PMI and by analysis of data from relaxation experiments.
The central task it to uncover the binding mechanism, which is described by the sequence of (partial) binding events and conformational change events including their probabilities. In the simplest case, the binding mechanism is described by a two-step model: binding followed by conformational change or conformational change followed by binding. In the general case, longer sequences with multiple conformational changes and partial binding events are possible as well as parallel pathways that differ in their sequences of events. The theory of Markov state models (MSMs) provides the theoretical framework in which all these cases can be modeled. For this purpose, MSMs are estimated in this work from MD data, and rate equation models, which are related to MSMs, are inferred from experimental relaxation data.
The MD simulation and Markov modeling of the PMI-Mdm2 system shows that PMI and Mdm2 can bind via multiple pathways. A main result of this work is a dissociation rate on the order of one event per second, which was calculated using Markov modeling and is in agreement with experiment. So far, dissociation rates and transition rates of this magnitude have only been calculated with methods that speed up transitions by acting with time-dependent, external forces on the binding partners. The simulation technique developed in this work, in contrast, allows the estimation of dissociation rates from the combination of free energy calculation and direct MD simulation of the fast binding process. Two new statistical estimators TRAM and TRAMMBAR are developed to estimate a MSM from the joint data of both simulation types.
In addition, a new analysis technique for time-series data from chemical relaxation experiments is developed in this work. It allows to identify one of the above-mentioned two-step mechanisms as the mechanism that underlays the data. The new method is valid for a broader range of concentrations than previous methods and therefore allows to choose the concentrations such that the mechanism can be uniquely identified. It is successfully tested with data for the binding of recoverin to a rhodopsin kinase peptide.
Die Arktis erwärmt sich schneller als der Rest der Erde. Die Auswirkungen manifestieren sich unter Anderem in einer verstärkten Erwärmung der arktischen Grenzschicht. Diese Arbeit befasst sich mit Wechselwirkungen zwischen synoptischen Zyklonen und der arktischen Atmosphäre auf lokalen bis überregionalen Skalen. Ausgangspunkt dafür sind Messdaten und Modellsimulationen für den Zeitraum der N-ICE2015 Expedition, die von Anfang Januar bis Ende Juni 2015 im arktischen Nordatlantiksektor stattgefunden hat.
Anhand von Radiosondenmessungen lassen sich Auswirkungen von synoptischen Zyklonen am deutlichsten im Winter erkennen, da sie durch die Advektion warmer und feuchter Luftmassen in die Arktis den Zustand der Atmosphäre von einem strahlungs-klaren in einen strahlungs-opaken ändern. Obwohl dieser scharfe Kontrast nur im Winter existiert, zeigt die Analyse, dass der integrierte Wasserdampf als Indikator für die Advektion von Luftmassen aus niedrigen Breiten in die Arktis auch im Frühjahr geeignet ist. Neben der Advektion von Luftmassen wird der Einfluss der Zyklonen auf die statische Stabilität charakterisiert. Beim Vergleich der N-ICE2015 Beobachtungen mit der SHEBA Kampagne (1997/1998), die über dickerem Eis stattfand, finden sich trotz der unterschiedlichen Meereisregime Ähnlichkeiten in der statischen Stabilität der Atmosphäre. Die beobachteten Differenzen in der Stabilität lassen sich auf Unterschiede in der synoptischen Aktivität zurückführen. Dies lässt vermuten, dass die dünnere Eisdecke auf saisonalen Zeitskalen nur einen geringen Einfluss auf die thermodynamische Struktur der arktischen Troposphäre besitzt, solange eine dicke Schneeschicht sie bedeckt. Ein weiterer Vergleich mit den parallel zur N-ICE2015 Kampagne gestarteten Radiosonden der AWIPEV Station in Ny-Åesund, Spitzbergen, macht deutlich, dass die synoptischen Zyklonen oberhalb der Orographie auf saisonalen Zeitskalen das Wettergeschehen bestimmen.
Des Weiteren werden für Februar 2015 die Auswirkungen von in der Vertikalen variiertem Nudging auf die Entwicklung der Zyklonen am Beispiel des hydrostatischen regionalen Klimamodells HIRHAM5 untersucht. Es zeigt sich, dass die Unterschiede zwischen den acht Modellsimulationen mit abnehmender Anzahl der genudgten Level zunehmen. Die größten Differenzen resultieren vornehmlich aus dem zeitlichen Versatz der Entwicklung synoptischer Zyklonen. Zur Korrektur des Zeitversatzes der Zykloneninitiierung genügt es bereits, Nudging in den unterstem 250 m der Troposphäre anzuwenden. Daneben findet sich zwischen den genudgten HIRHAM5-Simulation und den in situ Messungen der gleiche positive Temperaturbias, den auch ERA-Interim besitzt. Das freie HIRHAM hingegen reproduziert das positive Ende der N-ICE2015 Temperaturverteilung gut, besitzt aber einen starken negativen Bias, der sehr wahrscheinlich aus einer Unterschätzung des Feuchtegehalts resultiert. An Beispiel einer Zyklone wird gezeigt, dass Nudging Einfluss auf die Lage der Höhentiefs besitzt, die ihrerseits die Zyklonenentwicklung am Boden beeinflussen. Im Weiteren wird mittels eines für kleine Ensemblegrößen geeigneten Varianzmaßes eine statistische Einschätzung der Wirkung des Nudgings auf die Vertikale getroffen. Es wird festgestellt, dass die Ähnlichkeit der Modellsimulationen in der unteren Troposphäre generell höher ist als darüber und in 500 hPa ein lokales Minimum besitzt.
Im letzten Teil der Analyse wird die Wechselwirkung der oberen und unteren Stratosphäre anhand zuvor betrachteter Zyklonen mit Daten der ERA-Interim Reanalyse untersucht. Lage und Ausrichtung des Polarwirbels erzeugten ab Anfang Februar 2015 eine ungewöhnlich große Meridionalkomponente des Tropopausenjets, die Zugbahnen in die zentrale Arktis begünstigte. Am Beispiel einer Zyklone wird die Übereinstimmung der synoptischen Entwicklung mit den theoretischen Annahmen über den abwärts gerichteten Einfluss der Stratosphäre auf die Troposphäre hervorgehoben. Dabei spielt die nicht-lineare Wechselwirkung zwischen der Orographie Grönlands, einer Intrusion stratosphärischer Luft in die Troposphäre sowie einer in Richtung Arktis propagierender Rossby-Welle eine tragende Rolle. Als Indikator dieser Wechselwirkung werden horizontale Signaturen aus abwechselnd aufsteigender und absinkender Luft innerhalb der Troposphäre identifiziert.
Magnetotactic bacteria possess an intracellular structure called the magnetosome chain. Magnetosome chains contain nano−particles of iron crystals enclosed by a membrane and aligned on a cytoskeletal filament. Due to the presence of the magnetosome chains, magnetotactic bacteria are able to orient and swim along the magnetic field lines. A detailed study of structural properties of magnetosome chains in magnetotactic bacteria has primary scientific interests. It can provide more insight into the formation of the cytoskeleton in bacteria. In this thesis, we develop a new framework to study the structural properties of magnetosome chains in magnetotactic bacteria.
First, we address the bending stiffness of magnetosome chains resulting from two main contributions: the magnetic interactions of magnetosome particles and the bending stiffness of the cytoskeletal filament to which the magnetosomes are anchored. Our analysis indicates that the linear configuration of magnetosome particles without the stabilisation to the cytoskeleton may close to ring like structures, with no net magnetic moment, which thus can not perform as a compass in cellular navigation. As a result we think that one of the roles of the filament is to stabilize the linear configuration against ring closure.
We then investigate the equilibrium configurations of magnetosome particles including linear chain and closed−ring structures. We notably observe that for the formation of a stable linear structure on the cytoskeletal filament, presence of a binding energy is needed. In the presence of external stimuli the stability of the magnetosome chain is due to the internal dipole−dipole interactions, the stiffness and the binding energy of the protein structure connecting the magnetosome particles to the filament. Our observations, during and after the treatment of the magnetosome chain with the external magnetic field substantiates the stabilisation of magnetosome chains to the cytoskeletal filament by proteinous linkers and the dynamic feature of these structures.
Finally, we employ our model to study the FMR spectra of magnetosome chains in a single cell of magnetotactic bacteria. We explore the effect of magnetocrystalline anisotropy in three-fold symmetry observed in FMR spectra and the peculiarity of different spectra arisen from different mutants of these bacteria.
Shape change is a fundamental process occurring in biological tissues during embryonic development and regeneration of tissues and organs. This process is regulated by cells that are constrained within a complex environment of biochemical and physical cues. The spatial constraint due to geometry has a determining role on tissue mechanics and the spatial distribution of force patterns that, in turn, influences the organization of the tissue structure. An understanding of the underlying principles of tissue organization may have wide consequences for the understanding of healing processes and the development of organs and, as such, is of fundamental interest for the tissue engineering community.
This thesis aims to further our understanding of how the collective behaviour of cells is influenced by the 3D geometry of the environment. Previous research studying the role of geometry on tissue growth has mainly focused either on flat surfaces or on substrates where at least one of the principal curvatures is zero. In the present work, tissue growth from MC3T3-E1 pre-osteoblasts was investigated on surfaces of controlled mean curvature.
One key aspect of this thesis was the development of substrates of controlled mean curvature and their visualization in 3D. It was demonstrated that substrates of controlled mean curvature suitable for cell culture can be fabricated using liquid polymers and surface tension effects.
Using these substrates, it was shown that the mean surface curvature has a strong impact on the rate of tissue growth and on the organization of the tissue structure. It was thereby not only demonstrated that the amount of tissue produced (i.e. growth rates) by the cells depends on the mean curvature of the substrate but also that the tissue surface behaves like a viscous fluid with an equilibrium shape governed by the Laplace-Young-law. It was observed that more tissue was formed on highly concave surfaces compared to flat or convex surfaces.
Motivated by these observations, an analytical model was developed, where the rate of tissue growth is a function of the mean curvature, which could successfully describe the growth kinetics. This model was also able to reproduce the growth kinetics of previous experiments where tissues have been cultured in straight-sided prismatic pores.
A second part of this thesis focuses on the tissue structure, which influences the mechanical properties of the mature bone tissue. Since the extracellular matrix is produced by the cells, the cell orientation has a strong impact on the direction of the tissue fibres. In addition, it was recently shown that some cell types exhibit collective alignment similar to liquid crystals.
Based on this observation, a computational model of self-propelled active particles was developed to explore in an abstract manner how the collective behaviour of cells is influenced by 3D curvature. It was demonstrated that the 3D curvature has a strong impact on the self-organization of active particles and gives, therefore, first insights into the principles of self-organization of cells on curved surfaces.